10-K

UNITED STATES

SECURITIES AND EXCHANGE COMMISSION

Washington, D.C. 20549

FORM 10-K

(Mark One)

þ ANNUAL REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the fiscal year ended June 30, 2012

OR

¨ TRANSITION REPORT PURSUANT TO SECTION 13 OR 15(d) OF THE SECURITIES EXCHANGE ACT OF 1934

For the transition period from  _____  to  _____

Commission file number: 1-10986

MISONIX, INC.

(Exact name of registrant as specified in its charter)

New York	11-2148932
(State or other jurisdiction of incorporation or organization)	(I.R.S. Employer Identification No.)
1938 New Highway, Farmingdale, New York	11735
(Address of principal executive offices)	(Zip Code)

Registrant's telephone number, including area code: (631) 694-9555

Securities registered pursuant to Section 12(b) of the Act:

Title of each class	Name of each exchange on which registered
Common Stock, $.01 par value	Nasdaq Global Market

Securities registered pursuant to Section 12(g) of the Act: None

Indicate by check mark if the registrant is a well-known seasoned issuer, as defined in Rule 405 of the Securities Act. ¨ Yes þ No

Indicate by check mark if the registrant is not required to file reports pursuant to Section 13 or Section 15(d) of the Act. ¨ Yes þ No

Indicate by check mark whether the registrant (1) has filed all reports required to be filed by Section 13 or 15(d) of the Securities Exchange Act of 1934 during the preceding 12 months (or for such shorter period that the registrant was required to file such reports), and (2) has been subject to such filing requirements for the past 90 days. þ Yes ¨ No

Indicate by check mark whether the registrant has submitted electronically and posted on its corporate Web site, if any, every Interactive Data File required to be submitted and posted pursuant to Rule 405 of Regulation S-T (§ 232.405 of this chapter) during the preceding 12 months (or for such shorter period that the registrant was required to submit and post such files). þ Yes ¨ No

Indicate by check mark if disclosure of delinquent filers pursuant to Item 405 of Regulation S-K (§229.405 of this chapter) is not contained herein, and will not be contained, to the best of registrant's knowledge, in definitive proxy or information statements incorporated by reference in Part III of this Form 10-K or any amendment to this Form 10-K. þ

Indicate by check mark whether the registrant is a large accelerated filer, an accelerated filer, a non-accelerated filer, or a smaller reporting company. See the definitions of "large accelerated filer," "accelerated filer" and "smaller reporting company" in Rule 12b-2 of the Exchange Act. (Check one):

Large accelerated filer ¨	Accelerated filer ¨	Non-accelerated filer ¨	Smaller reporting company þ
		(Do not check if a smaller reporting company)

Indicate by check mark whether the registrant is a shell company (as defined in Rule 12b-2 of the Exchange Act). ¨ Yes þ No

The aggregate market value of the voting stock held by non-affiliates of the registrant on December 30, 2011 (computed by reference to the closing price of such stock on such date) was approximately $13,266,226.

There were 7,005,360 shares of Common Stock outstanding at September 20, 2012. 

DOCUMENTS INCORPORATED BY REFERENCE

None

With the exception of historical information contained in this Form 10-K, content herein may contain "forward looking statements" that are made pursuant to the Safe Harbor Provisions of the Private Securities Litigation Reform Act of 1995. These statements are based on management's current expectations and are subject to uncertainty and changes in circumstances. MISONIX, INC. (the “Company”) cannot guarantee that any forward looking statements will be accurate, although the Company believes that is has been reasonable in its expectations and assumptions. Investors should realize that if underlying assumptions prove inaccurate or unknown risks or uncertainties materialize, actual results could vary materially from the Company’s expectations and projections. These factors include general economic conditions, delays and risks associated with the performance of contracts, risks associated with international sales and currency fluctuations, uncertainties as a result of research and development, acceptable results from clinical studies, including publication of results and patient/procedure data with varying levels of statistical relevance, risks involved in introducing and marketing new products, potential acquisitions, consumer and industry acceptance, litigation and/or contemplated 510(k) filings, the ability to achieve and maintain profitability in the Company's business lines, and other factors discussed in this Annual Report on Form 10-K, subsequent Quarterly Reports on Form 10-Q and Current Reports on Form 8-K. The Company disclaims any obligation to update its forward-looking statements.

TABLE OF CONTENTS

PART I		3
Item 1.	Business	3
Item 1A.	Risk Factors	11
Item 1B.	Unresolved Staff Comments	15
Item 2.	Properties	15
Item 3.	Legal Proceedings	15
Item 4.	Mine Safety Disclosures	15
PART II		16
Item 5.	Market for Registrant's Common Equity, Related Stockholder Matters and Issuer Purchases of Equity Securities	16
Item 6.	Selected Financial Data	18
Item 7.	Management's Discussion and Analysis of Financial Condition and Results of Operations	18
Item 7A.	Quantitative and Qualitative Disclosures About Market Risk	23
Item 8.	Financial Statements and Supplemental Data	23
Item 9.	Changes in and Disagreements With Accountants on Accounting and Financial Disclosure	23
Item 9A.	Controls and Procedures	24
Item 9B.	Other Information	24
PART III		25
Item 10.	Directors, Executive Officers and Corporate Governance	25
Item 11.	Executive Compensation	28
Item 12.	Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters	32
Item 13.	Certain Relationships and Related Transactions, and Director Independence	33
Item 14.	Principal Accountant Fees and Services	34
PART IV		35
Item 15.	Exhibits and Financial Statement Schedules	35
SIGNATURES		37

2

PART I

Item 1. Business.

Overview

MISONIX, INC. ("Misonix" or the "Company") is a New York corporation which, through its predecessors, was first organized in 1959. The Company designs, manufactures, develops and markets minimally invasive ultrasonic surgical device products. These products include the BoneScalpelTM cutting system(“BoneScalpel”) which is used among other things for surgical procedures of the spine and on maxillofacial procedures, the SonaStar® Surgical Aspirator (“SonaStar”) which is used to emulsify and remove soft and hard tumors, the SonicOne® Wound Cleansing and Debridement System (“SonicOne”) that offers tissue specific debridement and cleansing of wounds for effective removal of devitalized tissue and fibrin deposits while sparing viable cells, and the AutoSonix ultrasound cutting and coagulating system (“AutoSonix”) which is distributed and marketed for Misonix through an agreement with Covidien Ltd. Misonix also markets its Lysonix ultrasound assisted liposuction device (“Lysonix”) through Mentor Corporation, a subsidiary of Johnson & Johnson (“Mentor”).

The Company's 100% owned subsidiary, Hearing Innovations, Inc. ("Hearing Innovations"), is a development company with patented HiSonic ultrasonic technology for the treatment of profound deafness and tinnitus.

In fiscal 2012, approximately 41% of the Company's net sales were to foreign markets. These sales had credit risks as some large distributor sales were not secured by letters of credit, but given credit terms, after analysis on open account. Some open account sales require a 50% down payment which generally covers the cost of the equipment. Foreign country sales on open credit terms do not exceed sixty days. Distributors that are not given credit terms either pay in advance or have letters of credit securing the sales. All foreign sales are remitted to Misonix in U.S. currency.

Discontinued Operations

Laboratory and Forensic Safety Products Business

On October 19, 2011, Misonix sold its Laboratory and Forensic Safety Products business, which comprised substantially all of the Laboratory and Scientific products segment, to Mystaire, Inc. (“Mystaire”) for $1.5 million in cash plus a potential additional payment of up to an aggregate $500,000 based upon 30% of net sales in excess of $2.0 million for each of the three years following the closing (the “earn-out”). The Laboratory and Forensic Safety Products business manufactured and marketed ductless fume, laminar airflow and polymerase chain reaction workstations both domestically and internationally with revenues for fiscal 2011 of approximately $2.1 million.

In accordance with the Asset Purchase Agreement with Mystaire, Misonix retained among other items, the existing accounts receivable, inventory, accounts payable and accrued expenses of the Laboratory and Forensic Safety Products business. After considering the proceeds received of $1,500,000 in cash, professional fees of $25,000 in connection with the sale and the net book value of the assets sold of $24,000, which was comprised primarily of property and equipment, Misonix reported a gain on sale of $1,451,000 and recorded income taxes of $242,000 on the gain during the fiscal year ended June 30, 2012. The earn-out will not be factored into the gain on sale until it is earned by Misonix.

In accordance with the terms of the Transition and Manufacturing Services Agreement with Mystaire, which was entered into as part of the sale, Misonix continued for a period of six weeks to manufacture and deliver products for orders received prior to the closing date as well as to provide product to Mystaire as transition inventory, which transition period was completed on November 30, 2011.

The results of operations of the Laboratory and Forensic Safety Products business will be presented as discontinued operations for all periods presented as Misonix does not have any significant cash flow or continuing involvement in this business. Following the sale of the Laboratory and Forensic Safety Products business, the Company operates in one reportable segment, Medical Devices.

Labcaire Systems

On August 4, 2009, the Company sold its Labcaire Systems, Ltd. ("Labcaire") subsidiary to PuriCore International Limited ("PuriCore Limited") for a total purchase price of up to $5.6 million. The Company received $3.6 million at closing and a promissory note in the principal amount of $1 million, payable in equal installments of $250,000 on the next four anniversaries of the closing. During the year ended June 30, 2011, the Company received the first installment. The note receivable was discounted over the four years using a 4% imputed interest rate. This rate was consistent with published discounts. The discounted value of the note ($900,000) was used to determine gain or loss on the sale and the remaining outstanding balance is included in other assets in the consolidated balance sheet, with the current portion reflected as a component of notes receivable. The Company was also to receive a commission paid on sales for the period commencing on the date of closing and ending on December 31, 2013 of 8% of the pass through Automated Endoscope Reprocessing ("AER") and Drying Cabinet products, and 5% of license fees from any chemical licenses marketed by Labcaire directly associated with sale of AERs, specifically for the disinfection of the endoscope. The aggregate commission payable to the Company was also to be subject to a maximum payment of $1 million. The aggregate commission was not recognized in determining the gain or loss on the sale of Labcaire until the commission was to be paid. As of June 30, 2011, there were no commissions paid. For the year ended June 30, 2010, the Company recorded a pre-tax loss on the sale of Labcaire of $295,879. Results of Labcaire operations have been reported as a discontinued operation for all periods presented.

In January 2011, PuriCore Limited initiated a lawsuit against the Company in the High Court of Justice, Queens Bench Division, Commercial Court, Royal Courts of Justice, London, England (Claim No. 2011-42) (the "Lawsuit"). In the Lawsuit, PuriCore Limited claimed damages from the Company in respect of breach of warranties contained in the Stock Purchase Agreement, dated August 4, 2009 (the "SPA"), pursuant to which the Company sold Labcaire to PuriCore Limited. PuriCore Limited claimed damages of £2,167,000 or approximately $3,600,000, plus interest and its legal costs. The Company denied the allegations contained in the Lawsuit.

On July 19, 2011, PuriCore Limited and the Company reached an agreement to settle the Lawsuit (the "Settlement"). The Settlement provides that the Company (i) forgive in full PuriCore Limited and PuriCore plc's obligation under the SPA to pay up to $1 million of the previously unrecorded, contingent commissions (as described above); (ii) pay PuriCore, Inc. ("PuriCore"), an affiliate of PuriCore Limited, $650,000 towards PuriCore Limited's legal costs which had been accrued for as of June 30, 2011 and recorded as a component of loss from discontinued operations for the year ended June 30, 2011 and (iii) enter into a Product License and Distribution Agreement, dated as of July 19, 2011, with PuriCore (the "Distribution Agreement").

3

Pursuant to the Distribution Agreement, the Company has been granted the right to distribute PuriCore's Vashe^®solution products in the United States, on a private label basis, as an antibacterial, microbial irrigating solution for the treatment of human wound care in conjunction with therapeutic ultrasonic procedures (the "Field"). PuriCore has agreed, subject to modification, not to sell the products that are the subject of the Distribution Agreement (the "Licensed Products") to any other therapeutic ultrasound company for distribution in the Field in the United States ("Exclusivity"). The Company has agreed not to sell or distribute in the United States in the Field any irrigating solution that has anti-microbial properties otherthan the Licensed Products so long as the Company has Exclusivity.

The Distribution Agreement is for a three (3) year term with automatic renewals for successive two (2) year periods; provided that the Company and PuriCore have agreed upon sales volume targets for each renewal period (such volume targets not to increase by more than ten (10%) percent year over year unless otherwise agreed) and provided that the cost terms shall be no less favorable than the twelve (12) months leading up to the start of such renewal period. In no event will the Distribution Agreement survive beyond the expiration or invalidation of all of PuriCore's patents.

During the initial three year term of the Distribution Agreement, the Company is obligated to either purchase or pay a minimum of $2 million in gross margin value to PuriCore for the Licensed Products (the "Minimum Payment"). The Minimum Payment is subject to downward adjustment and elimination in the event that (i) PuriCore chooses to eliminate Exclusivity, (ii) the Company's right to manufacture the Licensed Products under certain conditions has been triggered but the Company is unable to manufacture the Licensed Products or to have the Licensed Products manufactured for it by third parties or (iii) the U.S. Food and Drug Administration (“FDA”) has made a final determination that prohibits the sale of the licensed products for use in the Field. As of June 30, 2012, Misonix has incurred approximately $321,750 towards the Minimum Payment, leaving a Minimum Payment balance of $1,678,250. At the start of fiscal 2012, the discounted value of the note was $650,000. During fiscal 2012, Misonix has purchased $451,883 of Licensed Products from Puricore, which has been offset against the note, leaving a note receivable balance of $298,117.

The Company has the right to manufacture the Licensed Products if PuriCore is unable to meet certain performance standards and will pay PuriCore a royalty after the $2 million in gross margin value requirement has been satisfied if the Company is then manufacturing the Licensed Products.

During a renewal period, PuriCore may terminate the Distribution Agreement (i) if the Company fails to purchase the agreed upon volume target for such renewal period and does not cure such failure in accordance with the Distribution Agreement or (ii) upon twelve (12) months’ notice.

High Intensity Focused Ultrasound Technology

In consideration for the sale of its rights to the High Intensity Focused Ultrasound (“HIFU”) technology to USHIFU, LLC (“USHIFU”) in May 2010, Misonix will receive up to approximately $5.8 million, paid out of an earn-out of 7% of gross revenues received by USHIFU related to the business being sold up to the time the Company has received the first $3 million and thereafter 5% of the gross revenues up to the $5.8 million. Commencing 90 days after each December 31^st and beginning December 31, 2011, the payments will be the greater of (a) $250,000 or (b) 7% of gross revenues received up to the time the Company has received the first $3 million and thereafter 5% of gross revenues up to the $5.8 million.During the three months ended June 30, 2012, the Company received $254,788 related to an earn-out from the sale, which has been recorded as a component of gain on the sale of discontinued operations during the period.

Medical Devices

On June 1, 2011, Misonix entered a new five-year exclusive U.S. distribution agreement with Anika Therapeutics S.r.l., a wholly owned subsidiary of Anika Therapeutics, Inc. (NASDAQ: ANIK), a leader in products for tissue protection, healing, and repair. Misonix will sell and distribute Anika's Hyalomatrix® product, a skin substitute based on hyaluronic acid technology. Hyalomatrix is indicated for treatment of a wide range of acute and chronic wounds and will be a companion product for the SonicOne.

Anika will manufacture and supply finished product to Misonix, while Misonix will be responsible for all aspects of commercialization in the United States. A recognized leader in advanced ultrasonic wound management, Misonix has U.S. sales and marketing organizations for both the surgery and clinic settings, where acute and chronic wounds are treated.

4

On July 19, 2011, Misonix and PuriCore entered into the Distribution Agreement whereby Misonix will distribute, on a limited exclusive basis with respect to other therapeutic ultrasound companies in the United States, a private label version of PuriCore's Vashe wound therapy product trademarked as SOMA, which is a solution intended for cleansing, irrigating, moistening, and debriding acute and chronic dermal lesions. Use of the new product will be emphasized in conjunction with clinical procedures performed with Misonix ultrasonic systems and gives surgeons and clinicians an expanding line of products for treating wounds. The Distribution Agreement is for three years with a two year extension contingent on meeting certain goals. As part of this Distribution Agreement, Misonix has the obligation over a three year period to either purchase or pay a minimum of $2 million in gross margin value to PuriCore. See “Discontinued Operations – Labcaire Systems”.

In October 1996, the Company entered into a twenty-year license agreement (the "Covidien License") with Covidien Ltd. The Covidien License covers the further development of the Company's medical technology relating to ultrasonic cutting, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery. The Covidien License gives Covidien exclusive worldwide marketing and sales rights for this technology and device. Total sales of this device were approximately $1,484,000 and $3,260,000 for the fiscal years ended June 30, 2012 and 2011, respectively. Total royalties from sales of this device were approximately $488,000 and $550,000 for the fiscal years ended June 30, 2012 and 2011, respectively.

The Company is currently negotiating a new distribution agreement with Mentor for the sale, marketing and distribution of the Lysonix soft tissue aspirator used for cosmetic surgery. Total sales of this device were approximately $1,492,000 and $900,000 for the fiscal years ended June 30, 2012 and 2011, respectively.

Market and Customers

The Company relies on its licensee, Covidien, for marketing the AutoSonix product. The Company relies on Mentor, Aesculap, Inc. (“Aesculap”), independent sales agents, and other regional distributors for marketing the SonaStar and BoneScalpel, and the Lysonix products, exclusively in the United States. The Company sells its SonicOne Wound Cleansing and Debridement System for certain other applications through direct sales persons and sales agents throughout the United States. All products are sold through distributors or representatives outside the United States.

5

In September 2007, the Company completed an agreement with Mentor for domestic sales of its ultrasound assisted liposuction product, the Lysonix. Mentor agreed to minimum purchase order provisions for the Lysonix for a one year term commencing September 30, 2007, and successive annual renewals upon mutual agreement by the companies. The agreement with Mentor for the Lysonix in the United States is in the process of being negotiated for renewal.

Manufacturing and Supply

The Company manufactures and assembles its medical device products at its production facility located in Farmingdale, New York. The Company's products include components manufactured by other companies in the United States. The Company is not dependent upon any single source of supply and has no long-term supply agreements. The Company believes that it will not encounter difficulty in obtaining materials, supplies and components adequate for its anticipated short-term needs.

Competition

Competition in the medical device products industry is rigorous with many companies having significant capital resources, large research laboratories and extensive distribution systems in excess of the Company's. Some of the Company's major competitors are Johnson & Johnson, Valley Lab, a division of Tyco Healthcare, Integra Life Sciences, Inc., Sööring, and Stryker.

6

Regulatory Requirements

The Company's medical device products are subject to the regulatory requirements of the FDA. A medical device as defined by the FDA is an instrument, apparatus, implement, machine, contrivance, implant, in vitro reagent, or other similar or related article, including a component, part, or accessory which is recognized in the official National Formulary or the United States Pharmacopoeia, or any supplement to such listings, intended for use in the diagnosis of disease or other conditions, or in the cure, mitigation, treatment, or prevention of disease, in man or animals, or intended to affect the structure or any function of the body of man or animals, and which does not achieve any of its primary intended purposes through chemical action within or on the body of man or animals and which is not dependent upon being metabolized for the achievement of any of its primary intended purposes (a "medical device"). The Company's products that are subject to FDA regulations for product labeling and promotion comply with all applicable regulations. The Company is listed with the FDA as a medical device manufacturer and has the appropriate FDA Establishment Numbers in place. The Company has a post-market monitoring system in place such as Complaint Handling and Medical Device Reporting procedures. All current devices manufactured and sold by the Company have all the necessary regulatory approvals. The Company is not aware of any situations which would be materially adverse at this time and neither has the FDA sought legal remedies available, nor have there been any violations of its regulations alleged, against the Company at present.

Patents, Trademarks, Trade Secrets and Licenses

The following is a list of the U.S. patents which have been issued to the Company:

Number			Description	Issue Date	Expiration Date
	5,306,261		Guidewire guides — relating to the Company's Alliger System for a catheter with collapsible wire guide.	04/26/1994	01/22/2013
	5,443,456		Guidewire guides — relating to the Company's Alliger System for a catheter with collapsible wire guide.	08/22/1995	02/10/2014
	5,371,429	*	Flow-thru transducer — relating to the Company's liposuction system and its ultrasonic laboratory and scientific products for an electromechanical transducer device.	12/06/1994	09/28/2013
	5,397,293		Catheter sheath — relating to the Company's Alliger System for an ultrasonic device with sheath and transverse motion damping.	03/14/1995	11/25/2012
	5,419,761	*	Liposuction — relating to the Company's liposuction apparatus and associated method.	05/30/1995	08/03/2013
	D409,746		Cannula for ultrasonic probe.	05/11/1999	05/11/2013
	D408,529		Cannula for ultrasonic probe.	04/20/1989	04/20/2013
	D478,165		Cannula for ultrasonic probe.	08/05/2003	08/05/2017
	5,465,468		Flow-thru transducer — relating to the method of making an electromechanical transducer device to be used in conjunction with the Company's soft tissue aspiration system and ultrasonic laboratory and scientific products.	11/14/1995	12/06/2014
	5,527,273	*	Ultrasonic probes — relating to an ultrasonic lipectomy probe to be used with the Company's soft tissue aspiration technology.	06/18/1996	10/06/2014
	5,769,211		Autoclavable switch — relating to a medical handpiece with autoclavable rotary switch to be used in medical procedures.	06/23/1998	01/21/2017
	5,562,609		Ultrasonic surgical probe.	10/08/1996	10/07/2014
	5,562,610		Needle for ultrasonic surgical probe.	10/08/1996	10/07/2014
	6,033,375		Ultrasonic probe with isolated and Teflon coated outer cannula.	03/07/2000	12/23/2017
	6,270,471		Ultrasonic probe with isolated outer cannula.	08/07/2001	12/23/2017
	6,443,969		Ultrasonic blade with cooling.	09/03/2002	08/15/2020
	6,379,371		Ultrasonic blade with cooling.	04/30/2002	11/15/2019

7

Number			Description	Issue Date	Expiration Date
	6,375,648		Infiltration cannula with Teflon coated outer surface.	04/23/2002	10/02/2018
	6,063,050		Ultrasonic dissection and coagulation system.	05/16/2000	10/16/2017
	6,036,667		Ultrasonic dissection and coagulation system.	03/14/2000	08/14/2017
	6,582,440		Non-clogging catheter for lithotripsy.	06/24/2003	12/26/2016
	6,454,730		Thermal film ultrasonic dose indicator.	09/24/2002	04/02/2019
	6,613,056		Ultrasonic probe with low-friction bushings.	09/02/2003	02/17/2019
	6,648,839		Ultrasonic medical treatment device for RF cauterization and related method.	11/18/2003	05/08/2022
	6,736,814		Ultrasonic medical treatment device for bipolar RF cauterization and related method.	05/18/2004	02/28/2022
	6,799,729		Ultrasonic cleaning and atomizing probe.	10/05/2004	10/05/2021
	6,869,439		Ultrasonic dissector.	03/22/2005	03/22/2022
	6,902,536		RF cauterization and ultrasonic ablation.	06/07/2005	06/07/2022
	6,377,693	**	Tinnitus masking using ultrasonic signals.	06/23/1994	06/23/2014
	6,173,062	**	Frequency transpositional hearing aid with digital and single sideband modulation.	03/16/1994	03/16/2014
	6,169,813	**	Frequency transpositional hearing aid with single sideband modulation.	03/16/1994	03/16/2014
	5,663,727	**	Frequency response analyzer and shaping apparatus and digital hearing enhancement apparatus and method utilizing the same.	06/23/1995	06/23/2015
	7,442,168		High efficiency medical transducer with ergonomic shape and method manufacture.	10/28/2008	04/01/2023
	7,223,267		Ultrasonic probe with detachable slidable cauterization forceps.	02/06/2004	02/06/2024
	7,717,913		Cauterization and ultrasonic ablation instrument with multi hole collar and electrode MTG sleeve.	05/18/2010	11/04/2024
	7,776,027		Medical handpiece with automatic power switching means.	08/17/2010	07/11/2022
	6,492,762		Ultrasonic transducer, transducer arrayand fabrication method.	12/10/2002	03/22/2020
	6,787,974		Ultrasound transducer unit and planar ultrasound lens.	09/7/2004	11/21/2021
	6,461,314		Intrabody HIFU applicator.	10/8/2002	02/2/2020
	D627,463		Ultrasonic wound treatment probe.	01/27/2010	11/24/2024
	7,931,611		Ultrasonic wound debriderprobe and method of use.	03/23/2005	10/15/2027
	D627,463		Ultrasonic wound treatment probe.	08/30/2011	08/30/2025
	8,025,672		Ultrasonic wound treatment method and apparatus.	09/27/2011	08/29/2026
	8,109,925		Treatment of breast disease with vibrating device.	02/7/2012	05/25/2027

* Patents valid also in Japan, Europe and Canada.

** Owned by Hearing Innovations, Inc.

8

The following is a list of the U.S. trademarks which have been issued to the Company:

Registration		Registration
Number		Date	Mark	Goods	Renewal Date
	1,219,008	12/07/1982	Sonimist	Ultrasonic and sonic spray nozzle for vaporizing fluid for commercial, industrial and laboratory use.	03/22/2013
	2,812,718	02/10/2004	Misonix	Ultrasonic medical devices, namely, ultrasonic surgical aspirators, ultrasonic lithotripters, ultrasonic phacoemulsifiers.	02/10/2014
	3,373,435	01/22/2008	SonicOne	Ultrasonic surgical systems.	01/22/2018
	3,583,091	03/03/2009	Osteosculpt	Surgical devices and instruments, namely, ultrasonic cutters and ablators.	03/03/2019
	3,775,329	04/13/2010	Sonastar	Ultrasonic medical devices namely ultrasonic surgical aspirators, ultrasonic scalpels and ultrasonic bone shavers.	04/13/2020
	1,195,570	07/14/2002	Astrason	Portable ultrasonic cleaners featuring microscopic shock waves.	07/14/2012
	1,219,008	12/07/1982	Sonimist	Ultrasonic and sonic spray nozzle for vaporizing fluid for commercial, industrial and laboratory use.	03/22/2013

9

Backlog

As of June 30, 2012, the Company's backlog (firm orders that have not yet been shipped) was $2,028,820, as compared to $2,094,171 as of June 30, 2011.

Employees

As of June 30, 2012, the Company employed a total of 69 full-time employees, including 20 in management and supervisory positions. The Company considers its relationship with its employees to be good.

10

The following table provides a breakdown of foreign sales by geographic area during the periods indicated:

	Twelve months ended June 30,
	2012		2011
United States	$	9,297,719	$	8,329,323
Australia		238,926		234,181
Europe		2,495,582		1,668,493
Asia		1,430,708		220,797
Canada and Mexico		499,162		228,704
South America		775,309		687,321
South Africa		425,084		564,286
Middle East		515,510		266,556
Other		-		173,368
	$	15,678,000	$	12,373,029

Website Access Disclosure

The Company's annual reports on Form 10-K, quarterly reports on Form 10-Q and current reports on Form 8-K are available free of charge on the Company's website at www.misonix.com as soon as reasonably practicable after such material is electronically filed with or furnished to the Securities and Exchange Commission (“SEC”).

Also, copies of the Company's annual report will be made available, free of charge, upon written request.

Item 1A. Risk Factors.

In addition to the other information contained in this Annual Report on Form 10-K and the exhibits hereto, the following risk factors should be considered carefully in evaluating our business. Our business, financial condition or results of operations could be materially adversely affected by any of these risks. This section contains forward-looking statements. You should refer to the explanation of the qualifications and limitations on forward-looking statements set forth immediately prior to the beginning of Item 1 of this Annual Report on Form 10-K. Additional risks not presently known to us or that we currently deem immaterial may also adversely affect our business, financial condition or results of operations. The following list sets forth many, but not all, of the factors that could impact upon the Company’s ability to achieve results discussed in any forward leading statement. Investors should understand that it is not possible to predict or identify all such factors and should not consider this list to be a complete statement of all potential risks and uncertainties.

Risks Related to Our Business

We are subject to extensive medical device regulation which may impede or hinder the approval process for our products and, in some cases, may not ultimately result in approval or may result in the recall or seizure of previously approved products.

Our products, development activities and manufacturing processes are subject to extensive and rigorous regulation by the FDA pursuant to the Federal Food, Drug, and Cosmetic Act (the "FDC Act"), by comparable agencies in foreign countries, and by other regulatory agencies and governing bodies. Under the FDC Act, medical devices must receive FDA clearance or approval before they can be commercially marketed in the U.S. In addition, most major markets for medical devices outside the U.S. require clearance, approval or compliance with certain standards before a product can be commercially marketed. The process of obtaining marketing approval or clearance from the FDA for new products, or with respect to enhancements or modifications to existing products, could:

• take a significant period of time;

• require the expenditure of substantial resources;

• involve rigorous pre-clinical and clinical testing;

• require changes to the products; and

• result in limitations on the indicated uses of the products.

11

Even after products have received marketing approval or clearance, product approvals and clearances by the FDA can be withdrawn due to failure to comply with regulatory standards or the occurrence of unforeseen problems following initial approval. There can be no assurance that we will receive the required clearances from the FDA for new products or modifications to existing products on a timely basis or that any FDA approval will not be subsequently withdrawn. Later discovery of previously unknown problems with a product or manufacturer could result in fines, delays or suspensions of regulatory clearances, seizures or recalls of products, operating restrictions and/or criminal prosecution. The failure to receive product approval clearance on a timely basis, suspensions of regulatory clearances, seizures or recalls of products or the withdrawal of product approval by the FDA could have a material adverse effect on our business, financial condition or results of operations.

We may not meet regulatory quality standards applicable to our manufacturing and quality processes.

As a medical device manufacturer, we are required to register with the FDA and are subject to periodic inspection by the FDA for compliance with the FDA's Quality System Regulation requirements, which require manufacturers of medical devices to adhere to certain regulations, including testing, quality control and documentation procedures. In addition, the Federal Medical Device Reporting regulations require us to provide information to the FDA whenever there is evidence that reasonably suggests that a medical device may have caused or contributed to a death or serious injury or, if a malfunction were to occur, could cause or contribute to a death or serious injury. Compliance with applicable regulatory requirements is subject to continual review and is rigorously monitored through periodic inspections by the FDA. In the European Community, we are required to maintain certain ISO certifications in order to sell our products and must undergo periodic inspections by notified bodies to obtain and maintain these certifications. Failure to meet regulatory quality standards could have a material adverse effect on our business, financial condition or results of operations.

Future intellectual property litigation could be costly and disruptive to us.

We operate in an industry that is susceptible to significant intellectual property litigation and, in recent years, it has been common for companies in the medical device field to aggressively challenge the patent rights of other companies in order to prevent the marketing of new devices. Intellectual property litigation is expensive, complex and lengthy and its outcome is difficult to predict. Future patent litigation may result in significant royalty or other payments or injunctions that can prevent the sale of products and may significantly divert the attention of our technical and management personnel. In the event that our right to market any of our products is successfully challenged, and if we fail to obtain a required license or are unable to design around a patent, our business, financial condition or results of operations could be materially adversely affected.

We may not be able to effectively protect our intellectual property rights.

Patents and other proprietary rights are and will be essential to our business and our ability to compete effectively with other companies will be dependent upon the proprietary nature of our technologies. We also rely upon trade secrets, know-how, continuing technological innovations, strategic alliances and licensing opportunities to develop, maintain and strengthen our competitive position. We pursue a policy of generally obtaining patent protection in both the U.S. and abroad for patentable subject matter in our proprietary devices and also attempt to review third-party patents and patent applications to the extent publicly available to develop an effective patent strategy, avoid infringement of third-party patents, identify licensing opportunities and monitor the patent claims of others. We currently own numerous U.S. and foreign patents. We also are party to various license agreements pursuant to which patent rights have been obtained or granted in consideration for cash or royalty payments. No assurance can be made that any pending or future patent applications will result in issued patents, that any current or future patents issued to, or licensed by, us will not be challenged or circumvented by our competitors, or that our patents will not be found invalid.

In addition, we may have to take legal action in the future to protect our patents, trade secrets or know-how or to assert them against claimed infringement by others. Any legal action of that type could be costly and time consuming to us and no assurances can be made that any lawsuit will be successful.

The invalidation of key patents or proprietary rights that we own, or an unsuccessful outcome in lawsuits to protect our intellectual property, could have a material adverse effect on our business, financial condition or results of operations.

Future product liability claims and other litigation, including private securities litigation and shareholder derivative suits, may adversely affect our business, reputation and ability to attract and retain customers.

The design, manufacture and marketing of medical device products of the types that we produce entail an inherent risk of product liability claims. A number of factors could result in an unsafe condition or injury to, or death of, a patient with respect to these or other products that we manufacture or sell, including component failures, manufacturing flaws, design defects or inadequate disclosure of product-related risks or product-related information. These factors could result in product liability claims, a recall of one or more of our products or a safety alert relating to one or more of our products. Product liability claims may be brought by individuals or by groups seeking to represent a class.

Anyone or any company can bring an action against Misonix.

Our judicial system allows anyone to bring a claim against the Company and force the Company to defend itself even if the claim is baseless. The defense may or may not be covered by the Company’s insurance, the result of which could ultimately create a burden on the Company dependent upon the outcome.

12

We may not be successful in our strategic initiatives to become a medical device company.

Our strategic initiatives intend to further expand our ability to offer customers effective, quality medical devices that satisfy their needs, as well as focus the Company on our medical device platform. If we are unsuccessful in our strategic initiatives, we may be unable to continue to grow our business significantly or may record asset impairment charges in the future.

Our future growth is dependent upon the development of new products, which requires significant research and development, clinical trials and regulatory approvals, all of which are very expensive and time-consuming and may not result in a commercially viable product.

In order to develop new products and improve current product offerings, we focus our research and development programs largely on the development of next-generation and novel technology offerings across multiple programs and opportunities.

As a part of the regulatory process of obtaining marketing clearance from the FDA for new products, we conduct and participate in numerous clinical trials with a variety of study designs, patient populations and trial endpoints. Unfavorable or inconsistent clinical data from existing or future clinical trials conducted by us, by our competitors or by third parties, or the market's perception of this clinical data, may adversely impact our ability to obtain product approvals from the FDA, our position in, and share of, the markets in which we participate and our business, financial condition, results of operations or future prospects.

New products may not be accepted in the market.

We are now, and will continue to be, developing new products and introducing them into the market. There can be no assurance that any new product will be accepted by the market. New products are sometimes introduced into the market in a prototype format and may need later revisions or design changes before they operate in a manner to be accepted in the market. As a result of the introduction of new products, there is some risk that revenue expectations may not be met and in some cases the product may not achieve market acceptance.

We face intense competition and may not be able to keep pace with the rapid technological changes in the medical device industry.

The medical device product market is highly competitive. We encounter significant competition across our product lines and in each market in which our products are sold from various medical device companies, some of which have greater financial and marketing resources than we do.

Additionally, the medical device product market is characterized by extensive research and development and rapid technological change. Developments by other companies of new or improved products, processes or technology may make our products or proposed products obsolete or less competitive and may negatively impact our revenues. We are required to devote continued efforts and financial resources to develop or acquire scientifically advanced technologies and products, apply our technologies cost-effectively across product lines and markets, attract and retain skilled development personnel, obtain patent and other protection for our technology and products, obtain required regulatory and reimbursement approvals and successfully manufacture and market our products. Failure to develop new products or enhance existing products could have a material adverse effect on our business, financial condition or results of operations.

Consolidation in the healthcare industry could lead to demands for price concessions or the exclusion of some suppliers from certain of our significant market segments.

The cost of healthcare has risen significantly over the past decade and numerous initiatives and reforms initiated by legislators, regulators and third-party payers to curb these costs have resulted in a consolidation trend in the healthcare industry, including hospitals. This in turn has resulted in greater pricing pressures and the exclusion of certain suppliers from important market segments as group purchasing organizations, independent delivery networks and large single accounts continue to consolidate purchasing decisions for some of our hospital customers. We expect that market demand, government regulation, third-party reimbursement policies and societal pressures will continue to change the worldwide healthcare industry, resulting in further business consolidations and alliances among our customers and competitors, which may reduce competition, exert further downward pressure on the prices of our products and may adversely impact our business, financial condition or results of operations.

We may experience disruption in supply due to our dependence on our suppliers to continue to ship product requirements and our inability to obtain suppliers of certain components for our products.

Our suppliers may encounter problems during manufacturing due to a variety of reasons, including failure to follow specific protocols and procedures, failure to comply with applicable regulations, equipment malfunctions, labor shortages or environmental factors. In addition, we purchase both raw materials used in our products and finished goods from various suppliers and may have to rely on a single source supplier for certain components of our products where there are no alternatives are available. Although we anticipate that we have adequate sources of supply and/or inventory of these components to handle our production needs for the foreseeable future, if we are unable to secure on a timely basis sufficient quantities of the materials we depend on to manufacture our products, if we encounter delays or contractual or other difficulties in our relationships with these suppliers, or if we cannot find suppliers at an acceptable cost, then the manufacture of our products may be disrupted, which could increase our costs and have a material adverse effect on our business.

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If we fail to manage any expansion or acquisition, our business could be impaired.

We may in the future acquire one or more technologies, products or companies that complement our business. We may not be able to effectively integrate these into our business and any such acquisition could bring additional risks, exposures and challenges to the Company. In addition, acquisitions may dilute our earnings per share, disrupt our ongoing business, distract our management and employees, increase our expenses, subject us to liabilities and increase our risk of litigation, all of which could harm our business. If we use cash to acquire technologies, products, or companies, such use may divert resources otherwise available for other purposes. If we use our common stock to acquire technologies, products, or companies, our shareholders may experience substantial dilution. If we fail to manage any expansions or acquisition, our business could be impaired.

Our agreements and contracts entered into with partners and other third parties may not be successful.

We signed in the past and may pursue in the future contracts and agreements with third parties to assist in our marketing, manufacturing, selling and distribution efforts. We cannot assure you that any agreements or arrangements entered into will be successful.

The current disruptions in the financial markets could affect our ability to obtain debt financing on favorable terms (or at all) and have other adverse effects on us.

The United States credit markets have recently experienced historic dislocations and liquidity disruptions which have caused financing to be unavailable in many cases and even if available caused spreads on prospective debt financings to widen considerably. These circumstances have materially impacted liquidity in the debt markets, making financing terms for borrowers able to find financing less attractive, and in many cases have resulted in the unavailability of certain types of debt financing. Continued uncertainty in the credit markets may negatively impact our ability to access debt financing on favorable terms or at all. In addition, Federal legislation to deal with the current disruptions in the financial markets could have an adverse effect on our financial condition and results of operations.

The fluctuation of our quarterly results may adversely affect the trading price of our common stock.

Our revenues and results of operations have in the past and will likely vary in the future from quarter to quarter due to a number of factors, many of which are outside of our control and any of which may cause our stock price to fluctuate. You should not rely on quarter-to-quarter comparisons of our results of operations as an indication of our future performance. It is likely that in some future quarters, our results of operations may be below the expectations of public market analysts and investors. In this event, the price of our common stock may fall.

We may not be able to attract and retain additional key management, sales and marketing and technical personnel, or we may lose existing key management, sales and marketing or technical personnel, which may delay our development and marketing efforts.

We depend on a number of key management, sales and marketing and technical personnel. The loss of the services of one or more key employees could delay the achievement of our development and marketing objectives. Our success will also depend on our ability to attract and retain additional highly qualified management, sales and marketing and technical personnel to meet our growth goals. We face intense competition for qualified personnel, many of whom are often subject to competing employment offers, and we do not know whether we will be able to attract and retain such personnel.

Future changes in financial accounting standards or practices or existing taxation rules or practices may cause adverse or unexpected revenue fluctuations and affect our reported results of operations.

A change in accounting standards or practices or a change in existing taxation rules or practices can have a significant effect on our reported results and may even affect our reporting of transactions completed before the change is effective. New accounting pronouncements and taxation rules and varying interpretations of accounting pronouncements and taxation practice have occurred and may occur in the future. Changes to existing rules or the questioning of current practices may adversely affect our reported financial results or the way we conduct our business.

Adverse litigation results could affect our business.

Litigation can be lengthy, expensive and disruptive to our operations, and results cannot be predicted with certainty. An adverse decision could result in monetary damages or injunctive relief that could affect our financial condition, results of operations and cash flows.

The Affordable Healthcare for America Act includes provisions that may adversely affect our business and results of operations, including an excise tax on the sales of most medical devices.

On March 21, 2010, the House of Representatives passed the Affordable Health Care for America Act, which President Obama signed into law on March 23, 2010. While we are continuing to evaluate this legislation and its potential impact on the Company, it may adversely affect our business and results of operations, possibly materially.

Specifically, one of the new law's components is a 2.3% excise tax on sales of most medical devices, starting in 2013. This tax may put increased cost pressure on medical device companies, including our customers, and may lead our customers to reduce their orders for products we produce or to request that we reduce the prices we charge for products we produce in order to offset the tax.

14

Item 1B. Unresolved Staff Comments.

Not Applicable.

Item 2. Properties.

The Company occupies approximately 34,400 square feet at 1938 New Highway, Farmingdale, New York. The rental amount is approximately $23,000 a month and includes a pro rata share of real estate taxes, water, sewer and other charges which are assessed on the leased premises or the land upon which the leased premises are situated. The Company believes that the leased facilities are adequate for its present needs.

Item 3. Legal Proceedings.

None.

Item 4. Mine Safety Disclosures.

Not Applicable.

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PART II

Item 5. Market for Registrant's Common Equity, Related Stockholder Matters and Issuer Purchases of Equity Securities.

(a) The Company's common stock, $.01 par value ("Common Stock"), is listed on the Nasdaq Global Market ("Nasdaq") under the symbol "MSON".

The following table sets forth the high and low sales prices for the Common Stock during the periods indicated as reported by Nasdaq:

	High		Low
Fiscal 2012:
First Quarter	$	2.53	$	1.77
Second Quarter		2.21		1.50
Third Quarter		2.19		1.60
Fourth Quarter		2.45		1.88

	High		Low
Fiscal 2011:
First Quarter	$	2.28	$	1.61
Second Quarter		2.99		2.04
Third Quarter		2.57		2.07
Fourth Quarter		2.66		2.14

(b) As of September 20, 2012, the Company had 7,005,360 shares of Common Stock outstanding and 75 shareholders of record. This does not take into account shareholders whose shares are held in "street name" by brokerage houses.

(c) The Company has not paid any cash dividends since its inception. The Company does not intend to pay any cash dividends in the foreseeable future, but intends to retain all earnings, if any, for use in its business operations.

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Equity Compensation Plan Information:

					Number of
					securities
					remaining for
					future
	Number of		Weighted		issuance
	securities to		average		under
	be		exercise		equity
	issued upon		price of		compensation
	exercise of		outstanding		plans
	outstanding		options,		(excluding
	options,		warrants		securities
	warrants		and		reflected in
Plan category	and rights		rights		column (a))
	(a)		(b)		(c)
Equity compensation plans approved by security holders
I. 1996 Director's Plan		135,000	$	5.28		—
II. 1996 Plan		41,000		5.83		—
III. 1998 Plan		14,750		6.47		—
IV. 2001 Plan		667,880		4.68		—
V. 2005 Plan		495,550		2.17		700
VI. 2005 Director's Plan		195,000		3.66		5,000
VII. 2009 Plan		241,750		2.18		258,250
VIII. 2009 Director's Plan		30,000		2.41		170,000
Equity compensation plans not approved by security holders		—		—		—
Total		1,820,930	$	3.60		433,950

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Item 6.Selected Financial Data.

We are a “smaller reporting company” as defined by Regulation S-K and, as such, we are not required to provide the information contained in this item pursuant to Regulation S-K.

Item 7. Management's Discussion and Analysis of Financial Condition and Results of Operations.

Results of Operations:

The following discussion and analysis provides information which the Company's management believes is relevant to an assessment and understanding of the Company's results of operations and financial condition. This discussion should be read in conjunction with the consolidated financial statements and notes thereto appearing elsewhere herein. Unless otherwise specified, this discussion relates solely to the Company's continuing operations.

All of the Company's sales to date have been derived from the sale of medical device products, which include manufacture and distribution of ultrasonic medical device products, and laboratory and scientific products, which include ductless fume enclosures for filtration of gaseous emissions in laboratory and forensic markets. See “Item 1. Business – Discontinued Operations – Laboratory and Forensic Safety Products Business.”

Fiscal years ended June 30, 2012 and 2011:

Net sales: Net sales increased $3,304,971 to $15,678,000 in fiscal 2012, from $12,373,029 in fiscal 2011. The increase in sales is primarily due to higher BoneScalpel revenue of $2,276,928, higher SonaStar revenue of $1,787,434, higher Lysonix revenue of $473,960, higher service revenue of $329,402 and higher SonicOne revenue of $191,602, partially offset by lower Autosonix revenue of $1,875,276.

Set forth below are tables showing the Company’s net sales by (i) product category and (ii) geographic region for the years ended June 30, 2012 and June 30, 2011:

	Twelve months ended June 30,
	2012		2011		Variance
BoneScalpel	$	4,764,256	$	2,487,328	$	2,276,928
SonicOne		1,296,635		1,105,033		191,602
SonaStar		5,884,541		4,097,107		1,787,434
Other		3,732,568		4,683,561		(950,993	)
	$	15,678,000	$	12,373,029	$	3,304,971

	Twelve months ended June 30,
	2012		2011
United States	$	9,297,719	$	8,329,323
Australia		238,926		234,181
Europe		2,495,582		1,668,493
Asia		1,430,708		220,797
Canada and Mexico		499,162		228,704
South America		775,309		687,321
South Africa		425,084		564,286
Middle East		515,510		266,556
Other		-		173,368
	$	15,678,000	$	12,373,029

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Net sales for the three months ended June 30, 2012 were $5,300,520, an increase of $1,535,086 as compared to $3,765,434 for the three months ended June 30, 2011. The sales increase is due to higher BoneScalpel revenue of $746,820, higher SonaStar revenue of $303,936, higher SonicOne revenue of $243,966 and higher Lysonix revenue of $222,650.

Set forth below are tables showing the Company’s net sales by (i) product category and (ii) geographic region for the three months ended June 30, 2012 and June 30, 2011:

	Three months ended June 30,
	2012		2011		Variance
BoneScalpel	$	1,653,781	$	906,961	$	746,820
SonicOne		517,574		273,608		243,966
SonaStar		1,736,963		1,433,027		303,936
Other		1,392,202		1,151,838		240,364
	$	5,300,520	$	3,765,434	$	1,535,086

	Three months ended June 30,
	2012		2011
United States	$	3,607,418	$	2,289,148
Australia		73,856		136,778
Europe		576,074		610,810
Asia		377,720		9,887
Canada and Mexico		152,846		38,468
South America		320,684		311,792
South Africa		171,834		264,974
Middle East		20,088		5,724
Other		-		97,853
	$	5,300,520	$	3,765,434

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Gross profit: Gross profit increased to 58.8% in fiscal 2012 from 57.3% in fiscal 2011. Gross profit for the three months ended June 30, 2012 was 57.7% as compared to 56.7% for the three months ended June 30, 2011 due to increased sales of the BoneScalpel.

Selling expenses: Selling expenses increased $1,146,047 to $5,031,831 (32.2% of sales) in fiscal 2012 from $3,885,784 (31.4% of sales) in fiscal 2011. The increase in selling expenses is related to higher salary expenses of $358,821, higher commissions of $286,308, higher advertising expenses of $192,679, higher travel expenses of $147,773, higher depreciation of demonstration equipment units related to more evaluation units in the field of $151,127 and other unfavorable expenses of $9,339. Selling expenses for the three months ended June 30, 2012 increased $226,349 to $1,411,752 (26.9% of sales) from $1,185,403 (31.5% of sales) for the three months ended June 30, 2011. The increase in selling expenses is due to increased salary expense of $145,277 (increased headcount) higher travel expense of $43,700, higher depreciation expenses of $23,961 due to new demonstration units in the field and higher advertising expense of $15,901, partially offset by other favorable expenses of $2,490.

General and administrative expenses: General and administrative expenses decreased $122,967 to $4,376,554 in fiscal 2012 from $4,499,521 in fiscal 2011. The decrease in expenses is mainly due to lower accounting expenses of $59,125, lower insurance cost of $49,581 and lower rent expense of $36,141, partially offset by higher consulting expense of $17,264 and other unfavorable expenses of $4,616. For the three months ended June 30, 2012, general and administrative expenses decreased $62,863. This decrease is due to lower legal expense of $23,548, lower employee welfare expense of $16,082, lower insurance expense of $11,186, and other favorable expenses of $12,047.

Research and development expenses: Research and development expenses decreased $139,402 to $1,292,225 in fiscal 2012 from $1,431,627 in fiscal 2011. The decrease is related to lower product development material costs of $112,105 and lower employee welfare costs of $27,481, partially offset by other unfavorable expenses of $184. For the three months ended June 30, 2012, research and development expenses increased $9,347 to $345,241 from $335,894 for the three months ending June 30, 2011.

Other income: Other income decreased $3,689 to $686,189 in fiscal 2012 from $689,878 in fiscal 2011. For the three months ended June 30, 2012, other income increased $24,583 to $136,768 from $112,185 for the three months ended June 30, 2011. The increase is due to lower royalty expenses of $11,936, favorable foreign exchange of $5,483, higher royalty income of $3,130 and other favorable expenses of $4,034.

Income taxes: In fiscal 2012 the income tax benefit for continuing operations had an effective tax rate of 24%. Overall, when considering discontinued operations, the Company had minimal income tax expense. In prior years the Company established a valuation allowance against deferred tax assets due to the net loss from operations over the past 5 years which caused management to conclude that it is more likely than not that its deferred tax assets may not be fully realized.

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Discontinued operations:

The following represents the results of the Laboratory and Forensic Safety Products business along with legal and other expenses associated with Labcaire and Misonix HIFU Technologies Limited which are included in discontinued operations:

	For the twelve months ended
	June 30,
	2012			2011
Revenues	$	1,552,153		$	2,067,032
Loss from discontinued operations, before tax	$	(535,223	)	$	(1,429,359	)
Gain on sale of discontinued operations		1,705,414			-
Income tax (expense)/benefit		(195,101	)		-
Net income/(loss) from discontinued operations net of tax	$	975,090		$	(1,429,359	)

Refer to Note 1 of the Notes to Consolidated Financial Statements included in Item 8 for further discussion of the nature of discontinued operations.

Liquidity and Capital Resources:

Working capital at June 30, 2012 and June 30, 2011 was $11,734,000 and $10,233,000, respectively. For the year ended June 30, 2012, cash used in operations totaled $1,492,000. The major use of cash from operations was related to higher accounts receivables of $1,112,000 and lower accounts payables and other accrued expenses of $432,000 during the year ended June 30, 2012. For the fiscal year 2012, cash used in investing activities totaled $734,000, primarily consisting of the purchase of property, plant and equipment and increased demonstration equipment for the BoneScalpel during the regular course of business along with the purchase of assets from Aesculap. For the fiscal year 2012, cash used in financing activities was $11,000. Cash provided by discontinued operations was $1,628,000.

As of June 30, 2012 the Company has a cash balance of $6,273,015 and believes it has sufficient cash to finance operations for at least the next 12 months.

The Company maintains cash balances at various financial institutions. At June 30, 2012, these financial institutions held cash that was approximately $6,034,000 in excess of amounts insured by the Federal Deposit Insurance Corporation and other government agencies.

Commitments

The Company has commitments under operating leases that will be funded from operating sources. At June 30, 2012, the Company's contractual cash obligations and commitments relating to operating leases are as follows:

	Less than						After
Commitment	1 year		1-3 years		4-5 years		5 years		Total
Operating leases		321,537		683,814		16,639		-		1,021,990
	$	321,537	$	683,814	$	16,639		-	$	1,021,990

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Off-Balance Sheet Arrangements

The Company has no off-balance sheet arrangements that have or are reasonably likely to have a current or future effect on the Company's financial condition, changes in financial condition, revenues or expenses, results of operations, liquidity, capital expenditures or capital resources that is material to the Company.

Other

In the opinion of management, inflation has not had a material effect on the operations of the Company.

Critical Accounting Policies:

General: Note 1 of the Notes to Consolidated Financial Statements included in this Annual Report includes a summary of the Company's significant accounting policies and methods used in the preparation of its financial statements. The Company's discussion and analysis of its financial condition and results of operations is based upon the Company's financial statements, which have been prepared in accordance with accounting principles generally accepted in the United States. The preparation of these financial statements requires the Company to make estimates and judgments that affect the reported amounts of assets, liabilities, revenues and expenses. On an on-going basis, management evaluates its estimates and judgments, including those related to bad debts, inventories, goodwill, property, plant and equipment, stock based compensation and income taxes. Management bases its estimates and judgments on historical experience and on various other factors that are believed to be reasonable under the circumstances, the results of which form the basis for making judgments about the carrying values of assets and liabilities that are not readily apparent from other sources. Actual results may differ from these estimates under different assumptions or conditions. The Company believes that the following are our more critical estimates and assumptions used in the preparation of our consolidated financial statements:

Accounts Receivable and Allowance for Doubtful Accounts: Accounts receivable, principally trade, are generally due within 30 to 90 days and are stated at amounts due from customers, net of an allowance for doubtful accounts. The Company performs ongoing credit evaluations and adjusts credit limits based upon payment history and the customer's current credit worthiness, as determined by a review of their current credit information. The Company continuously monitors aging reports, collections and payments from customers and maintains a provision for estimated credit losses based upon historical experience and any specific customer collection issues that have been identified. While such credit losses have historically been within expectations and the provisions established, the Company cannot guarantee the same credit loss rates will be experienced in the future. The Company writes off accounts receivable when they become uncollectible.

Inventories: Inventories, consisting of purchased materials, direct labor and manufacturing overhead, are stated at the lower of cost (determined by the first-in, first-out method) or market. At each balance sheet date, we evaluate ending inventories for excess quantities and obsolescence. Our evaluation includes an analysis of historical sales by product, projections of future demand by product, the risk of technological or competitive obsolescence for our products, general market conditions, and the feasibility of reworking or using excess or obsolete products or components in the production or assembly of other products that are not obsolete or for which we do not have excess quantities in inventory. To the extent that we determine there are excess or obsolete quantities, we record valuation reserves against all or a portion of the value of the related products to adjust their carrying value to estimated net realizable value. If future demand or market conditions are different from our projections, or if we are unable to rework excess or obsolete quantities into other products, we may change the recorded amount of inventory valuation reserves through a charge or reduction in cost of product revenues in the period the revision is made.

Long Lived Assets: Property, plant and equipment are recorded at cost. Minor replacements and maintenance and repair expenses are charged to expense as incurred. Depreciation of property and equipment is provided using the straight-line method over estimated useful lives ranging from 3 to 5 years. Leasehold improvements are amortized over the life of the lease or the useful life of the related asset, whichever is shorter. Inventory items included in property, plant and equipment are depreciated using the straight line method over estimated useful lives of 3 to 5 years. We evaluate long-lived assets, including property, plant and equipment and intangible assets other than goodwill, for impairment whenever events or changes in circumstances indicate that the carrying amounts of specific assets or group of assets may not be recoverable. When an evaluation is required, we estimate the future undiscounted cash flows associated with the specific asset or group of assets. If the cost of the asset or group of assets cannot be recovered by these undiscounted cash flows, an impairment charge would be recorded. Our estimates of future cash flows are based on our experience and internal business plans. Our internal business plans require judgments regarding future economic conditions, product demand and pricing. Although we believe our estimates are appropriate, significant differences in the actual performance of an asset or group of assets may materially affect our evaluation of the recoverability of the asset values currently recorded.

22

Revenue Recognition: The Company records revenue upon shipment for products shipped F.O.B. shipping point. Products shipped F.O.B. destination points are recorded as revenue when received at the point of destination. Shipments under agreements with distributors are not subject to return and payment for these shipments is not contingent on sales by the distributor. Accordingly, the Company recognizes revenue on shipments to distributors in the same manner as with other customers. Fees from exclusive license agreements are recognized ratably over the terms of the respective agreements. Service contract and royalty income are recognized when earned.

Goodwill: Goodwill is not amortized. We review goodwill for impairment annually and whenever events or changes indicate that the carrying value of an asset may not be recoverable. These events or circumstances could include a significant change in the business climate, legal factors, operating performance indicators, competition, or sale or disposition of significant assets or products. Application of these impairment tests requires significant judgments, including estimation of cash flows, which is dependent on internal forecasts, estimation of the long-term rate of growth for our business, the useful life over which cash flows will occur and determination of our weighted-average cost of capital. Changes in the projected cash flows and discount rate estimates and assumptions underlying the valuation of goodwill could materially affect the determination of fair value at acquisition or during subsequent periods when tested for impairment. The Company completed its annual goodwill impairment tests for fiscal 2012 and 2011 in the respective fourth quarter. No impairment of goodwill was deemed to exist.

Income Taxes: Deferred tax assets and liabilities are recognized for the future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carryforwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be recovered or settled. The effect on deferred tax assets and liabilities of a change in tax rates is recognized in income in the period that includes the enactment date. Significant judgment is required in determining the realizability of deferred tax assets including estimates of future sufficient taxable income to support the recovery of tax assets.

Financial accounting standards establish guidance for the determination of whether tax benefits claimed or expected to be claimed on a tax return should be recorded in the financial statements. The Company may recognize the tax benefits from an uncertain tax position only it is more likely than not that the tax position will be sustained on examination by the taxing authorities based on the technical merits of the position. The tax benefits recognized in the financial statements from such positions should be measured based on the largest benefit that has a greater than fifty percent likelihood of being realized upon ultimate settlement. Financial accounting standards also provide guidance on derecognition, classification, interest and penalties, accounting in interim periods and disclosures requirements.

Stock-Based Compensation: The fair value of the Company’s outstanding stock options is estimated based upon option price, volatility, the risk free rate, and the average time the shares are held. It is then amortized over the vesting period. See Note 7 to the Company's consolidated financial statements for additional information regarding stock-based compensation.

Item 7A. Quantitative and Qualitative Disclosures About Market Risk.

Market Risk:

The principal market risks (i.e., the risk of loss arising from adverse changes in market rates and prices) to which the Company is exposed are interest rates on cash and certain items in inventory.

Item 8. Financial Statements and Supplemental Data.

The report of the independent registered public accounting firm and consolidated financial statements listed in the accompanying index is filed as part of this Report. See "Index to Consolidated Financial Statements" on page 38.

Item 9. Changes in and Disagreements With Accountants on Accounting and Financial Disclosure.

Not Applicable.

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Item 9A. Controls and Procedures.

Evaluation of Disclosure Controls and Procedures

We maintain disclosure controls and procedures (as defined in Rule 13a-15(e) of the Securities Exchange Act of 1934, as amended ("Exchange Act")) that are designed to assure that information required to be disclosed in our Exchange Act reports is recorded, processed, summarized and reported within the time periods specified in the rules and formsof the SEC, and that such information is accumulated and communicated to management, including our principal executive officer and principal financial officer, as appropriate, to allow timely decisions regarding required disclosures.

As required by Exchange Act Rule 13a-15(b), as of the end of the period covered by this Annual Report, under the supervision and with the participation of our principal executive officer and principal financial officer, we evaluated the effectiveness of our disclosure controls and procedures. Based on this evaluation, our principal executive officer and principal financial officer concluded that our disclosure controls and procedures were effective as of that date. This is in accordance with Section 404(a) of the Sarbanes-Oxley Act of 2002 ("SOX") because the Company is a smaller reporting company under the SEC's rules. We are not required to be in compliance with SOX 404(b), which requires attestation by a company's independent auditors.

Management's Report on Internal Control over Financial Reporting

Management is responsible for establishing and maintaining adequate internal control over financial reporting as defined in Rule 13a-15(f) under the Exchange Act. Internal control over financial reporting is a process designed by, or under the supervision of, the principal executive officer and principal financial officer, and affected by the board of directors and management to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with U.S. Generally Accepted Accounting Principles ("GAAP") including those policies and procedures that: (i) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of assets, (ii) provide reasonable assurance that transactions are recorded as necessary to permit preparation of financial statements in accordance with GAAP and that receipts and expenditures are being made only in accordance with authorizations of management and the directors, and (iii) provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use, or disposition of assets that could have a material effect on the financial statements.

The Company’s internal control over financial reporting is a process designed to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles. The Company’s internal control over financial reporting includes those policies and procedures that (1) pertain to the maintenance of records that, in reasonable detail, accurately and fairly reflect the transactions and dispositions of the assets of the Company; (2) provide reasonable assurance that transactions are recorded as necessary to permit preparation of financial statements in accordance with generally accepted accounting principles, and that receipts and expenditures of the Company are being made only in accordance with authorizations of management and directors of the Company; and (3) provide reasonable assurance regarding prevention or timely detection of unauthorized acquisition, use, or disposition of the Company’s assets that could have a material effect on the financial statements.

Because of its inherent limitations, internal control over financial reporting may not prevent or detect misstatements. Also, projections of any evaluation of effectiveness to future periods are subject to the risk that controls may become inadequate because of changes in conditions, or that the degree of compliance with the policies or procedures may deteriorate.

Management conducted an evaluation of the effectiveness of the internal control over financial reporting based on the framework in Internal Control — Integrated Framework issued by the Committee of Sponsoring Organizations of the Treadway Commission. Based on this evaluation, management concluded that internal control over financial reporting was effective as of June 30, 2012.  In order to assist in the testing of our internal controls, the Company engaged a third- party to assist in the testing and evaluation of our internal control systems.

This Annual Report does not include an attestation report of the Company's current independent registered public accounting firm regarding internal control over financial reporting. Management's report was not subject to attestation by the Company's current independent registered public accounting firm pursuant to rules of the SEC that permit the Company to provide only management's report in this Annual Report.

Changes in Internal Control over Financial Reporting.

There were no changes in our internal control over financial reporting (as such term is defined in Rule 13a-15(f) and 15d-15(f) under the Exchange Act) during our fourth fiscal quarter that have materially affected, or are reasonably likely to materially affect, our internal control over financial reporting.

Item 9B. Other Information.

None.

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PART III

Item 10. Directors, Executive Officers of the Registrant and Corporate Governance.

The Company currently has six Directors (the “Board”). Their term expires at the next Annual Meeting of Shareholders. The following table contains information regarding all Directors and executive officers of the Company:

			Director
Name	Age	Principal Occupation	Since
John Gildea	69	Director	2004
Howard Alliger	85	Director	1971
Dr. Charles Miner III	61	Director	2005
T. Guy Minetti	61	Director	2003
Thomas F. O'Neill	66	Director	2003
Michael A. McManus, Jr.	69	Director, President and Chief Executive Officer	1998
Richard Zaremba	57	Senior Vice President, Chief Financial Officer, Secretary and Treasurer	—
Michael C. Ryan	66	Senior Vice President, Medical Division	—
Dan Voic	50	Vice President of Research and Development and Engineering	—
Ronald Manna	58	Vice President of New Product Development and Regulatory Affairs	—
Frank Napoli	55	Vice President of Operations	—

The following is a brief account of the business experience of the Company's Directors and executive officers:

John W. Gildea is the founding principal of Gildea Management Co., a management company of special situations with middle market companies in the United States and Central Europe. From 2000 to 2003, Gildea Management Co. formed a joint venture with J.O. Hambro Capital Management Co. to manage accounts targeting high yield debt and small capitalization equities. From 1996 to 2000, Gildea Management Co. formed and founded Latona Europe, a joint venture between Latona U.S., Lazard Co. and Gildea Management Co. to restructure several Czech Republic companies. Before forming Gildea Management Co. in 1990, Mr. Gildea managed the Corporate Series Group at Donaldson, Lufkin and Jenrette, an investment banking firm. Mr. Gildea is a graduate of the University of Pittsburgh.

Mr. Gildea has extensive experience as an international investment banker and sits on the Board of several companies. The Board believes this experience qualifies him to serve as a director.

Howard Alliger founded the Company's predecessor in 1955 and the Company was a sole proprietorship until 1960. The Company name then was Heat Systems-Ultrasonics. Mr. Alliger was President of the Company until 1982 and Chairman of the Board until 1996. In 1996 Mr. Alliger stepped down as Chairman and ceased to be a corporate officer. He has been awarded 23 patents and has published various papers on ultrasonic technology. For three years, ending in 1991, Mr. Alliger was the President of the Ultrasonic Industry Association. Mr. Alliger holds a B.A. degree in economics from Allegheny College and also attended Cornell University School of Engineering for four years. He has also established, and is President of, two privately held entities which are engaged in pharmaceutical research and development.

Mr. Alliger has extensive experience as an inventor experienced in ultrasound technologies and is the founder of the Company. The Board believes this experience qualifies him to serve as a director.

Dr. Charles Miner III currently practices internal medicine in Darien, Connecticut. Dr. Miner is on staff at Stamford and Norwalk Hospitals and since 1982 has held a teaching position at Columbia Presbyterian Hospital. Dr. Miner received his M.D. from the University Of Cincinnati College Of Medicine in 1979 and received a Bachelor of Science from Lehigh University in 1974.

Dr. Miner is an experienced physician and teacher in the medical field.  He serves on the board of private companies.  The Board believes this experience qualifies him to serve as a director.

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T. Guy Minetti is Chief Executive Officer of TwigTek, Inc., which is engaged in the remarketing and recycling of used electronics. Prior to joining TwigTek in November2009, he founded and was the Managing Director of Senior Resource Advisors LLC, a management consulting firm, from 2005 through 2008. Prior to being Managing Director of Senior Resource Advisors LLC, Mr. Minetti served as the Vice Chairman of the Board of Directors of 1-800-Flowers.Com, a publicly held specialty gift retailer based in Westbury, New York. Before joining 1-800-Flowers.Com in 2000, Mr. Minetti was the Managing Director of Bayberry Advisors, an investment banking boutique he founded in 1989 to provide corporate finance advisory services to small-to-medium-sized businesses. From 1981 through 1989, Mr. Minetti was a Managing Director of the investment banking firm, Kidder, Peabody & Company. While at Kidder, Peabody, Mr. Minetti worked in the investment banking and high yield bond departments. Mr. Minetti is a graduate of St. Michael's College.

Mr. Minetti has extensive experience as an investment banker and as a director of a public company. The Board believes this experience qualifies him to serve as a director.

Thomas F. O’Neill became Chairman of Ranieri Partners Financial Service Group (“RPFSG”) in December 2010. RPFSG is in the business of acquiring and managing companies in the financial services sector, including money management and investment management firms. Mr. O’Neill was also appointed Chairman of the holding company ofFirst Allied, a broker-dealer, controlled by Ranieri Partners.  Prior to joining RPFSG, he was a founding principal of Sandler O'Neill & Partners, L.P., an investment banking firm. He began his Wall Street career at L.F. Rothschildwhere he specialized in working with financial institutions in Rothschild's Bank Service Group from 1972. He was appointed Managing Director of the Bank Service Group, a group consisting of fifty-five professionals, in 1984. In 1985, he became a Managing Director at Bear Stearns and Co-Manager of the Financial Services Group. Mr. O'Neill serves on the Board of Directors of Archer-Daniels-Midland Company and The Nasdaq Stock Market, Inc. Mr. O'Neill is a graduate of New York University and a veteran of the United States Air Force.

Mr. O'Neill has extensive experience as an investment banker, the founding partner of an investment firm, and as a director of public companies. The Board believes this experience qualifies him to serve as a director.

Michael A. McManus, Jr. became President and Chief Executive Officer of the Company in November 1999. From November 1991 to March 1999, Mr. McManus was President and Chief Executive Officer of New York Bancorp, Inc. Prior to New York Bancorp, Inc., Mr. McManus held senior positions with Jamcor Pharmaceutical, Inc., Pfizer, Inc. and Revlon Corp. Mr. McManus also spent several years as an Assistant to President Reagan. Mr. McManus serves on the Board of Directors of the following publicly traded companies: A. Schulman, Inc. and Novavax, Inc. Mr. McManus holds a B.A. degree in Economics from the University of Notre Dame and a Juris Doctorate from Georgetown University Law Center.

Mr. McManus' extensive first-hand knowledge of the business and historical development of the Company, as well as his executive, management and leadership experience and achievement, along with his previous experience in the pharmaceutical and medical device areas, give him highly valued insights into our Company's challenges, opportunities and business. Mr. McManus also possesses broad knowledge related to equity and capital markets that the Board believes are invaluable to the Board's discussions of the Company's capital and liquidity needs and qualify him to serve on the Board.

Richard Zaremba became Senior Vice President in 2004. He became Vice President and Chief Financial Officer in February 1999. From March 1995 to February 1999, he was the Vice President and Chief Financial Officer of Converse Information Systems, Inc., a manufacturer of digital voice recording systems. Previously, Mr. Zaremba was Vice President and Chief Financial Officer of Miltope Group, Inc., a manufacturer of electronic equipment. Mr. Zaremba is a licensed certified public accountant in the state of New York and holds BBA and MBA degrees in Accounting from Hofstra University.

Michael C. Ryan became Senior Vice President, Medical Division in October 2007. Prior thereto, he served as Senior Vice President and General Manager for Nomos Radiation Oncology from 2006 to October 2007. From 1992 to 2005, Mr. Ryan was Executive Vice President, Business Development for Inter V. Mr. Ryan holds a Bachelor of Arts in Economics from John F. Kennedy College.

Dan Voic became Vice President of Research and Development and Engineering in January 2002. Prior thereto, he served as Engineering Manager and Director of Engineering with the Company. Mr. Voic has approximately 15 years experience in both medical and laboratory and scientific products development. Mr. Voic holds an M.S. degree in mechanical engineering from Polytechnic University "Traian Vuia" of Timisoara, Romania and an MS degree in applied mechanics from Polytechnic University of New York.

Ronald Manna became Vice President of New Product Development and Regulatory Affairs of the Company in January 2002. Prior thereto, Mr. Manna served as Vice President of Research and Development and Engineering, Vice President of Operations and Director of Engineering of the Company. Mr. Manna holds a B.S. degree in mechanical engineering from Hofstra University.

Frank Napoli became Vice President of Operations in September 2004. From March 2004 to September 2004, Mr. Napoli was Vice President of Manufacturing for Spellman High Voltage Electronics Corp. Previously, Mr. Napoli was Director of Manufacturing for Telephonics Corporation. Mr. Napoli holds a B.S. degree in Mechanical Engineering from the New York Institute of Technology.

26

Executive officers are elected annually by, and serve at the discretion of, the Board.

	DIRECTOR COMPENSATION FOR THE 2012
	FISCAL YEAR
	Fees Earned or Paid in		Option
Name	Cash ($)		Awards ($)		Total
Michael A. McManus, Jr.		—		—		—
John Gildea		20,000		—		20,000
Howard Alliger		15,000		—		15,000
Dr. Charles Miner III		20,000		—		20,000
T. Guy Minetti		25,000		—		25,000
Thomas F. O'Neill		20,000		—		20,000

Outstanding options at fiscal year-end for Messrs. O'Neill and Minetti are 90,000 shares each; Messrs. Alliger, Gildea, and Miner are 60,000 shares each. Each non-employee director receives an annual fee of $15,000. The Chairman of the Audit Committee receives an additional $10,000 per year cash compensation and the other members of the Audit Committee receive an additional $5,000 per year cash compensation. Each non-employee director is also reimbursed for reasonable expenses incurred while traveling to attend meetings of the Board of Directors or while traveling in furtherance of the business of the Company.

Section 16 (a) Beneficial Ownership Reporting Compliance of the Securities Exchange Act

Section 16(a) of the Exchange Act requires the Company's executive officers, directors and persons who own more than 10% of a registered class of the Company's equity securities ("Reporting Persons") to file reports of ownership and changes in ownership on Forms 3, 4, and 5 with the SEC. These Reporting Persons are required by SEC regulation to furnish the Company with copies of all Forms 3, 4 and 5 they file with the SEC. Based solely on the Company's review of the copies of the forms it has received, the Company believes that all Reporting Persons complied on a timely basis with all filing requirements applicable to them with respect to transactions during fiscal year 2012.

Code of Ethics

The Company has adopted a code of ethics that applies to all of its directors, officers (including its Chief Executive Officer, Chief Financial Officer, Controller and any person performing similar functions) and employees. The Company has filed a copy of this Code of Ethics as Exhibit 14to this Form 10-K. The Company has also made the Code of Ethics available on its website at www.MISONIX.COM.

Audit Committee

The Company has a separately-designated standing audit committee established in accordance with section 3(a) (58) (A) of the Exchange Act. The members of the Audit Committee are Messrs. Gildea, Miner, Minetti and O'Neill. The Board of Directors has determined that each member of the Audit Committee is "independent" not only under the Corporate Governance Requirements applicable to Nasdaq-listed companies but also within the definition contained in a final rule of the SEC. Furthermore, the Board of Directors has determined that Messrs. Gildea, Minetti and O'Neill are "audit committee financial experts" within the definition contained in a final rule adopted by the SEC.

27

Item 11. Executive Compensation.

Compensation Discussion and Analysis

Overview of Compensation Program and Philosophy

Our compensation program is intended to:

• Attract, motivate, retain and reward employees of outstanding ability;

• Link changes in employee compensation to individual and corporate performance;

• Align employees' interests with those of the Company's shareholders.

The ultimate objective of our compensation program is to increase shareholder value. We seek to achieve these objectives with a total compensation approach which takes into account a competitive base salary, bonus pay based on the annual performance of the Company and individual goals and stock option awards.

Base Salaries

Base salaries paid to executives are intended to attract and retain highly talented individuals. In setting base salaries, individual experience, individual performance, the Company's performance and job responsibilities during the year are considered. Executive salaries are reconciled by Human Resources and evaluated against local companies of similar size and nature.

Annual Bonus Plan Compensation

The Compensation Committee of the Board approves annual performance-based compensation. The purpose of the annual bonus-based compensation is to motivate executive officers and key employees. Target bonuses, based upon recommendations from the Chief Executive Officer, are evaluated and approved by the Compensation Committee for all management employees other than the Chief Executive Officer. The bonus recommendations are derived from individual and Company performance but not based on a specific formula and are discretionary. The Chief Executive Officer's bonus compensation is derived from the recommendation of the Compensation Committee based upon the Chief Executive Officer's performance and Company performance but is not based on a specific formula and is discretionary.

Stock Option Awards

Stock option awards are intended to attract and retain highly talented executives, to provide an opportunity for significant compensation when overall Company performance is reflected in the stock price and to help align executives' and shareholders' interests. Stock options are typically granted at the time of hire to key new employees and annually to a broad group of existing key employees, including executive officers.

Annual option grants to executive officers are made in the form of incentive stock options ("ISOs") to the fullest extent permitted under tax laws, with the balance granted in the form of nonqualified stock options. ISOs have potential income tax advantage for executives if the executive disposes of the acquired shares after satisfying certain holding periods. Tax laws provide that the aggregate grant at date of grant for market value of ISOs that become exercisable for any employee in any year may not exceed $100,000.

Our current standard vesting schedule for all employees is 25% on the first anniversary of the date of grant, 50% on the second anniversary of the date of grant, 75% on the third anniversary of the date of grant and 100% on the fourth anniversary of the date of grant.

401 (k) Plan

Our Individual Deferred Tax and Savings Plan (the "401 (k) plan") is a tax qualified retirement savings plan pursuant to which all of the Company's U.S. employees may defer compensation under Section 401 (k) of the Internal Revenue Code of 1986, as amended (the "Code"). The Company contributes an amount equal to 10% of salary contributed under the 401 (k) plan by an eligible employee, up to the maximum allowed under the Code. We do not provide any supplemental retirement benefits to executive officers.

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Change in Control benefits

Change in control benefits are intended to diminish the distraction that executives would face by virtue of the personal uncertainties created by a pending or threatened change in control and to assure that the Company will continue to have the executive's full attention and services at all time. Our change in control benefits are designed to be competitive with similar benefits available at companies with which we compete for executives' talent. These benefits, as one element of our total compensation program, help the Company attract, retain and motivate highly talented executives.

Mr. McManus is entitled to severance pay and benefits if he terminates his employment with the Company following a Change in Control (as defined in the Employment Agreement), to provide him with an incentive to remain with the Company and consummate a strategic corporate sale or transaction that maximizes shareholder value. Severance pay and benefits are triggered upon (i) his Involuntary Termination without Cause (as defined in the Employment Agreement) for a reason other than death or Disability (as defined in the Employment Agreement) or (ii) as a result of a Constructive Termination (as defined in the Employment Agreement) which in either case occurs: (x) during the period not to exceed twenty-four (24) months after the effective date of a Change in Control, or (y) before the effective date of a Change in Control, but after the first date on which the Board and/or senior management of the Company has entered into formal negotiations with a potential acquirer that results in the consummation of a Change in Control.

In the event that pay and benefits are triggered, Mr. McManus (A) is entitled to receive severance pay in an amount equal to two (2) times the sum of (a) his annual base pay and (b) bonus at the highest rate paid him for any fiscal year during the aggregate period of his employment by the Company, payable in cash in a lump sum; and the payment of premiums for medical, dental, vision, hospitalization and long term care coverage under Company plans for a period of twenty-four (24) months; (B) has the right, for a period of (i) ninety (90) days for stock options granted under any of the Company’s Employee Stock Option Plans adopted prior to 2005 and (ii) two (2) years for stock options granted under the Company’s 2005 Employee Equity Incentive Plan, 2009 Employee Equity Incentive Plan and any Plan adopted after the effective date of the Employment Agreement following his Termination Date (as defined in the Employment Agreement), to exercise the options to the extent such options are otherwise vested and exercisable as of the Termination Date under the terms of the applicable stock option agreement(s) and Plan(s); and (C) will vest in all unvested stock option grants with respect to options granted after July 1, 2012.

Mr. Zaremba and Mr. Ryan have an agreement for the payment of twelve months of annual base salary upon a change in control of the Company.

Tax deductibility of Executive Compensation

Section 162 (m) of the Code limits to $1,000,000 per person the amount that we may deduct for compensation paid to any of our most highly compensated officers in any year. In fiscal 2012, there was no executive officer's compensation that exceeded $1,000,000.

The following table sets forth information concerning the compensation awarded to, earned by or paid to our named executive officers during the past two fiscal years for services rendered to the Company:

SUMMARY COMPENSATION TABLE

Name	Fiscal Year
and Principal  Position	Ended  June 30,		Salary ($)		Bonus ($)		Options Awards ($)		Total ($)
Michael A. McManus, Jr.		2012		286,083		100,000		175,180		561,263
President and Chief		2011		283,250		50,000		74,505		407,755
Executive Officer
Richard Zaremba		2012		206,856		25,000		61,313		293,169
Senior Vice President,		2011		200,832		12,000		17,881		230,713
Chief Financial Officer,
Secretary and Treasurer
Michael Ryan		2012		242,282		10,000		61,313		313,595
Senior Vice President-Medical		2011		235,226		12,000		17,881		265,107
Division

Employment Agreements

On June 30, 2012, the Employment Agreement, dated July 13, 2009, as amended (as so amended, the “2009 Agreement”), by and between Michael A. McManus, Jr. and the Company expired pursuant to a timely notice of non-renewal delivered to the Company by Mr. McManus. Pursuant to the 2009 Agreement, Mr. McManus was employed by the Company as its President and Chief Executive Officer.

On September 11, 2012, the Company entered into a new Employment Agreement with Michael A. McManus, Jr., whereby he will continue to serve as the Company’s President and Chief Executive Officer (the “Employment Agreement”). The Employment Agreement, effective as of July 1, 2012, has an initial term expiring June 30, 2013 and renews for successive one-year periods thereafter unless terminated by either party not less than ninety (90) days prior to the end of the then-current term. The Employment Agreement provides for an annual base salary of $283,250, a company-provided automobile and an annual bonus based on Mr. McManus’ achievement of annual goals and objectives as determined by the Compensation Committee of the Board.

Mr. McManus is entitled under the Employment Agreement to participate in any plans and programs made available to the executive employees of the Company generally.

The Company can terminate the Employment Agreement for cause (as defined in the Employment Agreement). Mr. McManus can terminate the Employment Agreement for good reason (as defined in the Employment Agreement). If Mr. McManus terminates the Employment Agreement for good reason, the Company must pay him an amount equal to two times his total compensation (annual base salary plus bonus) at the highest rate paid him at any time during the aggregate time he has been employed by the Company, payable in a lump sum within sixty (60) days of termination of employment.

The Company and Mr. McManus have entered into two letter agreements providing for the exercise of vested options by Mr. McManus (i) for a ninety (90) day period after his retirement with respect to stock options granted under certain of the Company’s stock option plans and (ii) for two (2) years after Mr. McManus terminates his employment with the Company in the event of a Change-in-Control (as defined in the applicable stock option plans) and he is eligible for the severance benefits provided for by the Employment Agreement. 

In conformity with the Company's policy, all officers and employees have executed a non-solicitation and confidentiality agreement. The agreements generally provide that all inventions or discoveries by the employee related to the Company's business and all confidential information developed or made known to the employee during the term of employment shall be the exclusive property of the Company and shall not be disclosed to third parties without the prior approval of the Company. The Employment Agreement also contains non-competition provisions that preclude him from competing with the Company for a period of 18 months from the date of his termination of employment.

29

OUTSTANDING EQUITY AWARDS FOR THE 2012 FISCAL YEAR

	Number of Securities		Number of Securities
	Underlying Unexercised		Underlying Unexercised			Option		Option
Name	Options (#) Exercisable		Options (#) Unexercisable			Exercise  Price ($)		Expiration Date
Michael A. McManus, Jr.		150,000		—			5.10	09/30/12
		125,000		—			4.66	11/01/13
		125,000		—			5.18	11/01/14
		100,000		—			1.91	11/04/18
		37,500		12,500	(3)		2.44	09/09/19
		50,000		50,000	(1)		1.82	09/07/20
		25,000		75,000	(2)		2.19	09/13/21
Richard Zaremba		20,000		—			5.10	09/30/12
		15,000		—			4.70	09/16/13
		12,000		—			8.00	09/15/14
		8,000		—			7.60	09/27/15
		4,000		—			5.82	02/07/16
		12,000		—			3.45	10/20/16
		10,000		—			4.04	09/04/17
		18,000		—			2.04	09/26/18
		1,250		—			.85	12/11/18
		18,000		6,000 (3)			2.44	09/09/19
		15,000		15,000 (1)			1.82	09/07/20
		8,750		26,250 (2)			2.19	09/13/21
Michael Ryan		15,000		—			4.98	11/06/17
		18,000		—			2.04	09/26/18
		5,000		—			.85	12/11/18
		18,000		6,000 (3)			2.44	09/09/19
		15,000		15,000 (1)			1.82	09/07/20
		8,750		26,250 (2)			2.19	09/13/21

(1) Options issued 09/07/10 and vest equally over 4 years.

(2) Options issued 09/13/11 and vest equally over 4 years.

(3) Options issued 09/09/09 and vest equally over 4 years.

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Stock Options

In March 1996, the Board of Directors adopted and, in February 1997, the shareholders approved the 1996 Employee Incentive Stock Option Plan covering an aggregate of 450,000 shares (the "1996 Plan") and the 1996 Non-Employee Director Stock Option Plan (the "1996 Directors Plan") covering an aggregate of 1,125,000 shares of Common Stock. At June 30, 2012, options to purchase 41,000 shares were outstanding at exercise prices ranging from $5.18 to $7.60 per share with a vesting period of immediate to three years under the 1996 Plan and options to acquire 135,000 shares were outstanding at exercise prices ranging from $3.21 to $7.60 per share with a vesting period of immediate to three years under the 1996 Directors Plan. At June 30, 2012, options to purchase 138,295 shares under the 1996 Plan have been exercised and options to purchase 422,650 shares have been forfeited (of which options to purchase 182,945 shares have been reissued).  There are no shares available for future grants. At June 30, 2012, options to purchase 808,500 shares under the 1996 Directors Plan have been exercised and options to purchase 115,000 shares have been forfeited (of which none have been reissued). There are no shares available for future grants.

In October 1998, the Board of Directors adopted and, in January 1999, the shareholders approved the 1998 Employee Stock Option Plan (the "1998 Plan") covering an aggregate of 500,000 shares of Common Stock. At June 30, 2012, options to purchase 14,750 shares were outstanding under the 1998 Plan at exercise prices ranging from $3.45 to $7.60 per share with a vesting period of immediate to three years. At June 30, 2012, options to purchase 72,848 shares under the 1998 Plan have been exercised and options to purchase 477,677 shares under the 1998 Plan have been forfeited (of which options to purchase 65,275 shares have been reissued). At June 30, 2012, there were no shares available for future grants.

In October 2000, the Board of Directors adopted and, in February 2001, the shareholders approved the 2001 Employee Stock Option Plan (the "2001 Plan") covering an aggregate of 1,000,000 shares of Common Stock. At June 30, 2012, options to purchase 667,880 shares were outstanding under the 2001 Plan at exercise prices ranging from $1.82 to $8.00 per share with a vesting period of one to four years. At June 30, 2012, options to purchase 128,306 shares under the 2001 Plan have been exercised and options to purchase 455,075 shares under the 2001 Plan have been forfeited (of which 251,406 options have been reissued). At June 30, 2012, there were no shares available for future grants.

In September 2005, the Board of Directors adopted, and in December 2005, the shareholders approved, the 2005 Employee Equity Incentive Plan (the "2005 Plan") covering an aggregate of 500,000 shares of Common Stock and the 2005 Non-Employee Director Stock Option Plan (the "2005 Directors Plan") covering an aggregate of 200,000 shares of Common Stock. At June 30, 2012, there were options to purchase 495,550 shares outstanding under the 2005 Plan at exercise prices ranging from $.85 to $4.98 per share with a vesting period of four years. At June 30, 2012, there were 3,750 options exercised under the 2005 Plan and options to purchase 36,500 shares have been forfeited (of which 35,800 options have been reissued). At June 30, 2012, 700 shares were available for future grants under the 2005 Plan. At June 30, 2012, options to purchase 195,000 shares were outstanding under the 2005 Directors Plan at exercise prices ranging from $2.41 to $5.42 with a vesting period over three years. At June 30, 2012, there were no options exercised and 5,000 shares were available for future grants under the 2005 Directors Plan.

In December 2009, the Board of Directors and shareholders adopted the 2009 Employee Equity Incentive Plan (the "2009 Plan") covering an aggregate of 500,000 shares of Common Stock and the 2009 Non-Employee Director Stock Option Plan (the "2009 Directors Plan") covering an aggregate of 200,000 shares of Common Stock. At June 30, 2012 there were options to purchase 241,750 shares outstanding under the 2009 Plan at exercise prices ranging from $1.80 to $2.19 per share with a vesting period of four years.  At June 30, 2012, there were no options exercised and options to purchase 500 shares were forfeited under the 2009 Plan.  At June 30, 2012, there were 258,250 shares available for future grants under the 2009 Plan.  At June 30, 2012 there were options to purchase 30,000 shares outstanding under the 2009 Directors Plan at an exercise price of $2.41 per share with a vesting period of four years.  At June 30, 2012 there were no options exercised or forfeited under the 2009 Directors Plan.  At June 30, 2012, there were 170,000 shares available for future grants under the 2009 Directors Plan.

The selection of participants, allotments of shares and determination of price and other conditions relating to options are determined by the Board of Directors or a committee thereof, depending on the Plan, and in accordance with Rule 4350(c) of the Corporate Governance Requirements applicable to Nasdaq-listed companies. Incentive stock options granted under the plans are exercisable for a period of up to ten years from the date of grant at an exercise price which is not less than the fair market value of the Common Stock on the date of the grant, except that the term of an incentive stock option granted under the plans to a shareholder owning more than 10% of the outstanding Common Stock may not exceed five years and its exercise price may not be less than 110% of the fair market value of the Common Stock on the date of grant. Options shall become exercisable at such time and in such installments as provided in the terms of each individual option agreement.

31

Item 12. Security Ownership of Certain Beneficial Owners and Management and Related Stockholder Matters.

The following table sets forth as of September 20, 2012, certain information with regard to the ownership of the Company's Common Stock by (i) each beneficial owner of 5% or more of the Company's Common Stock; (ii) each director; (iii) each executive officer in the "Summary Compensation Table" above; and (iv) all executive officers and directors of the Company as a group. Unless otherwise stated, the persons named in the table have sole voting and investment power with respect to all Common Stock shown as beneficially owned by them.

	Common Stock		Percent
Name and Address (1)	Beneficially Owned		of Class
Michael A. McManus, Jr.	1,011,301	(2)	13
Dimensional Fund Advisors LP	509,934		7.3
Norman H. Pessin	365,972	(3)	5.2
Richard Zaremba	190,750	(4)	2.7
Howard Alliger	127,650	(5)	1.8
T. Guy Minetti	110,750	(6)	1.6
Thomas F. O’Neill	85,750	(7)	1.2
Michael Ryan	66,570	(8)	*
John W. Gildea	48,750	(9)	*
Charles Miner	48,750	(10)	*
All executive officers and Directors as a group (eleven people)
	1,798,653	(11)	22.8

* Less than 1%

(1) Except as otherwise noted, the business address of each of the named individuals in this table is c/o MISONIX, INC., 1938 New Highway, Farmingdale, New York 11735. Dimensional Fund Advisors LP has a principal business office at 1299 Ocean Avenue, Santa Monica, CA 90401. Norman H. Pessin has a principal business office at 366 Madison Avenue, 14^th Floor, New York, New York 10017.

(2) Includes 762,500 shares which Mr. McManus has the right to acquire upon exercise of stock options which are currently exercisable.

(3) Sandra F. Pessin, Mr. Pessin’s spouse, is listed as the beneficial owner of 94,025 of such shares in the statement on Schedule 13D filed by Mr. Pessin and Mrs. Pessin on May 24, 2012 with the SEC.

(4) Includes 158,000 shares which Mr. Zaremba has the right to acquire upon exercise of stock options which are currently exercisable.

(5) Includes 48,750 shares which Mr. Alliger has the right to acquire upon exercise of stock options which are currently exercisable.

(6) Includes 78,500 shares which Mr. Minetti has the right to acquire upon exercise of stock options which are currently exercisable.

(7) Includes 78,500 shares which Mr. O’Neill has the right to acquire upon exercise of stock options which are currently exercisable.

(8) Includes 51,570 shares which Mr. Ryan has the right to acquire upon exercise of stock options which are currently exercisable.

(9) Includes 48,750 shares which Mr. Gildea has the right to acquire upon exercise of stock options which are currently exercisable.

(10) Includes 48,750 shares which Dr. Miner has the right to acquire upon exercise of stock options which are currently exercisable.

(11) Includes the shares indicated in notes (2), (4), (5), (6), (7), (8), (9) and (10).

32

Item 13. Certain Relationships and Related Transactions, and Director Independence.

Transactions with related persons.

None.

Director Independence

The Company is required to have a Board of Directors a majority of whom are “independent” as defined by the Corporate Governance Rules applicable to Nasdaq-listed companies and to disclose those Directors that the Board has determined to be independent. Based on such definition, the Board has determined that all directors other than Mr. McManus, who is an officer of the Company, are independent. See “Item 10. Directors, Executive Officers and Corporate Governance.”

33

Item 14. Principal Accountant Fees and Services.

Audit Fees:

Grant Thornton LLP ("Grant Thornton") billed the Company $282,049 and $293,033 in the aggregate for services rendered for the audit of the Company's 2012 and 2011 fiscal years, respectively, and the review of the Company's interim financial statements included in the Company's Quarterly Reports on Form 10-Q for the Company's 2012 and 2011 fiscal years, respectively.

Audit-Related Fees:

Grant Thornton billed the Company $29,120 and $28,080 for audit-related services as defined by the SEC for the fiscal years ended June 30, 2012 and 2011, respectively.  The audit-related services were for the audits of the Company’s pension plan.

Tax Fees:

Grant Thornton did not render any tax related services, as defined by the SEC, to the Company for the fiscal years 2012 and 2011.

Policy on Pre-approval of Independent Registered Public Accounting Firm Services:

The charter of the Audit Committee provides for the pre-approval of all audit services and all permitted non-audit services to be performed for Misonix by the independent registered public accounting firm, subject to the requirements of applicable law. The procedures for pre-approving all audit and non-audit services provided by the independent registered public accounting firm include the Audit Committee reviewing audit-related services, tax services and other services. The Audit Committee periodically monitors the services rendered by and actual fees paid to the independent registered public accounting firm to ensure that such services are within the parameters approved by the Audit Committee.

34

PART IV

Item 15. Exhibits and Financial Statement Schedules.

(a)	1.	The response to this portion of Item 15 is submitted as a separate section of this Report.
	2.	Financial Statement Schedules
		Schedule II — Valuation and Qualifying Accounts.
	3.	Exhibits
	3 (a)	Restated Certificate of Incorporation of the Company. (1)
	3 (b)	By-laws of the Company. (2)
	10.1	Stock Option Plan. (3)
	10.2	Form of Indemnification Agreement. (4)
	10.3	Development and Option Agreement dated August 27, 1996 between the Company and United States Surgical Corporation. (5)
	10.4	License Agreement dated October 16, 1996 between the Company and United States Surgical Corporation. (5)
	10.5	1996 Non-Employee Director Stock Option Plan. (6)
	10.6	1996 Employee Incentive Stock Option Plan. (6)
	10.7	1998 Employee Stock Option Plan. (7)
	10.8	2001 Employee Stock Option Plan. (8)
	10.9	2005 Employee Equity Incentive Plan. (9)
	10.10	2005 Non-Employee Director Stock Option Plan. (9)
	10.11	Asset Purchase Agreement, dated as of April 7, 2009, between MISONIX LLC, MISONIX, INC. and Sonics & Materials, Inc. (10)
	10.12	Employment Agreement dated as of July 1, 2012, by and between MISONIX, INC. and Michael A. McManus, Jr. (11)
	10.13	Share Purchase Agreement, dated August 4, 2009, between MISONIX, INC., Puricore International Limited and Puricore Plc. (12)
	10.14	Loan Note Instrument, dated August 4, 2009, between Puricore International Limited and Labcaire Systems Limited and Puricore Plc. (12)
	10.15	2009 Employee Equity Incentive Plan. (13)
	10.16	2009 Non-Employee Director Stock Option Plan. (13)
	10.17	Asset Purchase Agreement, dated October 2, 2009, among Acoustic Marketing Research, Inc., MISONIX, INC. and Medical Imaging Holdings, Inc. (14)
	10.18	Asset Purchase Agreement, dated as of May 28, 2010, among MISONIX, INC., MISONIX HIFU TECHNOLOGIES LIMITED, MISONIX LIMITED and USHIFU, LLC. (15)
	10.19	[Intentionally omitted]
	10.20	Lease Modification Agreement, dated as of June 30, 2010, between Sanwood Realty Co. and the Company. (17)
	10.21	Termination Agreement, dated as of October 7, 2010, by and among Aesculap, Inc., MISONIX, INC. and Fibra-Sonics (NY) Inc. (18)
	10.22	Product License and Distribution Agreement, dated as of July 19, 2011, by and between PuriCore, Inc. and MISONIX, INC. (19)
	10.23	Asset Purchase Agreement, dated as of October 19, 2011, between MISONIX, INC. and Mystaire, Inc. (20)
	10.24	Letter Agreement, dated November 14, 2011, by and between MISONIX, INC. and Richard A. Zaremba. (21)
	10.25	Letter Agreement, dated November 14, 2011, by and between MISONIX, INC. and Michael C. Ryan. (21)
	10.26	Letter Agreement, dated as of July 1, 2012, by and between MISONIX, INC. and Michael A. McManus, Jr. (23)
	10.27	Letter Agreement, dated as of July 1, 2012, by and between MISONIX, INC. and Michael A. McManus, Jr. (23)

35

14	Code of Ethics. (22)
21	Subsidiaries of the Company.
23	Consent of Grant Thornton LLP.
31.1	Rule 13a-14(a)/15d-14(a) Certification.
31.2	Rule 13a-14(a)/15d-14(a) Certification.
32.1	Section 1350 Certification.
32.2	Section 1350 Certification.

(1)	Incorporated by reference from the Company's Registration Statement on Form S-8 (Reg. No. 333-165088).
(2)	Incorporated by reference from the Company's Current Report on Form 8-K filed on April 9, 2008.
(3)	Incorporated by reference from the Company's Registration Statement on Form S-1 (Reg. No. 33-43585).
(4)	Incorporated by reference from the Company’s Annual Report on Form 10-K for the fiscal year ended June 30, 2011.
(5)	Incorporated by reference from the Company's Annual Report on Form 10-KSB for the fiscal year 1997.
(6)	Incorporated by reference from the Company's definitive proxy statement for the Annual Meeting of Shareholders held on February 19, 1997.
(7)	Incorporated by reference from the Company's Registration Statement on Form S-8 (Reg. No. 333-78795).
(8)	Incorporated by reference from the Company’s Registration Statement on Form S-8 (Reg. No. 333-63166).
(9)	Incorporated by reference from the Company's definitive proxy statement for the Annual Meeting of Shareholders held on December 14, 2005.
(10)	Incorporated by reference from the Company's Current Report on Form 8-K filed on April 10, 2009.
(11)	Incorporated by reference from the Company's Current Report on Form 8-K filed on September 13, 2012.
(12)	Incorporated by reference from the Company's Current Report on Form 8-K filed on August 6, 2009.
(13)	Incorporated by reference from the Company's definitive proxy statement for the Annual Meeting of Shareholders held on December 8, 2009.
(14)	Incorporated by reference from the Company's Current Report on Form 8-K filed on October 8, 2009.
(15)	Incorporated by reference from the Company's Current Report on Form 8-K filed on June 4, 2010.
(16)	[Intentionally omitted]
(17)	Incorporated by reference from the Company’s Current Report on Form 8-K filed on October 13, 2010.
(18)	Incorporated by reference from the Company’s Current Report on Form 8-K filed on July 22, 2011.
(19)	Incorporated by reference from the Company’s Annual Report on Form 10-K for the fiscal year ended June 30, 2004.
(20)	Incorporated by reference from the Company’s Current Report on Form 8-K filed on October 21, 2011.
(21)	Incorporated by reference from the Company’s Current Report on Form 8-K filed on November 14, 2011.
(22)	Incorporated by reference from the Company’s Annual Report on Form 10-K for the fiscal year ended June 30, 2004.
(23)	Incorporated by reference from the Company’s Current Report on Form 8-K filed on September 13, 2012.

36

SIGNATURES

Pursuant to the requirements of Section 13 or 15(d) of the Securities Exchange Act of 1934, the registrant has duly caused this report to be signed on its behalf by the undersigned, thereunto duly authorized.

MISONIX, INC.
By:	/s/ Michael A. McManus, Jr.
	Michael A. McManus, Jr.
	President and Chief Executive Officer

Date: September 20, 2012

Pursuant to the requirements of the Securities Exchange Act of 1934, this report has been signed below by the following persons on behalf of the registrant and in the capacities and on the dates indicated.

Signature	Title	Date
/s/ Michael A. McManus, Jr.	President, Chief Executive Officer, and Director	September 20, 2012
Michael A. McManus, Jr.	(principal executive officer)
/s/ Richard Zaremba	Senior Vice President, Chief Financial Officer,	September 20, 2012
Richard Zaremba	Treasurer and Secretary
	(principal financial and accounting officer)
/s/ Howard Alliger	Director	September 20, 2012
Howard Alliger
/s/ T. Guy Minetti	Director	September 20, 2012
T. Guy Minetti
/s/ Thomas F. O'Neill	Director	September 20, 2012
Thomas F. O'Neill
/s/ John Gildea	Director	September 20, 2012
John Gildea
/s/ Charles Miner III	Director	September 20, 2012
Charles Miner III

37

Item 15(a)

INDEX TO CONSOLIDATED FINANCIAL STATEMENTS

MISONIX, INC. and Subsidiaries

For the two years ended June 30, 2012 and June 30, 2011

	Page
Report of Independent Registered Public Accounting Firm	F-1
Consolidated Balance Sheets—June 30, 2012 and 2011	F-2
Consolidated Statements of Operations—Years Ended June 30, 2012 and  2011	F-3
Consolidated Statements of Stockholders' Equity— Years Ended June 30, 2012 and 2011	F-4
Consolidated Statements of Cash Flows— Years Ended June 30, 2012 and 2011	F-5
Notes to Consolidated Financial Statements	F-6
The following consolidated financial statement schedule is included in Item 15(a)(2)
Schedule II-Valuation and Qualifying Accounts	F-27

All other schedules for which provision is made in the applicable accounting regulations of the Securities and Exchange Commission are not required under the related instructions or are inapplicable and therefore have been omitted.

38

REPORT OF INDEPENDENT REGISTERED PUBLIC ACCOUNTING FIRM

Board of Directors and Stockholders

MISONIX, INC. and Subsidiaries

We have audited the accompanying consolidated balance sheets of MISONIX, INC. and Subsidiaries (the "Company") as of June 30, 2012 and 2011, and the related consolidated statements of operations, stockholders' equity and cash flows for the years then ended. Our audits of the basic consolidated financial statements included the financial statement schedule listed in the index appearing under Item 15(a)(2). These financial statements and financial statement schedule are the responsibility of the Company's management. Our responsibility is to express an opinion on these financial statements and financial statement schedule based on our audits.

We conducted our audits in accordance with the standards of the Public Company Accounting Oversight Board (United States). Those standards require that we plan and perform the audit to obtain reasonable assurance about whether the financial statements are free of material misstatement. The Company is not required to have, nor were we engaged to perform an audit of its internal control over financial reporting. Our audit included consideration of internal control over financial reporting as a basis for designing audit procedures that are appropriate in the circumstances, but not for the purpose of expressing an opinion on the effectiveness of the Company's internal control over financial reporting. Accordingly, we express no such opinion. An audit also includes examining, on a test basis, evidence supporting the amounts and disclosures in the financial statements, assessing the accounting principles used and significant estimates made by management, as well as evaluating the overall financial statement presentation. We believe that our audits provide a reasonable basis for our opinion.

In our opinion, the consolidated financial statements referred to above present fairly, in all material respects, the financial position of MISONIX, INC. and Subsidiaries as of June 30, 2012 and 2011 and the results of their operations and their cash flows for the years then ended in conformity with accounting principles generally accepted in the United States of America. Also in our opinion, the related financial statement schedule, when considered in relation to the basic consolidated financial statements taken as a whole, presents fairly, in all material respects, the information set forth therein.

/s/ GRANT THORNTON LLP

New York, New York

September 20, 2012

F-1

MISONIX, INC. and Subsidiaries

Consolidated Balance Sheets

	June 30,			June 30,
	2012			2011
Assets
Current assets:
Cash and cash equivalents	$	6,273,015		$	6,881,093
Accounts receivable, less allowance for doubtful accounts of $155,739 and $115,739, respectively		3,158,084			2,085,972
Inventories, net		4,380,841			3,130,207
Prepaid expenses and other current assets		306,691			374,472
Note receivable		198,117			210,000
Current assets of discontinued operations		-			857,095
Total current assets		14,316,748			13,538,839
Property, plant and equipment, net		891,822			969,336
Goodwill		1,701,094			1,701,094
Intangible and other assets		1,403,173			2,127,194
Assets of discontinued operations		-			21,859
Total assets	$	18,312,837		$	18,358,322
Liabilities and stockholders' equity
Current liabilities:
Accounts payable		1,507,695			1,110,694
Accrued expenses and other current liabilities		1,074,932			1,969,078
Liabilities of discontinued operations		-			225,864
Total current liabilities		2,582,627			3,305,636
Deferred lease liability		22,996			14,043
Deferred income		117,147			161,360
Total liabilities		2,722,770			3,481,039
Commitments and contingencies
Stockholders' equity:
Common stock, $.01 par value-shares authorized 20,000,000,  7,082,920 and 7,079,170 shares issued and 7,005,360 and 7,001,370  shares outstanding, respectively		70,829			70,792
Additional paid-in capital		26,132,951			25,787,960
Accululated deficit		(10,202,720	)		(10,569,045	)
Treasury stock, at cost, 77,560 and 77,800 shares, respectively		(410,993	)		(412,424	)
Total stockholders' equity		15,590,067			14,877,283
Total liabilities and stockholders' equity	$	18,312,837		$	18,358,322

See Accompanying Notes to Consolidated Financial Statements.

F-2

MISONIX, INC. and Subsidiaries

Consolidated Statements of Operations

	For the years ended
	June 30,
	2012			2011
Net sales	$	15,678,000		$	12,373,029
Cost of goods sold		6,467,126			5,286,646
Gross profit		9,210,874			7,086,383
Operating expenses:
Selling expenses		5,031,831			3,885,784
General and administrative expenses		4,376,554			4,499,521
Research and development expenses		1,292,225			1,431,627
Total operating expenses		10,700,610			9,816,932
Loss from operations		(1,489,736	)		(2,730,549	)
Other income (expense):
Interest income		438			130
Interest expense		(416	)		(5,774	)
Royalty income and license fees		619,297			641,488
Royalty fee recovery/(expense)		96,000			(79,877	)
Other		(29,130	)		133,911
Total other income		686,189			689,878
Loss from continuing operations before income taxes		(803,547	)		(2,040,671	)
Income tax (benefit)/expense		(194,782	)		64,216
Net loss from continuing operations		(608,765	)		(2,104,887	)
Discontinued operations:
Loss from discontinued operations net of a tax benefit of $89,236 and $0, respectively		(445,987	)		(1,429,359	)
Gain from sale of discontinued operations net of tax expense of $284,337 and $0, respectively		1,421,077			-
Net income/(loss) from discontinued operations		975,090			(1,429,359	)
Net income/(loss)	$	366,325		$	(3,534,246	)
Net loss per share from continuing operations - Basic	$	(0.09	)	$	(0.30	)
Net income/(loss) per share from discontinued operations - Basic		0.14			(0.20	)
Net income/(loss) per share - Basic	$	0.05		$	(0.50	)
Net loss per share from continuing operations - Diluted	$	(0.09	)	$	(0.30	)
Net income/(loss) per share from discontinued operations - Diluted		0.14			(0.20	)
Net income/(loss) per share - Diluted	$	0.05		$	(0.50	)
Weighted average shares - Basic		7,001,930			7,001,370
Weighted average shares - Diluted		7,001,930			7,001,370

See Accompanying Notes to Consolidated Financial Statements.

F-3

MISONIX, INC. and Subsidiaries

Consolidated Statements of Stockholders' Equity

For the Years Ended June 30, 2012 and 2011

	Common Stock,
	$.01 Par Value				Treasury Stock
											Additional						Total
	Number				Number						paid-in			Accumulated			stockholders'
	of shares		Amount		of shares			Amount			capital			deficit			equity
Balance, June 30, 2010		7,079,170	$	70,792		(77,800	)	$	(412,424	)	$	25,502,717		$	(7,034,799	)	$	18,126,286
Net loss/comprehensive loss		-		-		-			-			-			(3,534,246	)		(3,534,246	)
Stock-based compensation		-		-		-			-			285,243			-			285,243
Balance, June 30, 2011		7,079,170	$	70,792		(77,800	)	$	(412,424	)	$	25,787,960		$	(10,569,045	)	$	14,877,283
Net income/comprehensive income		-		-		-			-			-			366,325			366,325
Proceeds from sale of treasury stock		-		-		240			1,431			(927	)		-			504
Proceeds from excercise of stock options		3,750		37		-			-			3,150			-			3,187
Stock-based compensation		-		-		-			-			342,768			-			342,768
Balance, June 30, 2012		7,082,920	$	70,829		(77,560	)	$	(410,993	)	$	26,132,951		$	(10,202,720	)	$	15,590,067

See Accompanying Notes to Consolidated Financial Statements.

F-4

MISONIX, INC. and Subsidiaries

Consolidated Statements of Cash Flows

	For the years ended
	June 30,
	2012			2011
Operating activities
Net loss from continuing operations	$	(608,765	)	$	(2,104,887	)
Adjustments to reconcile net loss to net cash used in continuing operating activities:
Depreciation and amortization and other non-cash items		713,524			502,438
Bad debt expense (recovery)		40,000			13,441
Stock-based compensation		342,768			285,243
Deferred income		(95,363	)		(18,016	)
Deferred lease liability		8,953			14,043
Changes in operating assets and liabilities:
Accounts receivable		(1,112,112	)		(127,186	)
Inventories		(538,991	)		(796,851	)
Prepaid expenses and other assets		190,068			234,711
Accounts payable and accrued expenses		(431,720	)		1,003,609
Net cash used in operating activities		(1,491,638	)		(993,455	)
Investing activities
Acquisition of property, plant and equipment		(474,277	)		(644,395	)
Additional patents		-			94,964
Payments for assets acquisition (note 1)		(259,760	)		(1,059,761	)
Net cash used in investing activities		(734,037	)		(1,609,192	)
Financing activities
Payments of short-term borrowings		-			(177,679	)
Principal payments on capital lease obligations		(14,274	)		(13,102	)
Proceeds from sale of treasury stock		504			-
Proceeds from excercise of stock options		3,187			-
Net cash used in financing activities		(10,583	)		(190,781	)
Cash flows from discontinued operations
Net cash used in operating activities		(97,628	)		(1,345,007	)
Net cash provided by investing activities		1,725,808			1,115,000
Net cash provided by/(used) in discontinued operations		1,628,180			(230,007	)
Effect of exchange rate changes on cash		-			3,923
Net decrease in cash and cash equivalents		(608,078	)		(3,019,512	)
Cash and cash equivalents at beginning of period		6,881,093			9,900,605
Cash and cash equivalents at end of period	$	6,273,015		$	6,881,093
Supplemental disclosure of cash flow information:
Cash paid for:
Interest	$	416		$	5,774
Income taxes	$	20,720		$	48,188

See Accompanying Notes to Consolidated Financial Statements.

F-5

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

1. Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies

Basis of Presentation

The consolidated financial statements of MISONIX, INC. ("Misonix" or the "Company") include the accounts of Misonix and its 100% owned subsidiaries, Fibra-Sonics (NY) Inc. (“F-S”) and Hearing Innovations, Inc. ("Hearing Innovations"). All significant intercompany balances and transactions have been eliminated.

Organization and Business

Misonix is a surgical device company that designs, manufactures and markets innovative therapeutic ultrasonic products worldwide for spine surgery, cranial maxillo – facial surgery, neurosurgery, wound debridement, cosmetic surgery, laparoscopic surgery and other surgical applications.

In fiscal 2012 and 2011, approximately 41% and 33%, respectively, of the Company's net sales were to foreign markets. Sales by the Company in other major industrial countries are made primarily through distributors.

Hearing Innovations is located in Farmingdale, New York and is a development company with patented HiSonic ultrasonic technology for the treatment of profound deafness and tinnitus. 

	Twelve months ended June 30,
	2012		2011
United States	$	9,297,719	$	8,329,323
Australia		238,926		234,181
Europe		2,495,582		1,668,493
Asia		1,430,708		220,797
Canada and Mexico		499,162		228,704
South America		775,309		687,321
South Africa		425,084		564,286
Middle East		515,510		266,556
Other		-		173,368
	$	15,678,000	$	12,373,029

Discontinued Operations

	For the twelve months ended
	June 30,
	2012			2011
Revenues	$	1,552,153		$	2,067,032
Loss from discontinued operations, before tax	$	(535,223	)	$	(1,429,359	)
Gain on sale of discontinued operations		1,705,414			-
Income tax (expense)/benefit		(195,101	)		-
Net income/(loss) from discontinued operations net of tax	$	975,090		$	(1,429,359	)

Current assets of discontinued operations are comprised of accounts receivable of $208,282 and inventories of $648,813 at June 30, 2011. Long-term assets of discontinued operations are comprised entirely of property, plant and equipment at June 30, 2011. Current liabilities of discontinued operations are comprised entirely of accounts payable and accrued expenses at June 30, 2011.

F-6

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

Laboratory and Forensic Safety Products Business

On October 19, 2011, Misonix sold its Laboratory and Forensic Safety Products business, which comprised substantially all of the Laboratory and Scientific Products segment, to Mystaire, Inc. (“Mystaire”) for $1.5 million in cash plus a potential additional payment of up to an aggregate $500,000 based upon 30% of net sales in excess of $2.0 million for each of the three years following the closing (the “earn-out”). The Laboratory and Forensic Safety Products business manufactured and marketed ductless fume, laminar airflow and polymerase chain reaction workstations both domestically and internationally with revenues for fiscal 2011 of approximately $2.1 million.

In accordance with the Asset Purchase Agreement with Mystaire, Misonix retained among other items, the existing accounts receivable, inventory, accounts payable and accrued expenses of the Laboratory and Forensic Safety Products business. After considering the proceeds received of $1,500,000 in cash, professional fees of $25,000 in connection with the sale and the net book value of the assets sold of $24,000, which wascomprised primarily of property and equipment, Misonix reported a gain on sale of $1,451,000 and recorded income taxes of $242,000 on the gain during the fiscal year ended June 30, 2012. The earn-out will not be factored into the gain on sale until it is earned by Misonix.

In accordance with the terms of the Transition and Manufacturing Services Agreement with Mystaire, which was entered into as part of the sale, Misonix continued for a period of six weeks to manufacture and deliver products for orders received prior to the closing date as well as to provide product to Mystaire as transition inventory, which transition period was completed on November 30, 2011.

F-7

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

The results of operations of the Laboratory and Forensic Safety Products business will be presented as discontinued operations for all periods presented as Misonix does not have any significant cash flow or continuing involvement in this business. Following the sale of the Laboratory and Forensic Safety Products business, the Company operates in one reportable segment, Medical Devices.

High Intensity Focused Ultrasound Technology

During the year ended June 30, 2012 the Company received $254,788 related to and earn-out from the May 2010 sale of its rights to the High Intensity focused Ultrasound (“HIFU”) technology to USHIFU, LLC (“USHIFU”), which has been recorded as a component of gain on the sale of discontinued operation during the period.

In consideration for the sale, Misonix will receive up to approximately $5.8 million, paid out of an earn-out of 7% of gross revenues received by USHIFU related to the business being sold up to the time the Company has received the first $3 million and thereafter 5% of the gross revenues up to the $5.8 million. Commencing 90 days after each December 31st and beginning December 31, 2011, the payment will be the greater of (a) $250,000 or (b) 7% of gross revenues receivedup to the time the Company has received the first $3 million and thereafter 5% of gross revenues up to the $5.8 million.

Labcaire Systems

On August 4, 2009, the Company sold its Labcaire Systems, Ltd. ("Labcaire") subsidiary to PuriCore International Limited ("PuriCore Limited") for a total purchase price of up to $5.6 million. The Company received $3.6 million at closing and a promissory note in the principal amount of $1 million, payable in equal installments of $250,000 on the next four anniversaries of the closing. During the year ended June 30, 2011, the Company received the first installment. The note receivable was discounted over the four years using a 4% imputed interest rate. This rate was consistent with published discounts. The discounted value of the note ($900,000) was used to determine gain or loss on the sale and the remaining outstanding balance is included in other assets in the consolidated balance sheet, with the current portion reflected as a component of notes receivable. The Company was also to receive a commission paid on sales for the period commencing on the date of closing and ending on December 31, 2013 of 8% of the pass through Automated Endoscope Reprocessing ("AER") and Drying Cabinet products, and 5% of license fees from any chemical licenses marketed by Labcaire directly associated with sale of AERs, specifically for the disinfection of the endoscope. The aggregate commission payable to the Company was also to be subject to a maximum payment of $1 million. The aggregate commission was not recognized in determining the gain or loss on the sale of Labcaire until the commission was to be paid. As of June 30, 2011, there were no commissions paid. For the year ended June 30, 2010, the Company recorded a pre-tax loss on the sale of Labcaire of $295,879. Results of Labcaire operations have been reported as a discontinued operation for all periods presented.

In January 2011, PuriCore Limited initiated a lawsuit against the Company in the High Court of Justice, Queens Bench Division, Commercial Court, Royal Courts of Justice, London, England (Claim No. 2011-42) (the "Lawsuit"). In the Lawsuit, PuriCore Limited claimed damages from the Company in respect of breach of warranties contained in the Stock Purchase Agreement, dated August 4, 2009 (the "SPA"), pursuant to which the Company sold Labcaire to PuriCore Limited. PuriCore Limited claimed damages of £2,167,000 or approximately $3,600,000, plus interest and its legal costs. The Company denied the allegations contained in the Lawsuit.

On July 19, 2011, PuriCore Limited and the Company reached an agreement to settle the Lawsuit (the "Settlement"). The Settlement provides that the Company (i) forgive in full PuriCore Limited and PuriCore plc's obligation under the SPA to pay up to $1 million of the previously unrecorded, contingent commissions (as described above); (ii) pay PuriCore, Inc. ("PuriCore"), an affiliate of PuriCore Limited, $650,000 towards PuriCore Limited's legal costs which had been accrued for as of June 30, 2011 and recorded as a component of loss from discontinued operations for the year ended June 30, 2011 and (iii) enter into a Product License and Distribution Agreement, dated as of July 19, 2011, with PuriCore (the "Distribution Agreement").

Pursuant to the Distribution Agreement, the Company has been granted the right to distribute PuriCore's Vashe^®solution products in the United States, on a private label basis, as an irrigating solution for the treatment of human wound care in conjunction with therapeutic ultrasonic procedures (the "Field"). PuriCore has agreed, subject to modification, not to sell the products that are the subject of the Distribution Agreement (the "Licensed Products") to any other therapeutic ultrasound company for distribution in the Field in the United States ("Exclusivity"). The Company has agreed not to sell or distribute in the United States in the Field any irrigating solution that has anti-microbial properties other than the Licensed Products so long as the Company has Exclusivity.

The Distribution Agreement is for a three (3) year term with automatic renewals for successive two (2) year periods; provided that the Company and PuriCore have agreed upon sales volume targets for each renewal period (such volume targets not to increase by more than ten (10%) percent year over year unless otherwise agreed) and provided that the cost terms shall be no less favorable than the twelve (12) months leading up to the start of such renewal period. In no event will the Distribution Agreement survive beyond the expiration or invalidation of all of PuriCore's patents.

During the initial term of the Distribution Agreement, the Company is obligated to either purchase or pay a minimum of $2 million in gross margin value to PuriCore for the Licensed Products (the "Minimum Payment"). The Minimum Payment is subject to downward adjustment and elimination in the event that (i) PuriCore chooses to eliminate Exclusivity, (ii) the Company's right to manufacture the Licensed Products under certain conditions has been triggered but the Company is unable to manufacture the Licensed Products or to have the Licensed Products manufactured for it by third parties or (iii) the U.S. Food and Drug Administration has made a final determination that prohibits the sale of the licensed products for use in the Field. As of June 30, 2012, Misonix has incurred approximately $321,750 towards the Minimum Payment, leaving a Minimum Payment balance of $1,678,250. At the start of fiscal 2012, the discounted value of the note was $650,000. During fiscal 2012, Misonix has purchased $451,883 of Licensed Products from Puricore, which has been offset against the note, leaving a note receivable balance of $298,117.

The Company has the right to manufacture the Licensed Products if PuriCore is unable to meet certain performance standards and will pay PuriCore a royalty after the $2 million in gross margin value requirement has been satisfied if the Company is then manufacturing the Licensed Products.

During a renewal period, PuriCore may terminate the Distribution Agreement (i) if the Company fails to purchase the agreed upon volume target for such renewal period and does not cure such failure in accordance with the Distribution Agreement or (ii) upon twelve (12) months’ notice.

F-8

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012and June 30, 2011

Reclassification

Certain prior period amounts in the accompanying financial statements and related notes have been reclassified to conform to the current period's presentation.

Cash and Cash Equivalents

The Company considers all highly liquid debt instruments purchased with a maturity of three months or less to be cash equivalents. 

The Company maintains cash balances at various financial institutions. At June 30, 2012, these financial institutions held cash that was approximately $6,034,000 in excess of amounts insured by the Federal Deposit Insurance Corporation and other government agencies.

Major Customers and Concentration of Credit Risk

Included in sales from continuing operations are sales to Covidien Ltd. (“Covidien”) of $1,484,000 and $3,260,000, Aesculap, Inc. (“Aesculap”) of $1,533,000 and $859,000, and Mentor (a Johnson & Johnson Company) of $1,492,000 and $900,000 for the fiscal years ended June 30, 2012 and 2011, respectively. Total royalties from Covidien related to their sales of the Company's ultrasonic cutting product, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery, were approximately $488,000 and $550,000 during the fiscal years ended June 30, 2012 and 2011, respectively. Accounts receivable from Covidien were approximately $586,000 and $413,000, from Aesculap were approximately $532,000 and $6,300 and from Mentor were approximately $385,000 and $171,000 at June 30, 2012 and 2011, respectively. At June 30, 2012 and 2011, the Company's accounts receivable with customers outside the United States were approximately $700,000 and $674,000, respectively.

Accounts Receivable

Accounts receivable, principally trade, are generally due within 30 to 90 days and are stated at amounts due from customers, net of an allowance for doubtful accounts. The Company performs ongoing credit evaluations and adjusts credit limits based upon payment history and the customer's current credit worthiness, as determined by a review of their current credit information. The Company continuously monitors aging reports, collections and payments from customers and maintains a provision for estimated credit losses based upon historical experience and any specific customer collection issues that have been identified. While such credit losses have historically been within expectations and the provisions established, the Company cannot guarantee that the same credit loss rates will be experienced in the future. The Company writes off accounts receivable when they become uncollectible.

F-9

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

Inventories

Inventories are stated at the lower of cost (first-in, first-out) or market and consist of raw materials, work-in-process and finished goods. Management evaluates the need to record adjustments for impairments of inventory on a quarterly basis. The Company's policy is to assess the valuation of all inventories, including raw materials, work-in-process and finished goods. Inventory items used for demonstration purposes, rentals or on consignment are classified in property, plant and equipment.

Property, Plant and Equipment

Property, plant and equipment are recorded at cost. Minor replacements and maintenance and repair expenses are charged to expense as incurred. Depreciation of property and equipment is provided using the straight-line method over estimated useful lives ranging from 3 to 5 years. Leasehold improvements are amortized over the life of the lease or the useful life of the related asset, whichever is shorter. The Company's policy is to periodically evaluate the appropriateness of the lives assigned to property, plant and equipment and make adjustments if necessary. Inventory items included in property, plant and equipment are depreciated using the straight line method over estimated useful lives of 3 to 5 years.

Revenue Recognition

The Company records revenue upon shipment for products shipped F.O.B. shipping point. Products shipped F.O.B. destination point are recorded as revenue when received at the point of destination. Shipments under agreements with distributors are not subject to return, and payment for these shipments is not contingent on sales by the distributor. Accordingly the Company recognizes revenue on shipments to distributors in the same manner as with other customers. Fees from exclusive license agreements are recognized ratably over the terms of the respective agreements. Service contracts and royalty income are recognized when earned.

The Company currently presents taxes collected from customers and remitted to governmental authorities in the statement of operations on a net basis.

Long-Lived Assets

The carrying values of intangible and other long-lived assets, excluding goodwill, are periodically reviewed to determine if any impairment indicators are present. If it is determined that such indicators are present and the review indicates that the assets will not be fully recoverable, based on undiscounted estimated cash flows over the remaining amortization and depreciation period, their carrying values are reduced to estimated fair value. Impairment indicators include, among other conditions, cash flow deficits, an historic or anticipated decline in revenue or operating profit, adverse legal or regulatory developments, accumulation of costs significantly in excess of amounts originally expected to acquire the asset and a material decrease in the fair value of some or all of the assets. Assets are grouped at the lowest level for which there are identifiable cash flows that are largely independent of the cash flows generated by other asset groups. No such impairment existed at June 30, 2012 and 2011.

Goodwill

Goodwill is not amortized. We review goodwill for impairment annually and whenever events or changes indicate that the carrying value of an asset may not be recoverable. These events or circumstances could include a significant change in the business climate, legal factors, operating performance indicators, competition, or sale or disposition of significant assets or products. Application of these impairment tests requires significant judgments, including estimation of cash flows, which is dependent on internal forecasts, estimation of the long-term rate of growth for the Company’s business, the useful life over which cash flows will occur and determination of the Company’s weighted-average cost of capital. We primarily utilize a discontinued cash flow model in determining the fair value, which consists of Level 3 inputs. Changes in the projected cash flows and discount rate estimates and assumptions underlying the valuation of goodwill could materially affect the determination of fair value at acquisition or during subsequent periods when tested for impairment. The Company completed its annual goodwill impairment tests for fiscal 2012 and 2011 in the respective fourth quarter. No impairment of goodwill was deemed to exist.

F-10

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

 For the two years ended June 30, 2012 and June 30, 2011

Intangible and Other Assets

The cost of acquiring or processing patents is capitalized at cost. This amount is being amortized using the straight-line method over the estimated useful lives of the underlying assets, which is approximately 17 years. Net patents reported in intangible and other assets totaled $561,507 and $548,016 at June 30, 2012 and 2011, respectively. Accumulated amortization totaled $479,517 and $420,359 at June 30, 2012 and 2011, respectively. Amortization expense for the years ended June 30, 2012 and 2011 was approximately $59,000 and $65,000, respectively.

On October 7, 2010, the Company, F-S and Aesculap entered into a Termination, Amendment and Buy-Back Agreement to Distributor Agreement (the "Termination Agreement"). Pursuant to the Termination Agreement, the parties agreed to terminate, as of October 15, 2010 (the "Termination Date"), (i) Misonix's remaining obligations under the Distributor Agreement dated November 1999 between Aesculap and F-S, as amended (the "Distributor Agreement"), and (ii) Aesculap's rights to sell procedure packs (the "Sale Rights") to the Sonastar Customers (as defined below). On the Termination Date, in consideration of the purchase and sale of (i) Aesculap's current service contracts ("Sonastar Contracts") for the products (the "Products") that are the subject of the Distributor Agreement, customer list and customers currently evaluating the Products all with respect to the sale and servicing of the Products (the "Customer List") and (ii) the Sale Rights, Misonix paid Aesculap $800,000. Misonix assumed all rights, responsibilities and obligations pursuant to and under the (i) Sonastar Contracts and Customer List and (ii) the Sale Rights, including, without limitation, the sale of accessory Products and servicing and training of the Products to the customers with Sonastar Contracts (the "Sonastar Customers"). Misonix also agreed to repurchase from Aesculap the current inventory of (i) new Products held by Aesculap at the price Aesculap paid for such Products and (ii) used Products held by Aesculap for demonstration and/or loaner purposes at prices equal to Aesculap's book-value as of July 31, 2010 for such Products. The purchase price for the current inventory acquired was $519,000. Aesculap also agreed to certain non-competition and non-solicitation restrictions for an eighteen (18) month period.

The Company has determined that the acquisition did not constitute a business combination in accordance with Financial Accounting Standards Board ("FASB") Accounting Standards Codification 805, “Business Combinations.” Accordingly, it has been recorded as an asset acquisition with the aggregate cost of $1,319,000 assigned to the assets acquired based upon their relative fair values. The Company has allocated $259,000 of the cost to inventory, $260,000 of the cost to equipment which will be amortized over a three year period on a straight-line basis and $800,000 to customer relationships which will be amortized on a straight-line basis over a five year period.

Net customer relationships reported in intangible and other assets totaled $520,000 and $680,000 at June 30, 2012 and June 30, 2011, respectively. Accumulated amortization amounted to $280,000 and $120,000 at June 30, 2012 and June 30, 2011, respectively. Amortization expenses for the years ended June 30, 2012 and June 30, 2011 were $160,000 and $120,000, respectively. 

The following is a schedule of estimated future amortization expense as of June 30, 2012:

			Customer
	Patents		Relationships
2013	$	70,869	$	160,000
2014		68,227		160,000
2015		62,664		160,000
2016		59,602		40,000
2017		58,661		-
Thereafter		241,484		-
	$	561,507	$	520,000

Income Taxes

Deferred tax assets and liabilities are recognized for the future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carry forwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be recovered or settled. The effect on deferred tax assets and liabilities of a change in tax rates is recognized in income in the period that includes the enactment date.  The ultimate realization of deferred tax assets is dependent upon the generation of future taxable income in those periods in which temporary differences become deductible.  Should management determine that it is more likely than not that some portion of the deferred tax asset will not be realized, a valuation allowance against the deferred tax asset would be established in the period such determination was made.

The Company recognizes a tax benefit from an uncertain tax position only if it is more likely than not that the tax position will be sustained on examination by the taxing authorities based on the technical merits of the position. The tax benefits recognized in the financial statements from such position is measured based on the largest benefit that has a greater than fifty percent likelihood of being realized upon ultimate settlement. The Company classifies income tax related interest and penalties as a component of income tax expense.

F-11

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

 For the two years ended June 30, 2012 and June 30, 2011

Income (Loss) Per Share

Basic income (loss) per common share ("Basic EPS") is computed by dividing income (loss) by the weighted average number of common shares outstanding. Diluted income (loss) per common share ("Diluted EPS") is computed by dividing income (loss) by the weighted average number of common shares and the dilutive common share equivalents and convertible securities then outstanding.

Excluded from the calculation of Diluted EPS are options to purchase 1,408,030 shares of common stock for the three months ended June 30, 2012. The excluded shares are any shares in which the average stock price for the quarter or year-to-date is less than the exercise price of the outstanding options in the period in which the Company has net income.

Diluted EPS for the twelve months ended June 30, 2012 and the twelve and the unaudited three months ended June 30, 2011 presented is the same as Basic EPS, as the inclusion of the effect of common share equivalents then outstanding would be anti-dilutive. For this reason, excluded from the calculations of Diluted EPS for the twelve months ended June 30, 2012 and twelve and the unaudited three months ended June 30, 2011 are outstanding options to purchase 1,820,930 and 1,795,415 shares, respectively.

F-12

MISONIX, INC. and Subsidiaries

 Notes to Consolidated Financial Statements

 For the two years ended June 30, 2012 and June 30, 2011

Comprehensive Income/(Loss)

Total comprehensive income/(loss) was $366,325 for the year ended June 30, 2012 and $(3,534,246) for the year ended June 30, 2011.

Research and Development

All research and development expenses are expensed as incurred and are included in operating expenses.

Advertising Expense

The cost of advertising is expensed in the period the advertising first takes place. The Company incurred approximately $105,000 and $56,000 in advertising costs during the years ended June 30, 2012 and 2011, respectively.

Use of Estimates

The preparation of financial statements in conformity with accounting principles generally accepted in the United States requires management to make estimates and judgments that affect the reported amount of assets and liabilities and disclosure of contingent assets and liabilities at the date of the financial statements and the reported amounts of revenues and expenses during the reporting period. Actual results could differ from those estimates.

Shipping and Handling

Shipping and handling fees for the years ended June 30, 2012 and 2011 were approximately $53,000 and $30,000, respectively, and are reported as a component of net sales. Shipping and handling costs for the years ended June 30, 2012 and 2011 were approximately $92,000 and $79,000, respectively, and are reported as a component of selling expenses.

Stock-Based Compensation

The Company measures compensation cost for all share based payments at fair value and recognizes the cost over the vesting period.  The Company utilizes the straight line amortization method to recognize the expense associated with the awards with graded vesting terms.

Recent Accounting Pronouncements

In December 2010, the FASB issued Accounting Standards Update (“ASU”) 2010-28, When to Perform Step 2 of the Goodwill Impairment Test for Reporting Units with Zero or Negative Carrying Amounts, to modify goodwill impairment testing for reporting units with a zero or negative carrying amount. Under the amended guidance, an entity must consider whether it is more likely than not that a goodwill impairment exists for reporting units with a zero or negative carrying amount. If it is more likely than not that a goodwill impairment exists, the second step of the goodwill impairment test in ASC 350-20-35 must be performed to measure the amount of goodwill impairment loss, if any. This standard was effective for goodwill impairment analysis for fiscal years and interim periods beginning after December 15, 2010, and became effective for our interim and annual reporting periods beginning July 1, 2011. The adoption of the guidance did not have a material impact on the Company's consolidated financial statements.

In May 2011, the FASB issued ASU No. 2011-04, Amendments to Achieve Common Fair Value Measurement and Disclosure Requirements in U.S. Generally Accepted Accounting Principlesand International Financial Reporting Standards. This guidance amends U.S. Generally Accepted Accounting Principles (“U.S. GAAP”) to conform with measurement and disclosure requirements in International Financial Reporting Standards (“IFRS”). The amendments change the wording used to describe the requirements in U.S. GAAP for measuring fair value and for disclosing information about fair value measurements, and they include those that clarify the FASB's intent about the application of existing fair value measurement and disclosure requirements and those that change a particular principle or requirement for measuring fair value or for disclosing information about fair value measurements. In addition, to improve consistency in application across jurisdictions, some changes in wording are necessary to ensure that U.S.  GAAP and IFRS fair value measurement and disclosure requirements are described in the same way. This amended guidance is to be applied prospectively and is effective for fiscal years beginning after December 15, 2011. The Company is evaluating the guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.

In June 2011, the FASB amended Accounting Standard Codification 220, Comprehensive Income.  The amendment eliminates the current option to report other comprehensive income and its components in the statement of changes in stockholders’ equity.  In accordance with the amendment, an entity has the option to present the total of comprehensive income, the components of net income, and the components of other comprehensive income in one continuous statement or in two separate, but consecutive statements.  Additionally, reclassification adjustments from other comprehensive income to net income will be presented on the face of the financial statements.  The amendment is effective for annual reporting periods beginning after December 15, 2011, which for the Company is July 1, 2012, with full retrospective application required.  As a result, the adoption of this standard will change how we present other comprehensive income (loss), which has been historically presented as part of our consolidated statements of stockholders’ equity.

In September 2011, the FASB issued Accounting Standards UpdateNo. 2011-08, Testing Goodwill for Impairment. Under the revised guidance, companies testing goodwill for impairment have the option of performing a qualitative assessment before calculating the fair value of the reporting unit (i.e., step 1 of the goodwill impairment test). If companies determine, on the basis of qualitative factors, that the fair value of the reporting unit is more likely than not less than the carrying amount, the two-step impairment test would be required. This update is effective for annual and interim goodwill impairment tests performed for fiscal years beginning after December 15, 2011, with early adoption permitted. The Company is evaluating the revised guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.

F-13

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

2. Fair Value of Financial Instruments

We follow a three-level fair value hierarchy that prioritizes the inputs to measure fair value. This hierarchy requires entities to maximize the use of "observable inputs" and minimize the use of "unobservable inputs." The three levels of inputs used to measure fair value are as follows:

Level 1: Quoted prices (unadjusted) for identical assets or liabilities in active markets as of the measurement date.

Level 2: Significant other observable inputs other than Level 1 prices such as quoted prices for similar assets or liabilities; quoted prices in markets that are not active; or other inputs that are observable or can be corroborated by observable market data.

Level 3: Significant unobservable inputs that reflect assumptions that market participants would use in pricing an asset or liability.

The following is a summary of the carrying amounts and estimated fair values of our financial instruments:

	June 30, 2012				June 30, 2011
	Carrying		Fair		Carrying		Fair
	Amount		Value		Amount		Value
Cash and cash equivalents	$	6,273,015	$	6,273,015	$	6,881,093	$	6,881,093
Trade accounts receivable		3,158,084		3,158,084		2,294,254		2,294,254
Trade accounts payable		1,507,695		1,507,695		1,336,558		1,336,558
Notes receivable – short term		198,117		198,117		210,000		210,000
Notes receivable – long term (included in other assets)		-		-		440,000		440,000

F-14

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

The following methods and assumptions were used to estimate the fair value of each class of financial instruments for which it is practicable to estimate that value:

Cash and Cash Equivalents

The carrying amount approximates fair value because of the short maturity of those instruments.

Trade Accounts Receivable

The carrying amount of trade receivables reflects net recovery value and approximates fair value because of their short outstanding terms.

Trade Accounts Payable

The carrying amount of trade payables approximates fair value because of their short outstanding terms.

Note Receivable

The carrying amount of the note receivable approximates fair value because the discount rate is fair market value.

3. Inventories

Inventories are summarized as follows:

	June 30,		June 30,
	2012		2011
Raw material	$	2,172,536	$	1,845,667
Work-in-process		875,000		1,173,639
Finished goods		1,795,529		491,015
		4,843,065		3,510,321
Less valuation reserve		462,224		380,114
	$	4,380,841	$	3,130,207

F-15

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

 For the two years ended June 30, 2012 and June 30, 2011

4. Property, Plant and Equipment

Property, plant and equipment consist of the following:

	June 30,
	2012			2011
Machinery and equipment	$	1,807,649		$	1,758,993
Furniture and fixtures		1,115,039			1,091,637
Automobiles		22,328			29,124
Leasehold improvements		443,233			438,245
Demonstration and consignment inventory		1,290,590			1,101,467
		4,678,839			4,419,466
Less: accumulated depreciation and amortization		(3,787,017	)		(3,450,130	)
	$	891,822		$	969,336

Depreciation and amortization of property, plant and equipment totaled approximately $494,000 and $329,000 for the years ended June 30, 2012 and 2011, respectively.

5. Accrued Expenses and Other Current Liabilities

The following summarizes accrued expenses and other current liabilities:

	June 30,		June 30,
	2012		2011
Accrued payroll and vacation	$	468,505	$	465,272
Accrued bonuses		200,000		200,000
Accrued commissions		96,644		141,408
Accrued professional and legal fees		74,192		752,609
Accrued royalties		25,275		154,761
Deferred income		44,213		95,363
Other		166,103		159,665
	$	1,074,932	$	1,969,078

F-16

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

6. Leases

Misonix has entered into several noncancellable operating leases for the rental of certain manufacturing and office space, equipment and automobiles expiring in various years through 2017. The principal building lease provides for a monthly rental amount of approximately $23,000. The Company also leases certain office equipment and automobiles under operating leases expiring through fiscal 2017.

The following is a schedule of future minimum lease payments, by year and in the aggregate, under operating leases with initial or remaining terms of one year or more at June 30, 2012:

	Operating
	Leases
2013	$	321,537
2014		326,555
2015		331,291
2016		25,968
2017		16,639
Total minimum lease payments	$	1,021,990

Certain of the leases provide for escalation clauses, renewal options and the payment of real estate taxes and other occupancy costs. Rent expense for all operating leases was approximately $386,000 and $420,000 for the years ended June 30, 2012 and 2011, respectively.

7. Stock-Based Compensation Plans

Stock options are granted with exercise prices not less than the fair market value of our common stock at the time of the grant, with an exercise term as determined by the Committee administering the applicable option plan (the "Committee") not to exceed 10 years. The Committee determines the vesting period for the Company's stock options. Generally, such stock options have vesting periods of immediate to four years. Certain option awards provide for accelerated vesting upon meeting specific retirement, death or disability criteria, and upon change of control. During the years ended June 30, 2012 and 2011, the Company granted options to purchase 233,750 and 294,500 shares of the Company's common stock, respectively.

Compensation expense is recognized in the general and administrative expenses line item of the Company's statements of operations on a straight-line basis over the vesting periods. There are no capitalized stock-based compensation costs at June 30, 2012 and 2011. As of June 30, 2012, there was approximately $698,820 of total unrecognized compensation cost related to non-vested share-based compensation arrangements to be recognized over a weighted-average period of 2.5 years.

F-17

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

 For the two years ended June 30, 2012 and June 30, 2011

Cash received from the exercise of stock options for the years ended June 30, 2012 and 2011 was $3,187 and $0, respectively. Cash flows from tax benefits attributable to tax deductions in excess of the compensation cost recognized for those options (excess tax benefits) are classified as financing cash flows.

The weighted average fair value at date of grant for options granted during the years ended June 30, 2012 and 2011 was $1.75 and $1.61 per share, respectively. The fair value of options at date of grant was estimated using the Black-Scholes option-pricing model utilizing the following assumptions:

	2012			2011
Risk-free interest rates		3.4	%		4.1	%
Expected option life in years		6.5			6.5
Expected stock price volatility		75.44	%		77.88	%
Expected dividend yield		0	%		0	%

The risk free interest rate is based on the U.S. Treasury yield in effect at the time of grant. The expected option term is based upon the number of years the company estimates the option will be outstanding. The expected dividend yield is based upon historical and projected dividends. The Company estimates volatility based upon historical price changes of the Company’s stock over a period equal to that of the expected life of the option.

In March 1996, the Board of Directors adopted and, in February 1997, the shareholders approved the 1996 Employee Incentive Stock Option Plan covering an aggregate of 450,000 shares (the "1996 Plan") and the 1996 Non-Employee Director Stock Option Plan (the "1996 Directors Plan") covering an aggregate of 1,125,000 shares of common stock. At June 30, 2012, options to purchase 41,000 shares were outstanding at exercise prices ranging from $5.18 to $7.60 per share with a vesting period of immediate to three years under the 1996 Plan and options to acquire 135,000 shares were outstanding at exercise prices ranging from $3.21 to $7.60 per share with a vesting period of immediate to three years under the 1996 Directors Plan. At June 30, 2012, options to purchase 138,295 shares under the 1996 Plan have been exercised and options to purchase 422,650 shares have been forfeited (of which options to purchase 182,945 shares have been reissued).  There are no shares available for future grants. At June 30, 2012, options to purchase 808,500 shares under the 1996 Directors Plan have been exercised and options to purchase 115,000 shares have been forfeited (of which none have been reissued). There are no shares available for future grants.

In October 1998, the Board of Directors adopted and, in January 1999, the shareholders approved the 1998 Employee Stock Option Plan (the "1998 Plan") covering an aggregate of 500,000 shares of common stock. At June 30, 2012, options to purchase 14,750 shares were outstanding under the 1998 Plan at exercise prices ranging from $3.45 to $7.60 per share with a vesting period of immediate to three years. At June 30, 2012, options to purchase 72,848 shares under the 1998 Plan have been exercised and options to purchase 477,677 shares under the 1998 Plan have been forfeited (of which options to purchase 65,275 shares have been reissued). At June 30, 2012, there were no shares available for future grants.

In October 2000, the Board of Directors adopted and, in February 2001, the shareholders approved the 2001 Employee Stock Option Plan (the "2001 Plan") covering an aggregate of 1,000,000 shares of common stock. At June 30, 2012, options to purchase 667,880 shares were outstanding under the 2001 Plan at exercise prices ranging from $1.82 to $8.00 per share with a vesting period of one to four years. At June 30, 2012, options to purchase 128,306 shares under the 2001 Plan have been exercised and options to purchase 455,075 shares under the 2001 Plan have been forfeited (of which 251,406 options have been reissued). At June 30, 2012, there were no shares available for future grants.

In September 2005, the Board of Directors adopted, and in December 2005, the shareholders approved, the 2005 Employee Equity Incentive Plan (the "2005 Plan") covering an aggregate of 500,000 shares of common stock and the 2005 Non-Employee Director Stock Option Plan (the "2005 Directors Plan") covering an aggregate of 200,000 shares of common stock. At June 30, 2012, there were options to purchase 495,550 shares outstanding under the 2005 Plan at exercise prices ranging from $.85 to $4.98 per share with a vesting period of four years. At June 30, 2012, there were 3,750 options exercised under the 2005 Plan and options to purchase 36,500 shares have been forfeited (of which 35,800 options have been reissued). At June 30, 2012, 700 shares were available for future grants under the 2005 Plan. At June 30, 2012, options to purchase 195,000 shares were outstanding under the 2005 Directors Plan at exercise prices ranging from $2.41 to $5.42 with a vesting period over three years. At June 30, 2012, there were no options exercised and 5,000 shares were available for future grants under the 2005 Directors Plan.

In December 2009, the Board of Directors and shareholders adopted the 2009 Employee Equity Incentive Plan (the "2009 Plan") covering an aggregate of 500,000 shares of common stock and the 2009 Non-Employee Director Stock Option Plan (the "2009 Directors Plan") covering an aggregate of 200,000 shares of common stock. At June 30, 2012 there were options to purchase 241,750 shares outstanding under the 2009 Plan at exercise prices ranging from $1.80 to $2.19 per share with a vesting period of four years.  At June 30, 2012, there were no options exercised and options to purchase 500 shares were forfeited under the 2009 Plan.  At June 30, 2012, there were 258,250 shares available for future grants under the 2009 Plan.  At June 30, 2012 there were options to purchase 30,000 shares outstanding under the 2009 Directors Plan at an exercise price of $2.41 per share with a vesting period of four years.  At June 30, 2012 there were no options exercised or forfeited under the 2009 Directors Plan.  At June 30, 2012, there were 170,000 shares available for future grants under the 2009 Directors Plan.

F-18

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

The selection of participants, allotments of shares and determination of price and other conditions relating to options are determined by the Board of Directors or a committee thereof, depending on the Plan, and in accordance with Rule 4350(c) of the Corporate Governance Requirements applicable to Nasdaq-listed companies. Incentive stock options granted under the plans are exercisable for a period of up to ten years from the date of grant at an exercise price which is not less than the fair market value of the common stock on the date of the grant, except that the term of an incentive stock option granted under the plans to a shareholder owning more than 10% of the outstanding common stock may not exceed five years and its exercise price may not be less than 110% of the fair market value of the common stock on the date of grant. Options shall become exercisable at such time and in such installments as provided in the terms of each individual option agreement.

The following table summarizes information about stock option activity during 2012 and 2011:

	Options
						Weighted
						Average
				Weighted		Remaining
	Number			Average		Contractual		Aggregate
	of			Exercise		Life		Intrinsic
	Shares			Price		Years		Value
Outstanding as of June 30, 2011		1,795,415		$	4.06
Granted		233,750			2.19
Exercised		(3,750	)		.85
Forfeited		(1,000	)		2.13
Expired		(203,485	)		6.07
Outstanding as of June 30, 2012		1,820,930		$	3.60		5.7	$	241,414
Vested and exercisable at June 30, 2012		1,243,868		$	4.30		4.7	$	96,426
Outstanding as of June 30, 2010		1,848,510		$	4.99
Granted		294,500			1.97
Exercised		—			—
Forfeited		(2,145	)		1.94
Expired		(345,450	)		7.29
Outstanding as of June 30, 2011		1,795,415		$	4.06		5.7	$	300,925
Vested and exercisable at June 30, 2011		1,241,028		$	4.92		4.1	$	68,407

F-19

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

The following table summarizes information about stock options outstanding at June 30, 2012:

		Options Outstanding						Options Exercisable
				Weighted
				Average		Weighted				Weighted
Range of				Contractual		Average				Average
Exercise				Life		Exercise				Exercise
Price		Number		(Yrs)		Price		Number		Price
	$0.85 – 2.66		943,450		7.6	$	2.13		366,388	$	2.17
	$3.21 – 4.99		322,750		3.9	$	4.37		322,750	$	4.37
	$5.10 – 8.00		554,730		2.9	$	5.66		554,730	$	5.66
			1,820,930		5.7	$	3.60		1,243,868	$	4.30

As of June 30, 2012 and 2011, 1,820,930 and 1,795,415 shares are reserved for issuance under outstanding options and 433,950 and 666,700 shares are reserved for the granting of additional options, respectively.  All outstanding options expire between September 2012 and September 2021 and vest over periods of up to four years.

8. Commitments and Contingencies

Employment Agreement

On June 30, 2012, the Employment Agreement, dated July 13, 2009, as amended (as so amended, the “2009 Agreement”), by and between Michael A. McManus, Jr. and the Company expired pursuant to a timely notice of non-renewal delivered to the Company by Mr. McManus. Pursuant to the 2009 Agreement, Mr. McManus was employed by the Company as its President and Chief Executive Officer.

On September 11, 2012, the Company entered into a new Employment Agreement with Michael A. McManus, Jr., whereby he will continue to serve as the Company’s President and Chief Executive Officer (the “Employment Agreement”). The Employment Agreement, effective as of July 1, 2012, has an initial term expiring June 30, 2013 and renews for successive one-year periods thereafter unless terminated by either party not less than ninety (90) days prior to the end of the then-current term. The Employment Agreement provides for an annual base salary of $283,250, a company-provided automobile and an annual bonus based on Mr. McManus’ achievement of annual goals and objectives as determined by the Compensation Committee of the Board.

Mr. McManus is entitled under the Employment Agreement to participate in any plans and programs made available to the executive employees of the Company generally.

The Company can terminate the Employment Agreement for cause (as defined in the Employment Agreement). Mr. McManus can terminate the Employment Agreement for good reason (as defined in the Employment Agreement). If Mr. McManus terminates the Employment Agreement for good reason, the Company must pay him an amount equal to two times his total compensation (annual base salary plus bonus) at the highest rate paid him at any time during the aggregate time he has been employed by the Company, payable in a lump sum within sixty (60) days of termination of employment.

Mr. McManus is entitled to severance pay and benefits if he terminates his employment with the Company following a Change in Control (as defined in the Employment Agreement), to provide him with an incentive to remain with the Company and consummate a strategic corporate sale or transaction that maximizes shareholder value. Severance pay and benefits are triggered upon (i) his Involuntary Termination without Cause (as defined in the Employment Agreement) for a reason other than death or Disability (as defined in the Employment Agreement) or (ii) as a result of a Constructive Termination (as defined in the Employment Agreement) which in either case occurs: (x) during the period not to exceed twenty-four (24) months after the effective date of a Change in Control, or (y) before the effective date of a Change in Control, but after the first date on which the Board and/or senior management of the Company has entered into formal negotiations with a potential acquirer that results in the consummation of a Change in Control.

In the event that pay and benefits are triggered, Mr. McManus (A) is entitled to receive severance pay in an amount equal to two (2) times the sum of (a) his annual base pay and (b) bonus at the highest rate paid him for any fiscal year during the aggregate period of his employment by the Company, payable in cash in a lump sum; and the payment of premiums for medical, dental, vision, hospitalization and long term care coverage under Company plans for a period of twenty-four (24) months; (B) has the right, for a period of (i) ninety (90) days for stock options granted under any of the Company’s Employee Stock Option Plans adopted prior to 2005 and (ii) two (2) years for stock options granted under the Company’s 2005 Employee Equity Incentive Plan, 2009 Employee Equity Incentive Plan and any Plan adopted after the effective date of the Agreement following his Termination Date (as defined in the Agreement), to exercise the options to the extent such options are otherwise vested and exercisable as of the Termination Date under the terms of the applicable stock option agreement(s) and Plan(s); and (C) will vest in all unvested stock option grants with respect to options granted after July 1, 2012.

The Company and Mr. McManus have entered into two letter agreements providing for the exercise of vested options by Mr. McManus (i) for a ninety (90) day period after his retirement with respect to stock options granted under certain of the Company’s stock option plans and (ii) for two (2) years after Mr. McManus terminates his employment with the Company in the event of a Change-in-Control (as defined in the applicable stock option plans) and he is eligible for the severance benefits provided for by the Employment Agreement.

Purchase Commitments

As of June 30, 2012 and 2011,the Company had inventory related purchase commitments totaling approximately $3,447,250 and $2,528,000, respectively.

Contingencies

The Company and its subsidiaries are from time to time involved in ordinary and routine litigation.   Management presently believes that the ultimate outcome of these proceedings, individually or in the aggregate, will not have a material adverse effect on the Company’s financial position, cash flows or result of operations. Nevertheless, litigation is subject to inherent uncertainties and an unfavorable ruling could occur.  An unfavorable ruling could include money damages and in such event, could result in a material adverse impact on the Company’s results of operations in the year in which the ruling occurs.

F-20

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

10. Income Taxes

Open tax years related to federal and state income tax filings are for the years ended June 30, 2009, 2010, 2011 and 2012. The Company files state tax returns in New York and Colorado. The Company's foreign subsidiaries, Misonix Ltd. and Misonix Urology Services Limited (formerly, UKHIFU Limited) filed tax returns in the United Kingdom. In general, open years related to the United Kingdom for filing are June 30, 2010, 2011, and 2012. As of June 30, 2012 and 2011, the Company has no material unrecognized tax benefits and no accrued interest and penalties.

Deferred income taxes reflect the net tax effects of temporary differences between the carrying amounts of assets and liabilities for financial reporting purposes and the amounts used for income tax purposes.

The tax effects of temporary differences that give rise to significant portions of the deferred tax assets and liabilities are presented below:

	June 30,
	2012			2011
Deferred tax liabilities:
Depreciation and amortization	$	(237,291	)	$	(169,095	)
Total deferred tax liabilities		(237,291	)		(169,095	)
Deferred tax assets:
Bad debt reserves		36,535			23,120
Accruals and allowances		13,506			13,732
Inventory valuation		286,527			276,453
License fee income		55,653			72,090
Stock-based compensation		225,823			229,607
Deferred gain — HIFU and Labcaire		211,263			198,145
Tax credits		475,386			424,664
Net operating loss carry forwards		4,745,221			4,608,441
Capital loss carryover		-			387,112
Other		5,993			8,468
Total deferred tax assets		6,055,907			6,241,832
Valuation allowance		(5,818,616	)		(6,072,737	)
Net deferred tax asset	$	-		$	-
Recorded as:
Current deferred tax asset	$	-		$	-
Non-current deferred tax liability, net		-			-
	$	-		$	-

As of June 30, 2012, the valuation allowance was determined by estimating the recoverability of the deferred tax assets. In assessing the realizability of deferred tax assets, management considers whether it is more likely than not that some portion or all of the deferred tax assets will not be realized. In making this assessment, the ultimate realization of deferred tax assets is dependent upon the generation of future taxable income and tax planning strategies. Based on these considerations, management concluded that it is more likely than not that its deferred tax assets will not be fully realized. The reduction in the valuation allowance is primarily due to the gain from the sale of discontinued operations.

F-21

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

As of June 30, 2012, the Company had approximately $12,000,000 U.S. federal net operating loss carryforwards which expire in tax years between 2026 and 2031.  Of the net operating loss carryforwards, approximately $3,900,000 is subject to the separate return loss rules under the Internal Revenue Code of 1986, as amended (the “Code”).  The Company has approximately $397,000 of research and development tax credit carryforwards which expire in the tax years between 2026 and 2031.  In addition, the Company has approximately $78,000 of alternative minimum tax credit which has an indefinite carryforward period.

Significant components of the income tax expense (benefit) attributable to continuing operations are as follows:

	Year ended June 30,
	2012			2011
Current:
Federal	$	(181,016	)	$	33,100
State		(13,766	)		31,116
Total current		(194,782	)		64,216
Deferred:
State		-			-
Total deferred		-			-
	$	(194,782	)	$	64,216

F-22

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

The reconciliation of income tax expense (benefit) computed at the Federal statutory tax rates to income tax expense (benefit) is as follows:

	Year ended June 30,
	2012			2011
Tax at federal statutory rates	$	(273,206	)	$	(799,394	)
State income taxes, net of federal benefit		(9,086	)		20,519
Research credit		(50,722	)		(168,495	)
Capital loss		-			(375,323	)
Stock-based compensation		116,541			80,320
Rate change		24,093			-
Valuation allowance		(21,306	)		1,295,045
Travel and entertainment		22,099			15,084
Other		(3,195	)		(3,540	)
	$	(194,782	)	$	64,216

11. Licensing Agreements for Medical Technology

In October 1996, the Company entered into a License Agreement (the "USS License") with United States Surgical (now, Covidien) for a twenty-year period, covering the further development and commercial exploitation of the Company's medical technology relating to ultrasonic cutting, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery.

The USS License gives Covidien exclusive worldwide marketing and sales rights for this technology. Under the USS License, the Company has received $475,000 in licensing fees (which are being recorded as income over the term of the USS License), plus royalties based upon net sales of such products. Total royalties from sales of this device were approximately $488,000 and $550,000 for the fiscal years ended June 30, 2012 and 2011, respectively.

12. Employee Profit Sharing Plan

The Company sponsors a retirement plan pursuant to Section 401(k) of the Code for all full time employees. Participants may contribute a percentage of compensation not to exceed the maximum allowed under the Code, which was $17,000 or $22,500 if the employee was over 50 years of age for the year ended June 30, 2012. The plan provides for a matching contribution by the Company of 10% of annual eligible compensation contributed by the participants based on years of service, which amounted to $41,964 and $42,186 for the years ended June 30, 2012 and 2011, respectively.

F-23

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

13. Quarterly Results (unaudited)

	FISCAL 2012
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	3,217,199		$	3,550,535		$	3,609,746		$	5,300,520		$	15,678,000
Cost of goods sold		1,453,407			1,281,561			1,491,225			2,240,933			6,467,126
Gross profit		1,763,792			2,268,974			2,118,521			3,059,587			9,210,874
Operating expenses:
Selling expenses		1,180,252			1,194,045			1,245,782			1,411,752			5,031,831
General and administrative expenses		1,167,820			1,082,385			1,024,029			1,102,320			4,376,554
Research and development expenses		309,974			303,702			333,308			345,241			1,292,225
Total operating expenses		2,658,046			2,580,132			2,603,119			2,859,313			10,700,610
Loss from operations		(894,254	)		(311,158	)		(484,598	)		200,274			(1,489,736	)
Other income(expense):
Interest income		19			139			248			51			457
Interest expense		(212	)		(151	)		(72	)		-			(435	)
Royalty income and license fees		138,135			188,372			135,794			156,996			619,297
Royalty( expense)/recovery		(28,570	)		149,846			(8,659	)		(16,617	)		96,000
Other		(14,144	)		(6,335	)		(4,989	)		(3,662	)		(29,130	)
Total other income		95,228			331,871			122,322			136,768			686,189
(Loss)/income from continuing operations before income taxes		(799,026	)		20,713			(362,276	)		337,042			(803,547	)
Income tax expense/(benefit)		4,960			(207,233	)		(85,862	)		93,353			(194,782	)
Net (loss)/income from continuing operations	$	(803,986	)	$	227,946		$	(276,414	)	$	243,689		$	(608,765	)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit of $0, $401,751, $(21,314) and $(185,336)		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income from discontinued operations		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income	$	(883,942	)	$	1,020,079		$	(214,625	)	$	444,813		$	366,325
Net (loss)/income per share from continuing operations - Basic	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Basic		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Basic	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05
Net (loss)/income per share from continuing operations - Diluted	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Diluted		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Diluted	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05

F-24

MISONIX, INC. and Subsidiaries

Notes to Consolidated Financial Statements

For the two years ended June 30, 2012 and June 30, 2011

	FISCAL 2011
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	2,692,268		$	2,762,556		$	3,152,771		$	3,765,434		$	12,373,029
Cost of goods sold		1,219,697			1,039,307			1,396,200			1,631,442			5,286,646
Gross profit		1,472,571			1,723,249			1,756,571			2,133,992			7,086,383
Operating expenses:
Selling expenses		820,514			907,693			972,174			1,185,403			3,885,784
General and administrative expenses		1,217,805			1,109,482			1,007,051			1,165,183			4,499,521
Research and development expenses		381,277			352,161			362,295			335,894			1,431,627
Total operating expenses		2,419,596			2,369,336			2,341,520			2,686,480			9,816,932
Loss from operations		(947,025	)		(646,087	)		(584,949	)		(552,488	)		(2,730,549	)
Other income(expense):
Interest income		50			25			18			37			130
Interest expense		(3,641	)		(1,438	)		(415	)		(280	)		(5,774	)
Royalty income and license fees		179,115			172,587			135,920			153,866			641,488
Royalty expense		(19,343	)		(20,916	)		(11,065	)		(28,553	)		(79,877	)
Other		45,409			(5,576	)		106,963			(12,885	)		133,911
Total other income		201,590			144,682			231,421			112,185			689,878
Loss from continuing operations before income taxes		(745,435	)		(501,405	)		(353,528	)		(440,303	)		(2,040,671	)
Income tax expense		38,100			4,000			4,000			18,116			64,216
Net loss income from continuing operations	$	(783,535	)	$	(505,405	)	$	(357,528	)	$	(458,419	)	$	(2,104,887	)
Discontinued operations:
Net loss from discontinued operations net of income tax expense (benefit) of $0, $0, $0 and $0		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss from discontinued operations		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss	$	(1,017,846	)	$	(536,166	)	$	(531,478	)	$	(1,448,756	)	$	(3,534,246	)
Net loss per share from continuing operations - Basic	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Basic		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Basic	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)
Net loss per share from continuing operations - Diluted	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Diluted		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Diluted	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)

F-25

MISONIX, INC. and Subsidiaries

Valuation and Qualifying Accounts

 For the years ended June 30, 2012 and June 30, 2011

Schedule II

			Column C
	Column B		Additions					Column E
	Balance at		Charged					Balance at
Column A	Beginning		to cost and		Column D			end of
Description	of period		expenses		(Deductions)			period
Allowance for doubtful accounts:
Year ended June 30:
2012	$	115,739	$	40,000	$	0		$	155,739
2011	$	123,346	$	13,441	$	(21,048	)	$	115,739

(A) Reduction in allowance for doubtful accounts due to write off of certain accounts receivable balances.

F-26

EXHIBIT INDEX

Exhibit No.	Description
21	Subsidiaries of the Company.
23	Consent of Grant Thornton LLP.
31.1	Rule 13a-14(a)/15d-14(a) Certification.
31.2	Rule 13a-14(a)/15d-14(a) Certification.
32.1	Section 1350 Certification.
32.2	Section 1350 Certification.

EX-21

Exhibit 21

Subsidiaries of the Company

1.  Misonix Limited

2. Fibra-Sonics (NY) Inc.

3. Hearing Innovations, Inc.

4. Misonix Sarl

5. Misonix HIFU Technologies Limited

6. Acoustic Marketing Research, Inc.

EX-23

Exhibit 23

CONSENT OF INDEPENDENT REGISTERED PUBLIC ACCOUNTING FIRM

We have issued our report dated September 20, 2012 with respect to the consolidated financial statements and schedule included in the Annual Report of MISONIX, INC. and Subsidiaries on Form 10-K for the year ended June 30, 2012. We hereby consent to the incorporation by reference of said report in the Registration Statements of MISONIX, INC. and Subsidiaries on Forms S-8 (File No. 333-165088, effective February 26, 2010, File No. 333-130874, effective January 5, 2006, File No. 333-63166, effective June 15, 2001, File No. 333-78795, effective May 18, 1999, File No. 333-18907, effective March 21, 1997 and File No. 33-73924, effective January 7, 1994).

/s/ GRANT THORNTON LLP

New York, New York

September 20, 2012

EX-31.1

Exhibit 31.1

CERTIFICATIONS

I, Michael A. McManus, Jr., certify that:

1. I have reviewed this annual report on Form 10-K of MISONIX, INC.;

2. Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;

3. Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4. The registrant's other certifying officer(s) and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15d-15(f)), for the registrant and have:

(a) Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;

(b) Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;

(c) Evaluated the effectiveness of the registrant's disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

(d) Disclosed in this report any change in the registrant's internal control over financial reporting that occurred during the registrant's most recent fiscal quarter (the registrant's fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant's internal control over financial reporting; and

5. The registrant's other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant's auditors and the audit committee of the registrant's board of directors (or persons performing the equivalent functions):

(a) All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant's ability to record, process, summarize and report financial information; and

(b) Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant's internal control over financial reporting.

Date: September 20, 2012

By:	/s/ Michael A. McManus, Jr.
	Michael A. McManus, Jr.
	President and Chief Executive Officer

EX-31.2

Exhibit 31.2

CERTIFICATIONS

I, Richard Zaremba, certify that:

1. I have reviewed this annual report on Form 10-K of MISONIX, INC.;

2. Based on my knowledge, this report does not contain any untrue statement of a material fact or omit to state a material fact necessary to make the statements made, in light of the circumstances under which such statements were made, not misleading with respect to the period covered by this report;

3. Based on my knowledge, the financial statements, and other financial information included in this report, fairly present in all material respects the financial condition, results of operations and cash flows of the registrant as of, and for, the periods presented in this report;

4. The registrant's other certifying officer(s) and I are responsible for establishing and maintaining disclosure controls and procedures (as defined in Exchange Act Rules 13a-15(e) and 15d-15(e)) and internal control over financial reporting (as defined in Exchange Act Rules 13a-15(f) and 15d-15(f)), for the registrant and have:

(a) Designed such disclosure controls and procedures, or caused such disclosure controls and procedures to be designed under our supervision, to ensure that material information relating to the registrant, including its consolidated subsidiaries, is made known to us by others within those entities, particularly during the period in which this report is being prepared;

(b) Designed such internal control over financial reporting, or caused such internal control over financial reporting to be designed under our supervision, to provide reasonable assurance regarding the reliability of financial reporting and the preparation of financial statements for external purposes in accordance with generally accepted accounting principles;

(c) Evaluated the effectiveness of the registrant's disclosure controls and procedures and presented in this report our conclusions about the effectiveness of the disclosure controls and procedures, as of the end of the period covered by this report based on such evaluation; and

(d) Disclosed in this report any change in the registrant's internal control over financial reporting that occurred during the registrant's most recent fiscal quarter (the registrant's fourth fiscal quarter in the case of an annual report) that has materially affected, or is reasonably likely to materially affect, the registrant's internal control over financial reporting; and

5. The registrant's other certifying officer(s) and I have disclosed, based on our most recent evaluation of internal control over financial reporting, to the registrant's auditors and the audit committee of the registrant's board of directors (or persons performing the equivalent functions):

(a) All significant deficiencies and material weaknesses in the design or operation of internal control over financial reporting which are reasonably likely to adversely affect the registrant's ability to record, process, summarize and report financial information; and

(b) Any fraud, whether or not material, that involves management or other employees who have a significant role in the registrant's internal control over financial reporting.

Date: September 20, 2012

By:	/s/ Richard Zaremba
	Richard Zaremba
	Vice President, Chief Financial Officer,
	Treasurer and Secretary

EX-32.1

Exhibit 32.1

CERTIFICATION PURSUANT TO

18 U.S.C. SECTION 1350,

AS ADOPTED PURSUANT TO

SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

In connection with the Annual Report of MISONIX, INC. (the "Company") on Form 10-K for the period ending June 30, 2012 as filed with the Securities and Exchange Commission on the date hereof (the "Report"), I, Michael A. McManus, Jr., President and Chief Executive Officer of the Company, certify, pursuant to 18 U.S.C. ss. 1350, as adopted pursuant to ss. 906 of the Sarbanes-Oxley Act of 2002, that:

(1) The Report fully complies with the requirements of section 13(a) or 15(d) of the Securities Exchange Act of 1934; and

(2) The information contained in the Report fairly presents, in all material respects, the financial condition and result of operations of the Company.

Date: September 20, 2012

By:	/s/ Michael A. McManus, Jr.
	Michael A. McManus, Jr.
	President and Chief Executive Officer

A signed original of this written statement required by Section 906, or other document authenticating, acknowledging, or otherwise adopting the signature that appears in typed form within the electronic version of this written statement required by Section 906, has been provided to MISONIX, INC. and will be retained by MISONIX, INC. and furnished to the Securities and Exchange Commission or its staff upon request.

EX-32.2

Exhibit 32.2

CERTIFICATION PURSUANT TO

18 U.S.C. SECTION 1350,

AS ADOPTED PURSUANT TO

SECTION 906 OF THE SARBANES-OXLEY ACT OF 2002

In connection with the Annual Report of MISONIX, INC. (the "Company") on Form 10-K for the period ending June 30, 2012 as filed with the Securities and Exchange Commission on the date hereof (the "Report"), I, Richard Zaremba, Vice President, Chief Financial Officer, Treasurer and Secretary of the Company, certify, pursuant to 18 U.S.C. ss. 1350, as adopted pursuant to ss. 906 of the Sarbanes-Oxley Act of 2002, that:

(1) The Report fully complies with the requirements of section 13(a) or 15(d) of the Securities Exchange Act of 1934; and

(2) The information contained in the Report fairly presents, in all material respects, the financial condition and result of operations of the Company.

Date: September 20, 2012

By:	/s/ Richard Zaremba
	Richard Zaremba
	Vice President, Chief Financial Officer,
	Treasurer and Secretary

A signed original of this written statement required by Section 906, or other document authenticating, acknowledging, or otherwise adopting the signature that appears in typed form within the electronic version of this written statement required by Section 906, has been provided to MISONIX, INC. and will be retained by MISONIX, INC. and furnished to the Securities and Exchange Commission or its staff upon request.

XML

Leases (Details) (USD $)	Jun. 30, 2012
Operating Leases, 2013	$ 321,537
Operating Leases, 2014	326,555
Operating Leases, 2015	331,291
Operating Leases, 2016	25,968
Operating Leases, 2017	16,639
Operating Leases, Total minimum lease payments	$ 1,021,990

XML

Quarterly Results (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Discontinued Operation, Tax Effect Of Discontinued Operation	$ (195,101)	$ 0
Q1 [Member]
Discontinued Operation, Tax Effect Of Discontinued Operation	0	0
Q2 [Member]
Discontinued Operation, Tax Effect Of Discontinued Operation	401,751	0
Q3 [Member]
Discontinued Operation, Tax Effect Of Discontinued Operation	(21,314)	0
Q4 [Member]
Discontinued Operation, Tax Effect Of Discontinued Operation	$ (185,336)	$ 0

XML

Income Taxes (Details 2) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Tax at federal statutory rates	$ (273,206)	$ (799,394)
State income taxes, net of federal benefit	(9,086)	20,519
Research credit	(50,722)	(168,495)
Capital loss	0	(375,323)
Stock-based compensation	116,541	80,320
Rate change	24,093	0
Valuation allowance	(21,306)	1,295,045
Travel and entertainment	22,099	15,084
Other	(3,195)	(3,540)
Income Tax Reconciliation, Nondeductible Expense,Total	$ (194,782)	$ 64,216

XML

Income Taxes (Details) (USD $)	Jun. 30, 2012	Jun. 30, 2011
Deferred tax liabilities:
Depreciation and amortization	$ (237,291)	$ (169,095)
Total deferred tax liabilities	(237,291)	(169,095)
Deferred tax assets:
Bad debt reserves	36,535	23,120
Accruals and allowances	13,506	13,732
Inventory valuation	286,527	276,453
License fee income	55,653	72,090
Stock-based compensation	225,823	229,607
Deferred gain - HIFU and Labcaire	211,263	198,145
Tax credits	475,386	424,664
Net operating loss carry forwards	4,745,221	4,608,441
Capital loss carryover	0	387,112
Other	5,993	8,468
Total deferred tax assets	6,055,907	6,241,832
Valuation allowance	(5,818,616)	(6,072,737)
Net deferred tax asset	0	0
Recorded as:
Current deferred tax asset	0	0
Non-current deferred tax liability, net	0	0
Deferred Tax Assets,Total	$ 0	$ 0

XML

Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Details Textual)	1 Months Ended			3 Months Ended	12 Months Ended			1 Months Ended	12 Months Ended		1 Months Ended	12 Months Ended							12 Months Ended						12 Months Ended										12 Months Ended
	Jul. 31, 2011 USD ($)	Aug. 31, 2009 USD ($)	Aug. 31, 2009 GBP (£)	Jun. 30, 2012 USD ($)	Jun. 30, 2012 USD ($)	Jun. 30, 2011 USD ($)	Jun. 30, 2010 USD ($)	Oct. 31, 2011 Laboratory and Forensic Safety Products Business [Member] USD ($)	Jun. 30, 2012 Laboratory and Forensic Safety Products Business [Member] USD ($)	Jun. 30, 2011 Laboratory and Forensic Safety Products Business [Member] USD ($)	May 31, 2010 High Intensity Focused Ultrasound Technology [Member] USD ($)	Jun. 30, 2012 High Intensity Focused Ultrasound Technology [Member] USD ($)	Jun. 30, 2012 Minimum [Member]	Jun. 30, 2012 Maximum [Member]	Jun. 30, 2011 Maximum [Member] USD ($)	Jun. 30, 2012 Fibra Sonics Ny Inc [Member]	Jun. 30, 2012 Aesculap Inc [Member] USD ($)	Jun. 30, 2011 Aesculap Inc [Member] USD ($)	Jun. 30, 2012 Aesculap Inc [Member] Medical Devices Segment [Member] USD ($)	Jun. 30, 2011 Aesculap Inc [Member] Medical Devices Segment [Member] USD ($)	Jun. 30, 2012 USS [Member] USD ($)	Jun. 30, 2011 USS [Member] USD ($)	Jun. 30, 2012 Mentor Byron Member [Member] USD ($)	Jun. 30, 2011 Mentor Byron Member [Member] USD ($)	Jun. 30, 2012 Mentor Byron Member [Member] Medical Devices Segment [Member] USD ($)	Jun. 30, 2011 Mentor Byron Member [Member] Medical Devices Segment [Member] USD ($)	Jun. 30, 2012 Scenario, Forecast [Member]	Jun. 30, 2012 Sales [Member] USD ($)	Jun. 30, 2011 Sales [Member] USD ($)	Jun. 30, 2012 Selling Expense [Member] USD ($)	Jun. 30, 2011 Selling Expense [Member] USD ($)	Jun. 30, 2012 Patents [Member] USD ($)	Jun. 30, 2011 Patents [Member] USD ($)	Jun. 30, 2012 Customer Relationships [Member] USD ($)	Jun. 30, 2012 Licensing Agreements [Member] USD ($)
Equity Method Investment, Ownership Percentage																100.00%
Disposal Group, Including Discontinued Operation, Accounts, Notes and Loans Receivable, Net						$ 208,282
Disposal Group, Including Discontinued Operation, Inventory						648,813
Proceeds From Sales Of Business, Affiliate and Productive Assets								1,500,000
Sale Of Business Potential Additional Payment								500,000
Sale Of Business Potential Additional Payment Determination Basis								based upon 30% of net sales in excess of $2.0 million for each of the three years following the closing (the earn-out).
Disposal Group, Including Discontinued Operation, Revenue					1,552,153	2,067,032				2,100,000
Professional Fees									25,000
Disposal Group Including Discontinued Operation Sale Of Assets Net Book Value									24,000
Discontinued Operation, Gain (Loss) From Disposal Of Discontinued Operation, Before Income Tax					1,705,414	0			1,451,000
Discontinued Operation, Tax Effect Of Discontinued Operation					(195,101)	0			242,000
Discontinued Operation, Gain (Loss) On Disposal Of Discontinued Operation, Net Of Tax					1,421,077	0						254,788
Proceeds From Sales Of Intangible Assets											5,800,000
Sale Of Intangible Assets Percentage Of Gross Revenue Received As Earn Out Upto First Benchmark											7.00%
Proceeds From Sale Of Intangible Assets First Benchmark											3,000,000
Sale Of Intangible Assets Percentage Of Gross Revene Received As Earn Out Upto Second Benchmark											5.00%
Proceeds From Sale Of Intangible Assets Second Benchmark											5,800,000
Payment Sale Of Intangible Assets Description											Commencing 90 days after each December 31st and beginning December 31, 2011, the payment will be the greater of (a) $250,000 or (b) 7% of gross revenues receivedup to the time the Company has received the first $3 million and thereafter 5% of gross revenues up to the $5.8 million.
Finite-lived Intangible Assets Acquired																																			321,750
Finite-Lived Intangible Assets, Net																																561,507		520,000	1,678,250
Discounted Value Of Notes																																			650,000
Increase (Decrease) in Notes Receivables																																			451,883
Accounts and Notes Receivable, Net																																			298,117
Entity Wide Disclosure On Geographic Areas Revenue From External Customers Attributed To Foreign Countries Percentage					41.00%	33.00%
Sale Of Business Price Quoted		5,600,000
Proceeds From Divestiture Of Businesses		3,600,000
Proceeds From Divestiture Of Businesses Debt Instrument		1,000,000
Proceeds From Divestiture Of Businesses Debt Instrument Installment Amount		250,000
Fair Value Inputs Discount Rate						4.00%
Receivable with Imputed Interest, Discount						(900,000)
Sales Commission From Discontinued Operations Percentage																											8.00%
Licence Fee From Discontinued Operations Percentage																											5.00%
Commissions Receivable From Discontinued Operations Maximum															1,000,000
Gain Loss On Sale Of Business							295,879
Contingent Commissions Written Off For Legal Settlements	1,000,000
Payments For Legal Settlements	650,000
Loss Contingency, Damages Sought, Value		3,600,000	2,167,000
Cost Term For Distribution Agreement					2,000,000
Gross Margin License Value					2,000,000
Cash, Uninsured Amount				6,034,000	6,034,000
Sales Revenue, Goods, Net					15,678,000	12,373,029													1,533,000	859,000	1,484,000	3,260,000			1,492,000	900,000
Royalty Expense					(96,000)	79,877															488,000	550,000
Accounts Receivable, Net, Current				3,158,084	3,158,084	2,085,972											532,000	6,300			586,000	413,000	385,000	171,000
Entity Wide Disclosure On Geographic Areas Accounts Receivable From External Customers Attributed To Foreign Countries				700,000	700,000	674,000
Accounts Receivable Due Number Of Days													30	90
Property, Plant and Equipment, Estimated Useful Lives													3 years	5 years
Estimated Life For Amortization Of Other Assets And Intangible					17 years
Finite-Lived Patents, Gross				561,507	561,507	548,016
Finite-Lived Intangible Assets, Accumulated Amortization																																479,517	420,359
Amortization of Intangible Assets					59,000	65,000
Fair Value Of Inventory Purchased					519,000
Fair Value of Assets Acquired					1,319,000
Cost Of Inventory To Be Amortized				259,000	259,000
Cost Of Equipment To Be Amortized				260,000	260,000
Estimated Life For Amortization Of Inventory and Equipment					P3Y
Expenses On Customer Relation To Be Amortized					800,000
Estimated Life For Amortization Of Customer Relationship Expenses					P5Y
Net Customer Relationship Expenses Reported In Other Assets				520,000	520,000	680,000
Net Customer Relationship Accumulated Amortization				280,000	280,000	120,000
Net Customer Relationship Amortization Expenses					160,000	120,000
Antidilutive Securities Excluded From Computation Of Earnings Per Share, Amount				1,408,030	1,820,930	1,795,415
Net Income (Loss) Attributable To Parent					366,325	(3,534,246)
Advertising Expense					105,000	56,000
Shipping, Handling and Transportation Costs																												$ 53,000	$ 30,000	$ 92,000	$ 79,000

XML

Accrued Expenses and Other Current Liabilities (Tables)

12 Months Ended

Jun. 30, 2012

Payables and Accruals [Abstract]

Schedule Of Accrued Expenses and Other Current Liabilities [Table Text Block]

The following summarizes accrued expenses and other current liabilities:

	June 30,		June 30,
	2012		2011
Accrued payroll and vacation	$	468,505	$	465,272
Accrued bonuses		200,000		200,000
Accrued commissions		96,644		141,408
Accrued professional and legal fees		74,192		752,609
Accrued royalties		25,275		154,761
Deferred income		44,213		95,363
Other		166,103		159,665
	$	1,074,932	$	1,969,078

XML

Licensing Agreements for Medical Technology (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Proceeds From License Fees Received	$ 475,000
Proceeds From Royalties Received	$ 488,000	$ 550,000

XML

Stock-Based Compensation Plans (Details 1) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Number of shares outstanding (in shares)	1,795,415	1,848,510
Number of shares granted (in shares)	233,750	294,500
Number of shares forfeitured (in shares)	(1,000)	(2,145)
Number of shares expired (in shares)	(203,485)	(345,450)
Number of shares outstanding (in shares)	1,820,930	1,795,415
Number of shares vested and exercisable (in shares)	1,243,868	1,241,028
Weighted average exercise price outstanding (in dollars per share)	$ 4.06	$ 4.99
Weighted average exercise price granted (in dollars per share)	$ 2.19	$ 1.97
Weighted average exercise price exercised (in dollars per share)	$ 0.85	$ 0
Weighted average exercise price forfeited (in dollars per share)	$ 2.13	$ 1.94
Weighted average exercise price expired (in dollars per share)	$ 6.07	$ 7.29
Weighted average exercise price outstanding (in dollars per share)	$ 3.60	$ 4.06
Weighted average exercise price vested and exercisable (in dollars per share)	$ 4.30	$ 4.92
Weighte average remaining contractual life outstanding	5 years 8 months 12 days	5 years 8 months 12 days
Weighte average remaining contractual life vested and exercisable	4 years 8 months 12 days	4 years 1 month 6 days
Aggregate intrinsic value outstanding	$ 241,414	$ 300,925
Aggregate intrinsic value vested and exercisable	$ 96,426	$ 68,407
Common Stock [Member]
Number of shares exercised (in shares)	(3,750)	0

XML

Property, Plant and Equipment (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Depreciation, Depletion and Amortization	$ 494,000	$ 329,000

XML

Quarterly Results (Details) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Net sales	$ 15,678,000	$ 12,373,029
Cost of goods sold	6,467,126	5,286,646
Gross profit	9,210,874	7,086,383
Operating expenses:
Selling expenses	5,031,831	3,885,784
General and administrative expenses	4,376,554	4,499,521
Research and development expenses	1,292,225	1,431,627
Total operating expenses	10,700,610	9,816,932
Loss from operations	(1,489,736)	(2,730,549)
Other income (expense):
Interest income	457	130
Interest expense	(435)	(5,774)
Royalty income and license fees	619,297	641,488
Royalty fee recovery/(expense)	96,000	(79,877)
Other	(29,130)	133,911
Total other income	686,189	689,878
(Loss)/income from continuing operations before income taxes	(803,547)	(2,040,671)
Income tax (benefit)/expense	(194,782)	64,216
Net (loss)/income from continuing operations	(608,765)	(2,104,887)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit	975,090	(1,429,359)
Net (loss)/income from discontinued operations	975,090	(1,429,359)
Net (loss)/income	366,325	(3,534,246)
Net (loss)/income per share from continuing operations - Basic (in dollars per share)	$ (0.09)	$ (0.30)
Net (loss)/income per share from discontinued operations - Basic (in dollars per share)	$ 0.14	$ (0.20)
Net (loss)/income per share - Basic (in dollars per share)	$ 0.05	$ (0.50)
Net (loss)/income per share from continuing operations - Diluted (in dollars per share)	$ (0.09)	$ (0.30)
Net (loss)/income per share from discontinued operations - Diluted (in dollars per share)	$ 0.14	$ (0.20)
Net (loss)/income per share - Diluted (in dollars per share)	$ 0.05	$ (0.50)
Q1 [Member]
Net sales	3,217,199	2,692,268
Cost of goods sold	1,453,407	1,219,697
Gross profit	1,763,792	1,472,571
Operating expenses:
Selling expenses	1,180,252	820,514
General and administrative expenses	1,167,820	1,217,805
Research and development expenses	309,974	381,277
Total operating expenses	2,658,046	2,419,596
Loss from operations	(894,254)	(947,025)
Other income (expense):
Interest income	19	50
Interest expense	(212)	(3,641)
Royalty income and license fees	138,135	179,115
Royalty fee recovery/(expense)	(28,570)	(19,343)
Other	(14,144)	45,409
Total other income	95,228	201,590
(Loss)/income from continuing operations before income taxes	(799,026)	(745,435)
Income tax (benefit)/expense	4,960	38,100
Net (loss)/income from continuing operations	(803,986)	(783,535)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit	(79,956)	(234,311)
Net (loss)/income from discontinued operations	(79,956)	(234,311)
Net (loss)/income	(883,942)	(1,017,846)
Net (loss)/income per share from continuing operations - Basic (in dollars per share)	$ (0.11)	$ (0.11)
Net (loss)/income per share from discontinued operations - Basic (in dollars per share)	$ (0.02)	$ (0.04)
Net (loss)/income per share - Basic (in dollars per share)	$ (0.13)	$ (0.15)
Net (loss)/income per share from continuing operations - Diluted (in dollars per share)	$ (0.11)	$ (0.11)
Net (loss)/income per share from discontinued operations - Diluted (in dollars per share)	$ (0.02)	$ (0.04)
Net (loss)/income per share - Diluted (in dollars per share)	$ (0.13)	$ (0.15)
Q2 [Member]
Net sales	3,550,535	2,762,556
Cost of goods sold	1,281,561	1,039,307
Gross profit	2,268,974	1,723,249
Operating expenses:
Selling expenses	1,194,045	907,693
General and administrative expenses	1,082,385	1,109,482
Research and development expenses	303,702	352,161
Total operating expenses	2,580,132	2,369,336
Loss from operations	(311,158)	(646,087)
Other income (expense):
Interest income	139	25
Interest expense	(151)	(1,438)
Royalty income and license fees	188,372	172,587
Royalty fee recovery/(expense)	149,846	(20,916)
Other	(6,335)	(5,576)
Total other income	331,871	144,682
(Loss)/income from continuing operations before income taxes	20,713	(501,405)
Income tax (benefit)/expense	(207,233)	4,000
Net (loss)/income from continuing operations	227,946	(505,405)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit	792,133	(30,761)
Net (loss)/income from discontinued operations	792,133	(30,761)
Net (loss)/income	1,020,079	(536,166)
Net (loss)/income per share from continuing operations - Basic (in dollars per share)	$ 0.03	$ (0.08)
Net (loss)/income per share from discontinued operations - Basic (in dollars per share)	$ 0.11	$ 0
Net (loss)/income per share - Basic (in dollars per share)	$ 0.15	$ (0.08)
Net (loss)/income per share from continuing operations - Diluted (in dollars per share)	$ 0.03	$ (0.08)
Net (loss)/income per share from discontinued operations - Diluted (in dollars per share)	$ 0.11	$ 0
Net (loss)/income per share - Diluted (in dollars per share)	$ 0.15	$ (0.08)
Q3 [Member]
Net sales	3,609,746	3,152,771
Cost of goods sold	1,491,225	1,396,200
Gross profit	2,118,521	1,756,571
Operating expenses:
Selling expenses	1,245,782	972,174
General and administrative expenses	1,024,029	1,007,051
Research and development expenses	333,308	362,295
Total operating expenses	2,603,119	2,341,520
Loss from operations	(484,598)	(584,949)
Other income (expense):
Interest income	248	18
Interest expense	(72)	(415)
Royalty income and license fees	135,794	135,920
Royalty fee recovery/(expense)	(8,659)	(11,065)
Other	(4,989)	106,963
Total other income	122,322	231,421
(Loss)/income from continuing operations before income taxes	(362,276)	(353,528)
Income tax (benefit)/expense	(85,862)	4,000
Net (loss)/income from continuing operations	(276,414)	(357,528)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit	61,789	(173,950)
Net (loss)/income from discontinued operations	61,789	(173,950)
Net (loss)/income	(214,625)	(531,478)
Net (loss)/income per share from continuing operations - Basic (in dollars per share)	$ (0.04)	$ (0.05)
Net (loss)/income per share from discontinued operations - Basic (in dollars per share)	$ 0.01	$ (0.03)
Net (loss)/income per share - Basic (in dollars per share)	$ (0.03)	$ (0.08)
Net (loss)/income per share from continuing operations - Diluted (in dollars per share)	$ (0.04)	$ (0.05)
Net (loss)/income per share from discontinued operations - Diluted (in dollars per share)	$ 0.01	$ (0.03)
Net (loss)/income per share - Diluted (in dollars per share)	$ (0.03)	$ (0.08)
Q4 [Member]
Net sales	5,300,520	3,765,434
Cost of goods sold	2,240,933	1,631,442
Gross profit	3,059,587	2,133,992
Operating expenses:
Selling expenses	1,411,752	1,185,403
General and administrative expenses	1,102,320	1,165,183
Research and development expenses	345,241	335,894
Total operating expenses	2,859,313	2,686,480
Loss from operations	200,274	(552,488)
Other income (expense):
Interest income	51	37
Interest expense	0	(280)
Royalty income and license fees	156,996	153,866
Royalty fee recovery/(expense)	(16,617)	(28,553)
Other	(3,662)	(12,885)
Total other income	136,768	112,185
(Loss)/income from continuing operations before income taxes	337,042	(440,303)
Income tax (benefit)/expense	93,353	18,116
Net (loss)/income from continuing operations	243,689	(458,419)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit	201,124	(990,337)
Net (loss)/income from discontinued operations	201,124	(990,337)
Net (loss)/income	$ 444,813	$ (1,448,756)
Net (loss)/income per share from continuing operations - Basic (in dollars per share)	$ 0.03	$ (0.07)
Net (loss)/income per share from discontinued operations - Basic (in dollars per share)	$ 0.03	$ (0.14)
Net (loss)/income per share - Basic (in dollars per share)	$ 0.06	$ (0.21)
Net (loss)/income per share from continuing operations - Diluted (in dollars per share)	$ 0.03	$ (0.07)
Net (loss)/income per share from discontinued operations - Diluted (in dollars per share)	$ 0.03	$ (0.14)
Net (loss)/income per share - Diluted (in dollars per share)	$ 0.06	$ (0.21)

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Income Taxes (Details 1) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Current:
Federal	$ (181,016)	$ 33,100
State	(13,766)	31,116
Total current	(194,782)	64,216
Deferred:
State	0	0
Total deferred	0	0
Income tax (benefit)/expense,Total	$ (194,782)	$ 64,216

XML

Fair Value of Financial Instruments

12 Months Ended

Jun. 30, 2012

Fair Value Disclosures [Abstract]

Fair Value Disclosures [Text Block]

2. Fair Value of Financial Instruments

We follow a three-level fair value hierarchy that prioritizes the inputs to measure fair value. This hierarchy requires entities to maximize the use of "observable inputs" and minimize the use of "unobservable inputs." The three levels of inputs used to measure fair value are as follows:

Level 1: Quoted prices (unadjusted) for identical assets or liabilities in active markets as of the measurement date.

Level 2: Significant other observable inputs other than Level 1 prices such as quoted prices for similar assets or liabilities; quoted prices in markets that are not active; or other inputs that are observable or can be corroborated by observable market data.

Level 3: Significant unobservable inputs that reflect assumptions that market participants would use in pricing an asset or liability.

The following is a summary of the carrying amounts and estimated fair values of our financial instruments:

	June 30, 2012				June 30, 2011
	Carrying		Fair		Carrying		Fair
	Amount		Value		Amount		Value
Cash and cash equivalents	$	6,273,015	$	6,273,015	$	6,881,093	$	6,881,093
Trade accounts receivable		3,158,084		3,158,084		2,294,254		2,294,254
Trade accounts payable		1,507,695		1,507,695		1,336,558		1,336,558
Notes receivable – short term		198,117		198,117		210,000		210,000
Notes receivable – long term (included in other assets)		-		-		440,000		440,000

The following methods and assumptions were used to estimate the fair value of each class of financial instruments for which it is practicable to estimate that value:

Cash and Cash Equivalents

The carrying amount approximates fair value because of the short maturity of those instruments.

Trade Accounts Receivable

The carrying amount of trade receivables reflects net recovery value and approximates fair value because of their short outstanding terms.

Trade Accounts Payable

The carrying amount of trade payables approximates fair value because of their short outstanding terms.

Note Receivable

The carrying amount of the note receivable approximates fair value because the discount rate is fair market value.

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Stock-Based Compensation Plans (Details 2) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011	Jun. 30, 2010
Options outstanding, number (in shares)	1,820,930	1,795,415	1,848,510
Weighted average contractual life, options outstanding (in years)	5 years 8 months 12 days	5 years 8 months 12 days
Weighted average exercise price, outstanding (in dollars per share)	$ 3.60
Options exercisable, number (in shares)	1,243,868
Weighted average exercise price, options exercisable (in dollars per share)	$ 4.30
Range Of Exercise Price .85 - 2.66 [Member]
Options outstanding, number (in shares)	943,450
Weighted average contractual life, options outstanding (in years)	7 years 7 months 6 days
Weighted average exercise price, outstanding (in dollars per share)	$ 2.13
Options exercisable, number (in shares)	366,388
Weighted average exercise price, options exercisable (in dollars per share)	$ 2.17
Range Of Exercise Price 3.21 - 4.99 [Member]
Options outstanding, number (in shares)	322,750
Weighted average contractual life, options outstanding (in years)	3 years 10 months 24 days
Weighted average exercise price, outstanding (in dollars per share)	$ 4.37
Options exercisable, number (in shares)	322,750
Weighted average exercise price, options exercisable (in dollars per share)	$ 4.37
Range Of Exercise Price 5.10 - 8.00 [Member]
Options outstanding, number (in shares)	554,730
Weighted average contractual life, options outstanding (in years)	2 years 10 months 24 days
Weighted average exercise price, outstanding (in dollars per share)	$ 5.66
Options exercisable, number (in shares)	554,730
Weighted average exercise price, options exercisable (in dollars per share)	$ 5.66

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Quarterly Results (Tables)

12 Months Ended

Jun. 30, 2012

Quarterly Financial Information Disclosure [Abstract]

Schedule of Quarterly Financial Information [Table Text Block]

	FISCAL 2012
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	3,217,199		$	3,550,535		$	3,609,746		$	5,300,520		$	15,678,000
Cost of goods sold		1,453,407			1,281,561			1,491,225			2,240,933			6,467,126
Gross profit		1,763,792			2,268,974			2,118,521			3,059,587			9,210,874
Operating expenses:
Selling expenses		1,180,252			1,194,045			1,245,782			1,411,752			5,031,831
General and administrative expenses		1,167,820			1,082,385			1,024,029			1,102,320			4,376,554
Research and development expenses		309,974			303,702			333,308			345,241			1,292,225
Total operating expenses		2,658,046			2,580,132			2,603,119			2,859,313			10,700,610
Loss from operations		(894,254	)		(311,158	)		(484,598	)		200,274			(1,489,736	)
Other income(expense):
Interest income		19			139			248			51			457
Interest expense		(212	)		(151	)		(72	)		-			(435	)
Royalty income and license fees		138,135			188,372			135,794			156,996			619,297
Royalty( expense)/recovery		(28,570	)		149,846			(8,659	)		(16,617	)		96,000
Other		(14,144	)		(6,335	)		(4,989	)		(3,662	)		(29,130	)
Total other income		95,228			331,871			122,322			136,768			686,189
(Loss)/income from continuing operations before income taxes		(799,026	)		20,713			(362,276	)		337,042			(803,547	)
Income tax expense/(benefit)		4,960			(207,233	)		(85,862	)		93,353			(194,782	)
Net (loss)/income from continuing operations	$	(803,986	)	$	227,946		$	(276,414	)	$	243,689		$	(608,765	)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit of $0, $401,751, $(21,314) and $(185,336)		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income from discontinued operations		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income	$	(883,942	)	$	1,020,079		$	(214,625	)	$	444,813		$	366,325
Net (loss)/income per share from continuing operations - Basic	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Basic		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Basic	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05
Net (loss)/income per share from continuing operations - Diluted	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Diluted		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Diluted	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05

	FISCAL 2011
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	2,692,268		$	2,762,556		$	3,152,771		$	3,765,434		$	12,373,029
Cost of goods sold		1,219,697			1,039,307			1,396,200			1,631,442			5,286,646
Gross profit		1,472,571			1,723,249			1,756,571			2,133,992			7,086,383
Operating expenses:
Selling expenses		820,514			907,693			972,174			1,185,403			3,885,784
General and administrative expenses		1,217,805			1,109,482			1,007,051			1,165,183			4,499,521
Research and development expenses		381,277			352,161			362,295			335,894			1,431,627
Total operating expenses		2,419,596			2,369,336			2,341,520			2,686,480			9,816,932
Loss from operations		(947,025	)		(646,087	)		(584,949	)		(552,488	)		(2,730,549	)
Other income(expense):
Interest income		50			25			18			37			130
Interest expense		(3,641	)		(1,438	)		(415	)		(280	)		(5,774	)
Royalty income and license fees		179,115			172,587			135,920			153,866			641,488
Royalty expense		(19,343	)		(20,916	)		(11,065	)		(28,553	)		(79,877	)
Other		45,409			(5,576	)		106,963			(12,885	)		133,911
Total other income		201,590			144,682			231,421			112,185			689,878
Loss from continuing operations before income taxes		(745,435	)		(501,405	)		(353,528	)		(440,303	)		(2,040,671	)
Income tax expense		38,100			4,000			4,000			18,116			64,216
Net loss income from continuing operations	$	(783,535	)	$	(505,405	)	$	(357,528	)	$	(458,419	)	$	(2,104,887	)
Discontinued operations:
Net loss from discontinued operations net of income tax expense (benefit) of $0, $0, $0 and $0		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss from discontinued operations		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss	$	(1,017,846	)	$	(536,166	)	$	(531,478	)	$	(1,448,756	)	$	(3,534,246	)
Net loss per share from continuing operations - Basic	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Basic		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Basic	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)
Net loss per share from continuing operations - Diluted	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Diluted		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Diluted	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)

Schedule Of Valuation And Qualifying Accounts [Table Text Block]

			Column C
	Column B		Additions					Column E
	Balance at		Charged					Balance at
Column A	Beginning		to cost and		Column D			end of
Description	of period		expenses		(Deductions)			period
Allowance for doubtful accounts:
Year ended June 30:
2012	$	115,739	$	40,000	$	0		$	155,739
2011	$	123,346	$	13,441	$	(21,048	)	$	115,739

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Income Taxes (Tables)

12 Months Ended

Jun. 30, 2012

Income Tax Disclosure [Abstract]

Schedule of Deferred Tax Assets and Liabilities [Table Text Block]

The tax effects of temporary differences that give rise to significant portions of the deferred tax assets and liabilities are presented below:

	June 30,
	2012			2011
Deferred tax liabilities:
Depreciation and amortization	$	(237,291	)	$	(169,095	)
Total deferred tax liabilities		(237,291	)		(169,095	)
Deferred tax assets:
Bad debt reserves		36,535			23,120
Accruals and allowances		13,506			13,732
Inventory valuation		286,527			276,453
License fee income		55,653			72,090
Stock-based compensation		225,823			229,607
Deferred gain — HIFU and Labcaire		211,263			198,145
Tax credits		475,386			424,664
Net operating loss carry forwards		4,745,221			4,608,441
Capital loss carryover		-			387,112
Other		5,993			8,468
Total deferred tax assets		6,055,907			6,241,832
Valuation allowance		(5,818,616	)		(6,072,737	)
Net deferred tax asset	$	-		$	-
Recorded as:
Current deferred tax asset	$	-		$	-
Non-current deferred tax liability, net		-			-
	$	-		$	-

Schedule of Components of Income Tax Expense (Benefit) [Table Text Block]

Significant components of the income tax expense (benefit) attributable to continuing operations are as follows:

	Year ended June 30,
	2012			2011
Current:
Federal	$	(181,016	)	$	33,100
State		(13,766	)		31,116
Total current		(194,782	)		64,216
Deferred:
State		-			-
Total deferred		-			-
	$	(194,782	)	$	64,216

Federal Income Tax Note [Table Text Block]

The reconciliation of income tax expense (benefit) computed at the Federal statutory tax rates to income tax expense (benefit) is as follows:

	Year ended June 30,
	2012			2011
Tax at federal statutory rates	$	(273,206	)	$	(799,394	)
State income taxes, net of federal benefit		(9,086	)		20,519
Research credit		(50,722	)		(168,495	)
Capital loss		-			(375,323	)
Stock-based compensation		116,541			80,320
Rate change		24,093			-
Valuation allowance		(21,306	)		1,295,045
Travel and entertainment		22,099			15,084
Other		(3,195	)		(3,540	)
	$	(194,782	)	$	64,216

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Stock-Based Compensation Plans (Details Textual) (USD $)	12 Months Ended			12 Months Ended												12 Months Ended			12 Months Ended			12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011	Jun. 30, 2010	Jun. 30, 2012 Plan 1996 [Member]	Jun. 30, 2012 Plan 1996 [Member] Exercise Price Range Five Point One Eight To Seven Point Six Zero [Member]	Jun. 30, 2012 Directors Plan 1996 [Member]	Jun. 30, 2012 Directors Plan 1996 [Member] Exercise Price Range Three Point Two One To Seven Point Six Zero [Member]	Jun. 30, 2012 Plan 1998 [Member]	Jun. 30, 2012 Plan 1998 [Member] Exercise Price Range Three Point Four Five To Seven Point Six Zero [Member]	Jun. 30, 2012 Plan 2001 [Member]	Jun. 30, 2012 Plan 2001 [Member] Exercise Price Range Five Point One Eight To Seven Point Six Zero [Member] Maximum [Member]	Jun. 30, 2012 Plan 2001 [Member] Exercise Price Range One Point Eight Two To Eight [Member]	Jun. 30, 2012 Plan 2001 [Member] Exercise Price Range One Point Eight Two To Eight [Member] Minimum [Member]	Jun. 30, 2012 Plan 2005 [Member]	Dec. 31, 2005 Plan 2005 [Member]	Jun. 30, 2012 Plan 2005 [Member] Exercise Price Range Zero Point Eight Five To Four Point Nine Eight [Member]	Jun. 30, 2012 Directors Plan 2005 [Member]	Dec. 31, 2005 Directors Plan 2005 [Member]	Jun. 30, 2012 Directors Plan 2005 [Member] Exercise Price Range Two Point Four One To Five Point Four Two [Member]	Jun. 30, 2012 Plan 2009 [Member]	Dec. 31, 2009 Plan 2009 [Member]	Jun. 30, 2012 Directors Plan 2009 [Member]	Dec. 31, 2009 Directors Plan 2009 [Member]
Share-based Compensation Arrangement by Share-based Payment Award, Options, Grants in Period	233,750	294,500
Employee Service Share Based Compensation Nonvested Awards Total Compensation Cost Not Yet Recognized Period For Recognition 1	2 years 6 months
Employee Service Share-based Compensation, Cash Received from Exercise of Stock Options	$ 3,187	$ 0
Share-based Compensation Arrangement by Share-based Payment Award, Options, Grants in Period, Weighted Average Grant Date Fair Value	$ 1.75	$ 1.61
Share-based Compensation Arrangement by Share-based Payment Award, Number of Shares Authorized				450,000		1,125,000		500,000		1,000,000					500,000			200,000			500,000		200,000
Share-based Compensation Arrangement by Share-based Payment Award, Options, Outstanding, Number	1,820,930	1,795,415	1,848,510		41,000		135,000		14,750			667,880				495,550			195,000	241,750		30,000
Share-based Compensation, Shares Authorized under Stock Option Plans, Exercise Price Range, Lower Range Limit					$ 5.18		$ 3.21		$ 3.45			$ 1.82				$ 0.85			$ 2.41	$ 1.80
Share-based Compensation, Shares Authorized under Stock Option Plans, Exercise Price Range, Upper Range Limit					$ 7.60		$ 7.60		$ 7.60			$ 8				$ 4.98			$ 5.42	$ 2.19
Share-Based Compensation Arrangement By Share-Based Payment Award, Options, Exercises In Period				138,295		808,500		72,848		128,306				3,750
Share-based Compensation Arrangement by Share-based Payment Award, Options, Forfeitures in Period	(1,000)	(2,145)		422,650		115,000		477,677		455,075				36,500						500
Share-based Compensation Arrangement by Share-based Payment Award, Options, Grants in Period, Gross				182,945				65,275		251,406				35,800
Share-based Compensation Arrangement by Share-based Payment Award, Number of Shares Available for Grant	433,950	666,700												700			5,000			258,250		170,000
Share-based Compensation Arrangement by Share-based Payment Award, Options, Outstanding, Weighted Average Exercise Price	$ 3.60																					$ 2.41
Employee Service Share Based Compensation Nonvested Awards Total Compensation Cost Not Yet Recognized Stock Options	$ 698,820
Sharebased Compensation Arrangement By Sharebased Payment Award Exercisable Period Description	The selection of participants, allotments of shares and determination of price and other conditions relating to options are determined by the Board of Directors or a committee thereof, depending on the Plan, and in accordance with Rule 4350(c) of the Corporate Governance Requirements applicable to Nasdaq-listed companies. Incentive stock options granted under the plans are exercisable for a period of up to ten years from the date of grant at an exercise price which is not less than the fair market value of the common stock on the date of the grant, except that the term of an incentive stock option granted under the plans to a shareholder owning more than 10% of the outstanding common stock may not exceed five years and its exercise price may not be less than 110% of the fair market value of the common stock on the date of grant. Options shall become exercisable at such time and in such installments as provided in the terms of each individual option agreement.
Share-based Compensation Arrangement by Share-based Payment Award, Terms of Award	not to exceed 10 years
Share-based Compensation Arrangement by Share-based Payment Award, Award Vesting Period	4 years				3 years		3 years		3 years		4 years		1 year			4 years			3 years	4 years		4 years
Sharebased Compensation Arrangement By Sharebased Payment Award Expiration	All outstanding options expire between September 2012 and September 2021

XML

Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Details) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Net sales	$ 15,678,000	$ 12,373,029
United States [Member]
Net sales	9,297,719	8,329,323
Australia [Member]
Net sales	238,926	234,181
Europe [Member]
Net sales	2,495,582	1,668,493
Asia [Member]
Net sales	1,430,708	220,797
Canada and Mexico [Member]
Net sales	499,162	228,704
South America [Member]
Net sales	775,309	687,321
South Africa [Member]
Net sales	425,084	564,286
Middle East [Member]
Net sales	515,510	266,556
Other Segment [Member]
Net sales	$ 0	$ 173,368

XML

Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Details 1) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Revenues	$ 1,552,153	$ 2,067,032
Loss from discontinued operations, before tax	(535,223)	(1,429,359)
Gain on sale of discontinued operations	1,705,414	0
Income tax (expense)/benefit	(195,101)	0
Net income/(loss) from discontinued operations net of tax	$ 975,090	$ (1,429,359)

XML

Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies

12 Months Ended

Jun. 30, 2012

Accounting Policies [Abstract]

Basis of Presentation and Significant Accounting Policies [Text Block]

1. Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies

Basis of Presentation

The consolidated financial statements of MISONIX, INC. ("Misonix" or the "Company") include the accounts of Misonix and its 100% owned subsidiaries, Fibra-Sonics (NY) Inc. (“F-S”) and Hearing Innovations, Inc. ("Hearing Innovations"). All significant intercompany balances and transactions have been eliminated.

Organization and Business

Misonix is a surgical device company that designs, manufactures and markets innovative therapeutic ultrasonic products worldwide for spine surgery, cranial maxillo – facial surgery, neurosurgery, wound debridement, cosmetic surgery, laparoscopic surgery and other surgical applications.

In fiscal 2012 and 2011, approximately 41% and 33%, respectively, of the Company's net sales were to foreign markets. Sales by the Company in other major industrial countries are made primarily through distributors.

Hearing Innovations is located in Farmingdale, New York and is a development company with patented HiSonic ultrasonic technology for the treatment of profound deafness and tinnitus. 

	Twelve months ended June 30,
	2012		2011
United States	$	9,297,719	$	8,329,323
Australia		238,926		234,181
Europe		2,495,582		1,668,493
Asia		1,430,708		220,797
Canada and Mexico		499,162		228,704
South America		775,309		687,321
South Africa		425,084		564,286
Middle East		515,510		266,556
Other		-		173,368
	$	15,678,000	$	12,373,029

Discontinued Operations

	For the twelve months ended
	June 30,
	2012			2011
Revenues	$	1,552,153		$	2,067,032
Loss from discontinued operations, before tax	$	(535,223	)	$	(1,429,359	)
Gain on sale of discontinued operations		1,705,414			-
Income tax (expense)/benefit		(195,101	)		-
Net income/(loss) from discontinued operations net of tax	$	975,090		$	(1,429,359	)

Current assets of discontinued operations are comprised of accounts receivable of $208,282 and inventories of $648,813 at June 30, 2011. Long-term assets of discontinued operations are comprised entirely of property, plant and equipment at June 30, 2011. Current liabilities of discontinued operations are comprised entirely of accounts payable and accrued expenses at June 30, 2011.

Laboratory and Forensic Safety Products Business

On October 19, 2011, Misonix sold its Laboratory and Forensic Safety Products business, which comprised substantially all of the Laboratory and Scientific Products segment, to Mystaire, Inc. (“Mystaire”) for $1.5 million in cash plus a potential additional payment of up to an aggregate $500,000 based upon 30% of net sales in excess of $2.0 million for each of the three years following the closing (the “earn-out”). The Laboratory and Forensic Safety Products business manufactured and marketed ductless fume, laminar airflow and polymerase chain reaction workstations both domestically and internationally with revenues for fiscal 2011 of approximately $2.1 million.

In accordance with the Asset Purchase Agreement with Mystaire, Misonix retained among other items, the existing accounts receivable, inventory, accounts payable and accrued expenses of the Laboratory and Forensic Safety Products business. After considering the proceeds received of $1,500,000 in cash, professional fees of $25,000 in connection with the sale and the net book value of the assets sold of $24,000, which wascomprised primarily of property and equipment, Misonix reported a gain on sale of $1,451,000 and recorded income taxes of $242,000 on the gain during the fiscal year ended June 30, 2012. The earn-out will not be factored into the gain on sale until it is earned by Misonix.

In accordance with the terms of the Transition and Manufacturing Services Agreement with Mystaire, which was entered into as part of the sale, Misonix continued for a period of six weeks to manufacture and deliver products for orders received prior to the closing date as well as to provide product to Mystaire as transition inventory, which transition period was completed on November 30, 2011.

The results of operations of the Laboratory and Forensic Safety Products business will be presented as discontinued operations for all periods presented as Misonix does not have any significant cash flow or continuing involvement in this business. Following the sale of the Laboratory and Forensic Safety Products business, the Company operates in one reportable segment, Medical Devices.

High Intensity Focused Ultrasound Technology

During the year ended June 30, 2012 the Company received $254,788 related to and earn-out from the May 2010 sale of its rights to the High Intensity focused Ultrasound (“HIFU”) technology to USHIFU, LLC (“USHIFU”), which has been recorded as a component of gain on the sale of discontinued operation during the period.

In consideration for the sale, Misonix will receive up to approximately $5.8 million, paid out of an earn-out of 7% of gross revenues received by USHIFU related to the business being sold up to the time the Company has received the first $3 million and thereafter 5% of the gross revenues up to the $5.8 million. Commencing 90 days after each December 31st and beginning December 31, 2011, the payment will be the greater of (a) $250,000 or (b) 7% of gross revenues receivedup to the time the Company has received the first $3 million and thereafter 5% of gross revenues up to the $5.8 million.

Labcaire Systems

On August 4, 2009, the Company sold its Labcaire Systems, Ltd. ("Labcaire") subsidiary to PuriCore International Limited ("PuriCore Limited") for a total purchase price of up to $5.6 million. The Company received $3.6 million at closing and a promissory note in the principal amount of $1 million, payable in equal installments of $250,000 on the next four anniversaries of the closing. During the year ended June 30, 2011, the Company received the first installment. The note receivable was discounted over the four years using a 4% imputed interest rate. This rate was consistent with published discounts. The discounted value of the note ($900,000) was used to determine gain or loss on the sale and the remaining outstanding balance is included in other assets in the consolidated balance sheet, with the current portion reflected as a component of notes receivable. The Company was also to receive a commission paid on sales for the period commencing on the date of closing and ending on December 31, 2013 of 8% of the pass through Automated Endoscope Reprocessing ("AER") and Drying Cabinet products, and 5% of license fees from any chemical licenses marketed by Labcaire directly associated with sale of AERs, specifically for the disinfection of the endoscope. The aggregate commission payable to the Company was also to be subject to a maximum payment of $1 million. The aggregate commission was not recognized in determining the gain or loss on the sale of Labcaire until the commission was to be paid. As of June 30, 2011, there were no commissions paid. For the year ended June 30, 2010, the Company recorded a pre-tax loss on the sale of Labcaire of $295,879. Results of Labcaire operations have been reported as a discontinued operation for all periods presented.

In January 2011, PuriCore Limited initiated a lawsuit against the Company in the High Court of Justice, Queens Bench Division, Commercial Court, Royal Courts of Justice, London, England (Claim No. 2011-42) (the "Lawsuit"). In the Lawsuit, PuriCore Limited claimed damages from the Company in respect of breach of warranties contained in the Stock Purchase Agreement, dated August 4, 2009 (the "SPA"), pursuant to which the Company sold Labcaire to PuriCore Limited. PuriCore Limited claimed damages of £2,167,000 or approximately $3,600,000, plus interest and its legal costs. The Company denied the allegations contained in the Lawsuit.

On July 19, 2011, PuriCore Limited and the Company reached an agreement to settle the Lawsuit (the "Settlement"). The Settlement provides that the Company (i) forgive in full PuriCore Limited and PuriCore plc's obligation under the SPA to pay up to $1 million of the previously unrecorded, contingent commissions (as described above); (ii) pay PuriCore, Inc. ("PuriCore"), an affiliate of PuriCore Limited, $650,000 towards PuriCore Limited's legal costs which had been accrued for as of June 30, 2011 and recorded as a component of loss from discontinued operations for the year ended June 30, 2011 and (iii) enter into a Product License and Distribution Agreement, dated as of July 19, 2011, with PuriCore (the "Distribution Agreement").

Pursuant to the Distribution Agreement, the Company has been granted the right to distribute PuriCore's Vashe^®solution products in the United States, on a private label basis, as an irrigating solution for the treatment of human wound care in conjunction with therapeutic ultrasonic procedures (the "Field"). PuriCore has agreed, subject to modification, not to sell the products that are the subject of the Distribution Agreement (the "Licensed Products") to any other therapeutic ultrasound company for distribution in the Field in the United States ("Exclusivity"). The Company has agreed not to sell or distribute in the United States in the Field any irrigating solution that has anti-microbial properties other than the Licensed Products so long as the Company has Exclusivity.

The Distribution Agreement is for a three (3) year term with automatic renewals for successive two (2) year periods; provided that the Company and PuriCore have agreed upon sales volume targets for each renewal period (such volume targets not to increase by more than ten (10%) percent year over year unless otherwise agreed) and provided that the cost terms shall be no less favorable than the twelve (12) months leading up to the start of such renewal period. In no event will the Distribution Agreement survive beyond the expiration or invalidation of all of PuriCore's patents.

During the initial term of the Distribution Agreement, the Company is obligated to either purchase or pay a minimum of $2 million in gross margin value to PuriCore for the Licensed Products (the "Minimum Payment"). The Minimum Payment is subject to downward adjustment and elimination in the event that (i) PuriCore chooses to eliminate Exclusivity, (ii) the Company's right to manufacture the Licensed Products under certain conditions has been triggered but the Company is unable to manufacture the Licensed Products or to have the Licensed Products manufactured for it by third parties or (iii) the U.S. Food and Drug Administration has made a final determination that prohibits the sale of the licensed products for use in the Field. As of June 30, 2012, Misonix has incurred approximately $321,750 towards the Minimum Payment, leaving a Minimum Payment balance of $1,678,250. At the start of fiscal 2012, the discounted value of the note was $650,000. During fiscal 2012, Misonix has purchased $451,883 of Licensed Products from Puricore, which has been offset against the note, leaving a note receivable balance of $298,117.

The Company has the right to manufacture the Licensed Products if PuriCore is unable to meet certain performance standards and will pay PuriCore a royalty after the $2 million in gross margin value requirement has been satisfied if the Company is then manufacturing the Licensed Products.

During a renewal period, PuriCore may terminate the Distribution Agreement (i) if the Company fails to purchase the agreed upon volume target for such renewal period and does not cure such failure in accordance with the Distribution Agreement or (ii) upon twelve (12) months’ notice.

Reclassification

Certain prior period amounts in the accompanying financial statements and related notes have been reclassified to conform to the current period's presentation.

Cash and Cash Equivalents

The Company considers all highly liquid debt instruments purchased with a maturity of three months or less to be cash equivalents. 

The Company maintains cash balances at various financial institutions. At June 30, 2012, these financial institutions held cash that was approximately $6,034,000 in excess of amounts insured by the Federal Deposit Insurance Corporation and other government agencies.

Major Customers and Concentration of Credit Risk

Included in sales from continuing operations are sales to Covidien Ltd. (“Covidien”) of $1,484,000 and $3,260,000, Aesculap, Inc. (“Aesculap”) of $1,533,000 and $859,000, and Mentor (a Johnson & Johnson Company) of $1,492,000 and $900,000 for the fiscal years ended June 30, 2012 and 2011, respectively. Total royalties from Covidien related to their sales of the Company's ultrasonic cutting product, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery, were approximately $488,000 and $550,000 during the fiscal years ended June 30, 2012 and 2011, respectively. Accounts receivable from Covidien were approximately $586,000 and $413,000, from Aesculap were approximately $532,000 and $6,300 and from Mentor were approximately $385,000 and $171,000 at June 30, 2012 and 2011, respectively. At June 30, 2012 and 2011, the Company's accounts receivable with customers outside the United States were approximately $700,000 and $674,000, respectively.

Accounts Receivable

Accounts receivable, principally trade, are generally due within 30 to 90 days and are stated at amounts due from customers, net of an allowance for doubtful accounts. The Company performs ongoing credit evaluations and adjusts credit limits based upon payment history and the customer's current credit worthiness, as determined by a review of their current credit information. The Company continuously monitors aging reports, collections and payments from customers and maintains a provision for estimated credit losses based upon historical experience and any specific customer collection issues that have been identified. While such credit losses have historically been within expectations and the provisions established, the Company cannot guarantee that the same credit loss rates will be experienced in the future. The Company writes off accounts receivable when they become uncollectible.

Inventories

Inventories are stated at the lower of cost (first-in, first-out) or market and consist of raw materials, work-in-process and finished goods. Management evaluates the need to record adjustments for impairments of inventory on a quarterly basis. The Company's policy is to assess the valuation of all inventories, including raw materials, work-in-process and finished goods. Inventory items used for demonstration purposes, rentals or on consignment are classified in property, plant and equipment.

Property, Plant and Equipment

Property, plant and equipment are recorded at cost. Minor replacements and maintenance and repair expenses are charged to expense as incurred. Depreciation of property and equipment is provided using the straight-line method over estimated useful lives ranging from 3 to 5 years. Leasehold improvements are amortized over the life of the lease or the useful life of the related asset, whichever is shorter. The Company's policy is to periodically evaluate the appropriateness of the lives assigned to property, plant and equipment and make adjustments if necessary. Inventory items included in property, plant and equipment are depreciated using the straight line method over estimated useful lives of 3 to 5 years.

Revenue Recognition

The Company records revenue upon shipment for products shipped F.O.B. shipping point. Products shipped F.O.B. destination point are recorded as revenue when received at the point of destination. Shipments under agreements with distributors are not subject to return, and payment for these shipments is not contingent on sales by the distributor. Accordingly the Company recognizes revenue on shipments to distributors in the same manner as with other customers. Fees from exclusive license agreements are recognized ratably over the terms of the respective agreements. Service contracts and royalty income are recognized when earned.

The Company currently presents taxes collected from customers and remitted to governmental authorities in the statement of operations on a net basis.

Long-Lived Assets

The carrying values of intangible and other long-lived assets, excluding goodwill, are periodically reviewed to determine if any impairment indicators are present. If it is determined that such indicators are present and the review indicates that the assets will not be fully recoverable, based on undiscounted estimated cash flows over the remaining amortization and depreciation period, their carrying values are reduced to estimated fair value. Impairment indicators include, among other conditions, cash flow deficits, an historic or anticipated decline in revenue or operating profit, adverse legal or regulatory developments, accumulation of costs significantly in excess of amounts originally expected to acquire the asset and a material decrease in the fair value of some or all of the assets. Assets are grouped at the lowest level for which there are identifiable cash flows that are largely independent of the cash flows generated by other asset groups. No such impairment existed at June 30, 2012 and 2011.

Goodwill

Goodwill is not amortized. We review goodwill for impairment annually and whenever events or changes indicate that the carrying value of an asset may not be recoverable. These events or circumstances could include a significant change in the business climate, legal factors, operating performance indicators, competition, or sale or disposition of significant assets or products. Application of these impairment tests requires significant judgments, including estimation of cash flows, which is dependent on internal forecasts, estimation of the long-term rate of growth for the Company’s business, the useful life over which cash flows will occur and determination of the Company’s weighted-average cost of capital. We primarily utilize a discontinued cash flow model in determining the fair value, which consists of Level 3 inputs. Changes in the projected cash flows and discount rate estimates and assumptions underlying the valuation of goodwill could materially affect the determination of fair value at acquisition or during subsequent periods when tested for impairment. The Company completed its annual goodwill impairment tests for fiscal 2012 and 2011 in the respective fourth quarter. No impairment of goodwill was deemed to exist.

Intangible and Other Assets

The cost of acquiring or processing patents is capitalized at cost. This amount is being amortized using the straight-line method over the estimated useful lives of the underlying assets, which is approximately 17 years. Net patents reported in intangible and other assets totaled $561,507 and $548,016 at June 30, 2012 and 2011, respectively. Accumulated amortization totaled $479,517 and $420,359 at June 30, 2012 and 2011, respectively. Amortization expense for the years ended June 30, 2012 and 2011 was approximately $59,000 and $65,000, respectively.

On October 7, 2010, the Company, F-S and Aesculap entered into a Termination, Amendment and Buy-Back Agreement to Distributor Agreement (the "Termination Agreement"). Pursuant to the Termination Agreement, the parties agreed to terminate, as of October 15, 2010 (the "Termination Date"), (i) Misonix's remaining obligations under the Distributor Agreement dated November 1999 between Aesculap and F-S, as amended (the "Distributor Agreement"), and (ii) Aesculap's rights to sell procedure packs (the "Sale Rights") to the Sonastar Customers (as defined below). On the Termination Date, in consideration of the purchase and sale of (i) Aesculap's current service contracts ("Sonastar Contracts") for the products (the "Products") that are the subject of the Distributor Agreement, customer list and customers currently evaluating the Products all with respect to the sale and servicing of the Products (the "Customer List") and (ii) the Sale Rights, Misonix paid Aesculap $800,000. Misonix assumed all rights, responsibilities and obligations pursuant to and under the (i) Sonastar Contracts and Customer List and (ii) the Sale Rights, including, without limitation, the sale of accessory Products and servicing and training of the Products to the customers with Sonastar Contracts (the "Sonastar Customers"). Misonix also agreed to repurchase from Aesculap the current inventory of (i) new Products held by Aesculap at the price Aesculap paid for such Products and (ii) used Products held by Aesculap for demonstration and/or loaner purposes at prices equal to Aesculap's book-value as of July 31, 2010 for such Products. The purchase price for the current inventory acquired was $519,000. Aesculap also agreed to certain non-competition and non-solicitation restrictions for an eighteen (18) month period.

The Company has determined that the acquisition did not constitute a business combination in accordance with Financial Accounting Standards Board ("FASB") Accounting Standards Codification 805, “Business Combinations.” Accordingly, it has been recorded as an asset acquisition with the aggregate cost of $1,319,000 assigned to the assets acquired based upon their relative fair values. The Company has allocated $259,000 of the cost to inventory, $260,000 of the cost to equipment which will be amortized over a three year period on a straight-line basis and $800,000 to customer relationships which will be amortized on a straight-line basis over a five year period.

Net customer relationships reported in intangible and other assets totaled $520,000 and $680,000 at June 30, 2012 and June 30, 2011, respectively. Accumulated amortization amounted to $280,000 and $120,000 at June 30, 2012 and June 30, 2011, respectively. Amortization expenses for the years ended June 30, 2012 and June 30, 2011 were $160,000 and $120,000, respectively. 

The following is a schedule of estimated future amortization expense as of June 30, 2012:

			Customer
	Patents		Relationships
2013	$	70,869	$	160,000
2014		68,227		160,000
2015		62,664		160,000
2016		59,602		40,000
2017		58,661		-
Thereafter		241,484		-
	$	561,507	$	520,000

Income Taxes

Deferred tax assets and liabilities are recognized for the future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carry forwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be recovered or settled. The effect on deferred tax assets and liabilities of a change in tax rates is recognized in income in the period that includes the enactment date.  The ultimate realization of deferred tax assets is dependent upon the generation of future taxable income in those periods in which temporary differences become deductible.  Should management determine that it is more likely than not that some portion of the deferred tax asset will not be realized, a valuation allowance against the deferred tax asset would be established in the period such determination was made.

The Company recognizes a tax benefit from an uncertain tax position only if it is more likely than not that the tax position will be sustained on examination by the taxing authorities based on the technical merits of the position. The tax benefits recognized in the financial statements from such position is measured based on the largest benefit that has a greater than fifty percent likelihood of being realized upon ultimate settlement. The Company classifies income tax related interest and penalties as a component of income tax expense.

Income (Loss) Per Share

Basic income (loss) per common share ("Basic EPS") is computed by dividing income (loss) by the weighted average number of common shares outstanding. Diluted income (loss) per common share ("Diluted EPS") is computed by dividing income (loss) by the weighted average number of common shares and the dilutive common share equivalents and convertible securities then outstanding.

Excluded from the calculation of Diluted EPS are options to purchase 1,408,030 shares of common stock for the three months ended June 30, 2012. The excluded shares are any shares in which the average stock price for the quarter or year-to-date is less than the exercise price of the outstanding options in the period in which the Company has net income.

Diluted EPS for the twelve months ended June 30, 2012 and the twelve and the unaudited three months ended June 30, 2011 presented is the same as Basic EPS, as the inclusion of the effect of common share equivalents then outstanding would be anti-dilutive. For this reason, excluded from the calculations of Diluted EPS for the twelve months ended June 30, 2012 and twelve and the unaudited three months ended June 30, 2011 are outstanding options to purchase 1,820,930 and 1,795,415 shares, respectively.

Comprehensive Income/(Loss)

Total comprehensive income/(loss) was $366,325 for the year ended June 30, 2012 and $(3,534,246) for the year ended June 30, 2011.

Research and Development

All research and development expenses are expensed as incurred and are included in operating expenses.

Advertising Expense

The cost of advertising is expensed in the period the advertising first takes place. The Company incurred approximately $105,000 and $56,000 in advertising costs during the years ended June 30, 2012 and 2011, respectively.

Use of Estimates

The preparation of financial statements in conformity with accounting principles generally accepted in the United States requires management to make estimates and judgments that affect the reported amount of assets and liabilities and disclosure of contingent assets and liabilities at the date of the financial statements and the reported amounts of revenues and expenses during the reporting period. Actual results could differ from those estimates.

Shipping and Handling

Shipping and handling fees for the years ended June 30, 2012 and 2011 were approximately $53,000 and $30,000, respectively, and are reported as a component of net sales. Shipping and handling costs for the years ended June 30, 2012 and 2011 were approximately $92,000 and $79,000, respectively, and are reported as a component of selling expenses.

Stock-Based Compensation

The Company measures compensation cost for all share based payments at fair value and recognizes the cost over the vesting period.  The Company utilizes the straight line amortization method to recognize the expense associated with the awards with graded vesting terms.

Recent Accounting Pronouncements

In December 2010, the FASB issued Accounting Standards Update (“ASU”) 2010-28, When to Perform Step 2 of the Goodwill Impairment Test for Reporting Units with Zero or Negative Carrying Amounts, to modify goodwill impairment testing for reporting units with a zero or negative carrying amount. Under the amended guidance, an entity must consider whether it is more likely than not that a goodwill impairment exists for reporting units with a zero or negative carrying amount. If it is more likely than not that a goodwill impairment exists, the second step of the goodwill impairment test in ASC 350-20-35 must be performed to measure the amount of goodwill impairment loss, if any. This standard was effective for goodwill impairment analysis for fiscal years and interim periods beginning after December 15, 2010, and became effective for our interim and annual reporting periods beginning July 1, 2011. The adoption of the guidance did not have a material impact on the Company's consolidated financial statements.

In May 2011, the FASB issued ASU No. 2011-04, Amendments to Achieve Common Fair Value Measurement and Disclosure Requirements in U.S. Generally Accepted Accounting Principlesand International Financial Reporting Standards. This guidance amends U.S. Generally Accepted Accounting Principles (“U.S. GAAP”) to conform with measurement and disclosure requirements in International Financial Reporting Standards (“IFRS”). The amendments change the wording used to describe the requirements in U.S. GAAP for measuring fair value and for disclosing information about fair value measurements, and they include those that clarify the FASB's intent about the application of existing fair value measurement and disclosure requirements and those that change a particular principle or requirement for measuring fair value or for disclosing information about fair value measurements. In addition, to improve consistency in application across jurisdictions, some changes in wording are necessary to ensure that U.S.  GAAP and IFRS fair value measurement and disclosure requirements are described in the same way. This amended guidance is to be applied prospectively and is effective for fiscal years beginning after December 15, 2011. The Company is evaluating the guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.

In June 2011, the FASB amended Accounting Standard Codification 220, Comprehensive Income.  The amendment eliminates the current option to report other comprehensive income and its components in the statement of changes in stockholders’ equity.  In accordance with the amendment, an entity has the option to present the total of comprehensive income, the components of net income, and the components of other comprehensive income in one continuous statement or in two separate, but consecutive statements.  Additionally, reclassification adjustments from other comprehensive income to net income will be presented on the face of the financial statements.  The amendment is effective for annual reporting periods beginning after December 15, 2011, which for the Company is July 1, 2012, with full retrospective application required.  As a result, the adoption of this standard will change how we present other comprehensive income (loss), which has been historically presented as part of our consolidated statements of stockholders’ equity.

In September 2011, the FASB issued Accounting Standards UpdateNo. 2011-08, Testing Goodwill for Impairment. Under the revised guidance, companies testing goodwill for impairment have the option of performing a qualitative assessment before calculating the fair value of the reporting unit (i.e., step 1 of the goodwill impairment test). If companies determine, on the basis of qualitative factors, that the fair value of the reporting unit is more likely than not less than the carrying amount, the two-step impairment test would be required. This update is effective for annual and interim goodwill impairment tests performed for fiscal years beginning after December 15, 2011, with early adoption permitted. The Company is evaluating the revised guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.

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Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Details 2) (USD $)	Jun. 30, 2012
Patents [Member]
2013	$ 70,869
2014	68,227
2015	62,664
2016	59,602
2017	58,661
Thereafter	241,484
Finite-Lived Intangible Assets, Future Amortization Expense	561,507
Customer Relationships [Member]
2013	160,000
2014	160,000
2015	160,000
2016	40,000
2017	0
Thereafter	0
Finite-Lived Intangible Assets, Future Amortization Expense	$ 520,000

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Leases (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Operating Leases, Rent Expense, Net	$ 386,000	$ 420,000
Sale Leaseback Transaction, Monthly Rental Payments	$ 23,000
Operating Lease Expiration Period	fiscal 2017

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Quarterly Results (Details 1) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Balance at Beginning of period	$ 115,739	$ 123,346
Additions Charged to cost and expenses	40,000	13,441
Deductions	0	(21,048)
Balance at end of period	$ 155,739	$ 115,739

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Consolidated Balance Sheets (USD $)	Jun. 30, 2012	Jun. 30, 2011
Assets
Cash and cash equivalents	$ 6,273,015	$ 6,881,093
Accounts receivable, less allowance for doubtful accounts of $155,739 and $115,739, respectively	3,158,084	2,085,972
Inventories, net	4,380,841	3,130,207
Prepaid expenses and other current assets	306,691	374,472
Note receivable	198,117	210,000
Current assets of discontinued operations	0	857,095
Total current assets	14,316,748	13,538,839
Property, plant and equipment, net	891,822	969,336
Goodwill	1,701,094	1,701,094
Intangible and other assets	1,403,173	2,127,194
Assets of discontinued operations	0	21,859
Total assets	18,312,837	18,358,322
Liabilities and stockholders' equity
Accounts payable	1,507,695	1,110,694
Accrued expenses and other current liabilities	1,074,932	1,969,078
Liabilities of discontinued operations	0	225,864
Total current liabilities	2,582,627	3,305,636
Deferred lease liability	22,996	14,043
Deferred income	117,147	161,360
Total liabilities	2,722,770	3,481,039
Commitments and contingencies
Stockholders' equity:
Common stock, $.01 par value-shares authorized 20,000,000, 7,082,920 and 7,079,170 shares issued and 7,005,360 and 7,001,370 shares outstanding, respectively	70,829	70,792
Additional paid-in capital	26,132,951	25,787,960
Accululated deficit	(10,202,720)	(10,569,045)
Treasury stock, at cost, 77,560 and 77,800 shares, respectively	(410,993)	(412,424)
Total stockholders' equity	15,590,067	14,877,283
Total liabilities and stockholders' equity	$ 18,312,837	$ 18,358,322

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Commitments and Contingencies (Details Textual) (USD $)			12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011	Jun. 30, 2012 Mr. Mcmanus [Member]	Jun. 30, 2012 Purchase Commitment [Member]	Jun. 30, 2011 Purchase Commitment [Member]
Salaries, Wages and Officers Compensation			$ 283,250
Inventory, Net	$ 4,380,841	$ 3,130,207		$ 3,447,250	$ 2,528,000

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Consolidated Statement of Stockholders' Equity (USD $)	Common Stock [Member]	Treasury Stock [Member]	Additional Paid-In Capital [Member]	Retained Earnings [Member]	Total
Balance at Jun. 30, 2010	$ 70,792	$ (412,424)	$ 25,502,717	$ (7,034,799)	$ 18,126,286
Balance (in shares) at Jun. 30, 2010	7,079,170	(77,800)
Net income (loss)/ comprehensive income (loss)	0	0	0	(3,534,246)	(3,534,246)
Proceeds from excercise of stock options					0
Proceeds from excercise of stock options (in shares)	0
Stock-based compensation	0	0	285,243	0	285,243
Balance at Jun. 30, 2011	70,792	(412,424)	25,787,960	(10,569,045)	14,877,283
Balance (in shares) at Jun. 30, 2011	7,079,170	(77,800)
Net income (loss)/ comprehensive income (loss)	0	0	0	366,325	366,325
Proceeds from sale of treasury stock	0	1,431	(927)	0	504
Proceeds from sale of treasury stock (in shares)	0	240
Proceeds from excercise of stock options	37	0	3,150	0	3,187
Proceeds from excercise of stock options (in shares)	3,750	0
Stock-based compensation	0	0	342,768	0	342,768
Balance at Jun. 30, 2012	$ 70,829	$ (410,993)	$ 26,132,951	$ (10,202,720)	$ 15,590,067
Balance (in shares) at Jun. 30, 2012	7,082,920	(77,560)

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Inventories (Details) (USD $)	Jun. 30, 2012	Jun. 30, 2011
Raw material	$ 2,172,536	$ 1,845,667
Work-in-process	875,000	1,173,639
Finished goods	1,795,529	491,015
Inventory, Gross	4,843,065	3,510,321
Less valuation reserve	462,224	380,114
Inventories, net	$ 4,380,841	$ 3,130,207

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Fair Value of Financial Instruments (Tables)

12 Months Ended

Jun. 30, 2012

Fair Value Disclosures [Abstract]

Schedule Of Carrying Values and Estimated Fair Values Of Financial Instruments [Table Text Block]

The following is a summary of the carrying amounts and estimated fair values of our financial instruments:

	June 30, 2012				June 30, 2011
	Carrying		Fair		Carrying		Fair
	Amount		Value		Amount		Value
Cash and cash equivalents	$	6,273,015	$	6,273,015	$	6,881,093	$	6,881,093
Trade accounts receivable		3,158,084		3,158,084		2,294,254		2,294,254
Trade accounts payable		1,507,695		1,507,695		1,336,558		1,336,558
Notes receivable – short term		198,117		198,117		210,000		210,000
Notes receivable – long term (included in other assets)		-		-		440,000		440,000

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Property, Plant and Equipment (Details) (USD $)	Jun. 30, 2012	Jun. 30, 2011
Machinery and equipment	$ 1,807,649	$ 1,758,993
Furniture and fixtures	1,115,039	1,091,637
Automobiles	22,328	29,124
Leasehold improvements	443,233	438,245
Demonstration and consignment inventory	1,290,590	1,101,467
Property, Plant and Equipment, Gross	4,678,839	4,419,466
Less: accumulated depreciation and amortization	(3,787,017)	(3,450,130)
Property, plant and equipment, net	$ 891,822	$ 969,336

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Property, Plant and Equipment (Tables)

12 Months Ended

Jun. 30, 2012

Property, Plant and Equipment [Abstract]

Property, Plant and Equipment [Table Text Block]

Property, plant and equipment consist of the following:

	June 30,
	2012			2011
Machinery and equipment	$	1,807,649		$	1,758,993
Furniture and fixtures		1,115,039			1,091,637
Automobiles		22,328			29,124
Leasehold improvements		443,233			438,245
Demonstration and consignment inventory		1,290,590			1,101,467
		4,678,839			4,419,466
Less: accumulated depreciation and amortization		(3,787,017	)		(3,450,130	)
	$	891,822		$	969,336

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Consolidated Statements of Cash Flows (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Operating activities
Net loss from continuing operations	$ (608,765)	$ (2,104,887)
Adjustments to reconcile net loss to net cash used in continuing operating activities:
Depreciation and amortization and other non-cash items	713,524	502,438
Bad debt expense (recovery)	40,000	13,441
Stock-based compensation	342,768	285,243
Deferred income	(95,363)	(18,016)
Deferred lease liability	8,953	14,043
Changes in operating assets and liabilities:
Accounts receivable	(1,112,112)	(127,186)
Inventories	(538,991)	(796,851)
Prepaid expenses and other assets	190,068	234,711
Accounts payable and accrued expenses	(431,720)	1,003,609
Net cash used in operating activities	(1,491,638)	(993,455)
Investing activities
Acquisition of property, plant and equipment	(474,277)	(644,395)
Additional patents	0	94,964
Payments for assets acquisition (note 1)	(259,760)	(1,059,761)
Net cash used in investing activities	(734,037)	(1,609,192)
Financing activities
Payments of short-term borrowings	0	(177,679)
Principal payments on capital lease obligations	(14,274)	(13,102)
Proceeds from sale of treasury stock	504	0
Proceeds from excercise of stock options	3,187	0
Net cash used in financing activities	(10,583)	(190,781)
Cash flows from discontinued operations
Net cash used in operating activities	(97,628)	(1,345,007)
Net cash provided by investing activities	1,725,808	1,115,000
Net cash provided by/(used) in discontinued operations	1,628,180	(230,007)
Effect of exchange rate changes on cash	0	3,923
Net decrease in cash and cash equivalents	(608,078)	(3,019,512)
Cash and cash equivalents at beginning of period	6,881,093	9,900,605
Cash and cash equivalents at end of period	6,273,015	6,881,093
Supplemental disclosure of cash flow information:
Interest	416	5,774
Income taxes	$ 20,720	$ 48,188

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Consolidated Balance Sheets [Parenthetical] (USD $)	Jun. 30, 2012	Jun. 30, 2011
Allowance for doubtful accounts (in dollars)	$ 155,739	$ 115,739
Common stock, par value (in dollars per share)	$ 0.01	$ 0.01
Common stock, shares authorized	20,000,000	20,000,000
Common stock, shares issued	7,082,920	7,079,170
Common stock, shares outstanding	7,005,360	7,001,370
Treasury stock, shares	77,560	77,800

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Licensing Agreements for Medical Technology

12 Months Ended

Jun. 30, 2012

Licensing Agreements For Medical Technology [Abstract]

Licensing Agreements For Medical Technology [Text Block]

11. Licensing Agreements for Medical Technology

In October 1996, the Company entered into a License Agreement (the "USS License") with United States Surgical (now, Covidien) for a twenty-year period, covering the further development and commercial exploitation of the Company's medical technology relating to ultrasonic cutting, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery.

The USS License gives Covidien exclusive worldwide marketing and sales rights for this technology. Under the USS License, the Company has received $475,000 in licensing fees (which are being recorded as income over the term of the USS License), plus royalties based upon net sales of such products. Total royalties from sales of this device were approximately $488,000 and $550,000 for the fiscal years ended June 30, 2012 and 2011, respectively.

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Document and Entity Information (USD $)	12 Months Ended
	Jun. 30, 2012	Sep. 20, 2012	Dec. 30, 2011
Entity Registrant Name	MISONIX INC
Entity Central Index Key	0000880432
Current Fiscal Year End Date	--06-30
Entity Filer Category	Smaller Reporting Company
Trading Symbol	mson
Entity Common Stock, Shares Outstanding		7,005,360
Document Type	10-K
Amendment Flag	false
Document Period End Date	Jun. 30, 2012
Document Fiscal Period Focus	FY
Document Fiscal Year Focus	2012
Entity Well-Known Seasoned Issuer	No
Entity Voluntary Filers	No
Entity Current Reporting Status	Yes
Entity Public Float			$ 13,266,226

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Employee Profit Sharing Plan

12 Months Ended

Jun. 30, 2012

Compensation and Retirement Disclosure [Abstract]

Compensation and Employee Benefit Plans [Text Block]

12. Employee Profit Sharing Plan

The Company sponsors a retirement plan pursuant to Section 401(k) of the Code for all full time employees. Participants may contribute a percentage of compensation not to exceed the maximum allowed under the Code, which was $17,000 or $22,500 if the employee was over 50 years of age for the year ended June 30, 2012. The plan provides for a matching contribution by the Company of 10% of annual eligible compensation contributed by the participants based on years of service, which amounted to $41,964 and $42,186 for the years ended June 30, 2012 and 2011, respectively.

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Consolidated Statements of Operations (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Net sales	$ 15,678,000	$ 12,373,029
Cost of goods sold	6,467,126	5,286,646
Gross profit	9,210,874	7,086,383
Operating expenses:
Selling expenses	5,031,831	3,885,784
General and administrative expenses	4,376,554	4,499,521
Research and development expenses	1,292,225	1,431,627
Total operating expenses	10,700,610	9,816,932
Loss from operations	(1,489,736)	(2,730,549)
Other income (expense):
Interest income	438	130
Interest expense	(416)	(5,774)
Royalty income and license fees	619,297	641,488
Royalty fee recovery/(expense)	96,000	(79,877)
Other	(29,130)	133,911
Total other income	686,189	689,878
Loss from continuing operations before income taxes	(803,547)	(2,040,671)
Income tax (benefit)/expense	(194,782)	64,216
Net loss from continuing operations	(608,765)	(2,104,887)
Discontinued operations:
Loss from discontinued operations net of a tax benefit of $89,236 and $0, respectively	(445,987)	(1,429,359)
Gain from sale of discontinued operations net of tax expense of $284,337 and $0, respectively	1,421,077	0
Net income/(loss) from discontinued operations	975,090	(1,429,359)
Net income/(loss)	$ 366,325	$ (3,534,246)
Net loss per share from continuing operations - Basic (in dollars per share)	$ (0.09)	$ (0.30)
Net income/(loss) per share from discontinued operations - Basic (in dollars per share)	$ 0.14	$ (0.20)
Net income/(loss) per share - Basic (in dollars per share)	$ 0.05	$ (0.50)
Net loss per share from continuing operations - Diluted (in dollars per share)	$ (0.09)	$ (0.30)
Net income/(loss) per share from discontinued operations - Diluted (in dollars per share)	$ 0.14	$ (0.20)
Net income/(loss) per share - Diluted (in dollars per share)	$ 0.05	$ (0.50)
Weighted average shares - Basic (in shares)	7,001,930	7,001,370
Weighted average shares - Diluted (in shares)	7,001,930	7,001,370

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Accrued Expenses and Other Current Liabilities

12 Months Ended

Jun. 30, 2012

Payables and Accruals [Abstract]

Accounts Payable, Accrued Liabilities, and Other Liabilities Disclosure, Current [Text Block]

5. Accrued Expenses and Other Current Liabilities

The following summarizes accrued expenses and other current liabilities:

	June 30,		June 30,
	2012		2011
Accrued payroll and vacation	$	468,505	$	465,272
Accrued bonuses		200,000		200,000
Accrued commissions		96,644		141,408
Accrued professional and legal fees		74,192		752,609
Accrued royalties		25,275		154,761
Deferred income		44,213		95,363
Other		166,103		159,665
	$	1,074,932	$	1,969,078

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Property, Plant and Equipment

12 Months Ended

Jun. 30, 2012

Property, Plant and Equipment [Abstract]

Property, Plant and Equipment Disclosure [Text Block]

4. Property, Plant and Equipment

Property, plant and equipment consist of the following:

	June 30,
	2012			2011
Machinery and equipment	$	1,807,649		$	1,758,993
Furniture and fixtures		1,115,039			1,091,637
Automobiles		22,328			29,124
Leasehold improvements		443,233			438,245
Demonstration and consignment inventory		1,290,590			1,101,467
		4,678,839			4,419,466
Less: accumulated depreciation and amortization		(3,787,017	)		(3,450,130	)
	$	891,822		$	969,336

Depreciation and amortization of property, plant and equipment totaled approximately $494,000 and $329,000 for the years ended June 30, 2012 and 2011, respectively.

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Inventories (Tables)

12 Months Ended

Jun. 30, 2012

Inventory Disclosure [Abstract]

Schedule of Inventory, Current [Table Text Block]

Inventories are summarized as follows:

	June 30,		June 30,
	2012		2011
Raw material	$	2,172,536	$	1,845,667
Work-in-process		875,000		1,173,639
Finished goods		1,795,529		491,015
		4,843,065		3,510,321
Less valuation reserve		462,224		380,114
	$	4,380,841	$	3,130,207

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Quarterly Results

12 Months Ended

Jun. 30, 2012

Quarterly Financial Information Disclosure [Abstract]

Quarterly Financial Information [Text Block]

13. Quarterly Results (unaudited)

	FISCAL 2012
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	3,217,199		$	3,550,535		$	3,609,746		$	5,300,520		$	15,678,000
Cost of goods sold		1,453,407			1,281,561			1,491,225			2,240,933			6,467,126
Gross profit		1,763,792			2,268,974			2,118,521			3,059,587			9,210,874
Operating expenses:
Selling expenses		1,180,252			1,194,045			1,245,782			1,411,752			5,031,831
General and administrative expenses		1,167,820			1,082,385			1,024,029			1,102,320			4,376,554
Research and development expenses		309,974			303,702			333,308			345,241			1,292,225
Total operating expenses		2,658,046			2,580,132			2,603,119			2,859,313			10,700,610
Loss from operations		(894,254	)		(311,158	)		(484,598	)		200,274			(1,489,736	)
Other income(expense):
Interest income		19			139			248			51			457
Interest expense		(212	)		(151	)		(72	)		-			(435	)
Royalty income and license fees		138,135			188,372			135,794			156,996			619,297
Royalty( expense)/recovery		(28,570	)		149,846			(8,659	)		(16,617	)		96,000
Other		(14,144	)		(6,335	)		(4,989	)		(3,662	)		(29,130	)
Total other income		95,228			331,871			122,322			136,768			686,189
(Loss)/income from continuing operations before income taxes		(799,026	)		20,713			(362,276	)		337,042			(803,547	)
Income tax expense/(benefit)		4,960			(207,233	)		(85,862	)		93,353			(194,782	)
Net (loss)/income from continuing operations	$	(803,986	)	$	227,946		$	(276,414	)	$	243,689		$	(608,765	)
Discontinued operations:
Net (loss)/income from discontinued operations net of income tax expense/benefit of $0, $401,751, $(21,314) and $(185,336)		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income from discontinued operations		(79,956	)		792,133			61,789			201,124			975,090
Net (loss)/income	$	(883,942	)	$	1,020,079		$	(214,625	)	$	444,813		$	366,325
Net (loss)/income per share from continuing operations - Basic	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Basic		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Basic	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05
Net (loss)/income per share from continuing operations - Diluted	$	(0.11	)	$	0.03		$	(0.04	)	$	0.03		$	(0.09	)
Net (loss)/income per share from discontinued operations - Diluted		(0.02	)		0.11			0.01			0.03			0.14
Net (loss)/income per share - Diluted	$	(0.13	)	$	0.15		$	(0.03	)	$	0.06		$	0.05

	FISCAL 2011
	Q1			Q2			Q3			Q4			YEAR
Net sales	$	2,692,268		$	2,762,556		$	3,152,771		$	3,765,434		$	12,373,029
Cost of goods sold		1,219,697			1,039,307			1,396,200			1,631,442			5,286,646
Gross profit		1,472,571			1,723,249			1,756,571			2,133,992			7,086,383
Operating expenses:
Selling expenses		820,514			907,693			972,174			1,185,403			3,885,784
General and administrative expenses		1,217,805			1,109,482			1,007,051			1,165,183			4,499,521
Research and development expenses		381,277			352,161			362,295			335,894			1,431,627
Total operating expenses		2,419,596			2,369,336			2,341,520			2,686,480			9,816,932
Loss from operations		(947,025	)		(646,087	)		(584,949	)		(552,488	)		(2,730,549	)
Other income(expense):
Interest income		50			25			18			37			130
Interest expense		(3,641	)		(1,438	)		(415	)		(280	)		(5,774	)
Royalty income and license fees		179,115			172,587			135,920			153,866			641,488
Royalty expense		(19,343	)		(20,916	)		(11,065	)		(28,553	)		(79,877	)
Other		45,409			(5,576	)		106,963			(12,885	)		133,911
Total other income		201,590			144,682			231,421			112,185			689,878
Loss from continuing operations before income taxes		(745,435	)		(501,405	)		(353,528	)		(440,303	)		(2,040,671	)
Income tax expense		38,100			4,000			4,000			18,116			64,216
Net loss income from continuing operations	$	(783,535	)	$	(505,405	)	$	(357,528	)	$	(458,419	)	$	(2,104,887	)
Discontinued operations:
Net loss from discontinued operations net of income tax expense (benefit) of $0, $0, $0 and $0		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss from discontinued operations		(234,311	)		(30,761	)		(173,950	)		(990,337	)		(1,429,359	)
Net loss	$	(1,017,846	)	$	(536,166	)	$	(531,478	)	$	(1,448,756	)	$	(3,534,246	)
Net loss per share from continuing operations - Basic	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Basic		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Basic	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)
Net loss per share from continuing operations - Diluted	$	(0.11	)	$	(0.08	)	$	(0.05	)	$	(0.07	)	$	(0.30	)
Net loss per share from discontinued operations - Diluted		(0.04	)		-			(0.03	)		(0.14	)		(0.20	)
Net loss per share - Diluted	$	(0.15	)	$	(0.08	)	$	(0.08	)	$	(0.21	)	$	(0.50	)

Schedule II

			Column C
	Column B		Additions					Column E
	Balance at		Charged					Balance at
Column A	Beginning		to cost and		Column D			end of
Description	of period		expenses		(Deductions)			period
Allowance for doubtful accounts:
Year ended June 30:
2012	$	115,739	$	40,000	$	0		$	155,739
2011	$	123,346	$	13,441	$	(21,048	)	$	115,739

(A) Reduction in allowance for doubtful accounts due to write off of certain accounts receivable balances.

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Commitments and Contingencies

12 Months Ended

Jun. 30, 2012

Commitments and Contingencies Disclosure [Abstract]

Commitments and Contingencies Disclosure [Text Block]

8. Commitments and Contingencies

Employment Agreement

On June 30, 2012, the Employment Agreement, dated July 13, 2009, as amended (as so amended, the “2009 Agreement”), by and between Michael A. McManus, Jr. and the Company expired pursuant to a timely notice of non-renewal delivered to the Company by Mr. McManus. Pursuant to the 2009 Agreement, Mr. McManus was employed by the Company as its President and Chief Executive Officer.

On September 11, 2012, the Company entered into a new Employment Agreement with Michael A. McManus, Jr., whereby he will continue to serve as the Company’s President and Chief Executive Officer (the “Employment Agreement”). The Employment Agreement, effective as of July 1, 2012, has an initial term expiring June 30, 2013 and renews for successive one-year periods thereafter unless terminated by either party not less than ninety (90) days prior to the end of the then-current term. The Employment Agreement provides for an annual base salary of $283,250, a company-provided automobile and an annual bonus based on Mr. McManus’ achievement of annual goals and objectives as determined by the Compensation Committee of the Board.

Mr. McManus is entitled under the Employment Agreement to participate in any plans and programs made available to the executive employees of the Company generally.

The Company can terminate the Employment Agreement for cause (as defined in the Employment Agreement). Mr. McManus can terminate the Employment Agreement for good reason (as defined in the Employment Agreement). If Mr. McManus terminates the Employment Agreement for good reason, the Company must pay him an amount equal to two times his total compensation (annual base salary plus bonus) at the highest rate paid him at any time during the aggregate time he has been employed by the Company, payable in a lump sum within sixty (60) days of termination of employment.

Mr. McManus is entitled to severance pay and benefits if he terminates his employment with the Company following a Change in Control (as defined in the Employment Agreement), to provide him with an incentive to remain with the Company and consummate a strategic corporate sale or transaction that maximizes shareholder value. Severance pay and benefits are triggered upon (i) his Involuntary Termination without Cause (as defined in the Employment Agreement) for a reason other than death or Disability (as defined in the Employment Agreement) or (ii) as a result of a Constructive Termination (as defined in the Employment Agreement) which in either case occurs: (x) during the period not to exceed twenty-four (24) months after the effective date of a Change in Control, or (y) before the effective date of a Change in Control, but after the first date on which the Board and/or senior management of the Company has entered into formal negotiations with a potential acquirer that results in the consummation of a Change in Control.

In the event that pay and benefits are triggered, Mr. McManus (A) is entitled to receive severance pay in an amount equal to two (2) times the sum of (a) his annual base pay and (b) bonus at the highest rate paid him for any fiscal year during the aggregate period of his employment by the Company, payable in cash in a lump sum; and the payment of premiums for medical, dental, vision, hospitalization and long term care coverage under Company plans for a period of twenty-four (24) months; (B) has the right, for a period of (i) ninety (90) days for stock options granted under any of the Company’s Employee Stock Option Plans adopted prior to 2005 and (ii) two (2) years for stock options granted under the Company’s 2005 Employee Equity Incentive Plan, 2009 Employee Equity Incentive Plan and any Plan adopted after the effective date of the Agreement following his Termination Date (as defined in the Agreement), to exercise the options to the extent such options are otherwise vested and exercisable as of the Termination Date under the terms of the applicable stock option agreement(s) and Plan(s); and (C) will vest in all unvested stock option grants with respect to options granted after July 1, 2012.

The Company and Mr. McManus have entered into two letter agreements providing for the exercise of vested options by Mr. McManus (i) for a ninety (90) day period after his retirement with respect to stock options granted under certain of the Company’s stock option plans and (ii) for two (2) years after Mr. McManus terminates his employment with the Company in the event of a Change-in-Control (as defined in the applicable stock option plans) and he is eligible for the severance benefits provided for by the Employment Agreement.

Purchase Commitments

As of June 30, 2012 and 2011,the Company had inventory related purchase commitments totaling approximately $3,447,250 and $2,528,000, respectively.

Contingencies

The Company and its subsidiaries are from time to time involved in ordinary and routine litigation.   Management presently believes that the ultimate outcome of these proceedings, individually or in the aggregate, will not have a material adverse effect on the Company’s financial position, cash flows or result of operations. Nevertheless, litigation is subject to inherent uncertainties and an unfavorable ruling could occur.  An unfavorable ruling could include money damages and in such event, could result in a material adverse impact on the Company’s results of operations in the year in which the ruling occurs.

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Leases

12 Months Ended

Jun. 30, 2012

Leases [Abstract]

Leases of Lessor Disclosure [Text Block]

6. Leases

Misonix has entered into several noncancellable operating leases for the rental of certain manufacturing and office space, equipment and automobiles expiring in various years through 2017. The principal building lease provides for a monthly rental amount of approximately $23,000. The Company also leases certain office equipment and automobiles under operating leases expiring through fiscal 2017.

The following is a schedule of future minimum lease payments, by year and in the aggregate, under operating leases with initial or remaining terms of one year or more at June 30, 2012:

	Operating
	Leases
2013	$	321,537
2014		326,555
2015		331,291
2016		25,968
2017		16,639
Total minimum lease payments	$	1,021,990

Certain of the leases provide for escalation clauses, renewal options and the payment of real estate taxes and other occupancy costs. Rent expense for all operating leases was approximately $386,000 and $420,000 for the years ended June 30, 2012 and 2011, respectively.

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Stock-Based Compensation Plans

12 Months Ended

Jun. 30, 2012

Share-Based Compensation [Abstract]

Disclosure of Compensation Related Costs, Share-based Payments [Text Block]

7. Stock-Based Compensation Plans

Stock options are granted with exercise prices not less than the fair market value of our common stock at the time of the grant, with an exercise term as determined by the Committee administering the applicable option plan (the "Committee") not to exceed 10 years. The Committee determines the vesting period for the Company's stock options. Generally, such stock options have vesting periods of immediate to four years. Certain option awards provide for accelerated vesting upon meeting specific retirement, death or disability criteria, and upon change of control. During the years ended June 30, 2012 and 2011, the Company granted options to purchase 233,750 and 294,500 shares of the Company's common stock, respectively.

Compensation expense is recognized in the general and administrative expenses line item of the Company's statements of operations on a straight-line basis over the vesting periods. There are no capitalized stock-based compensation costs at June 30, 2012 and 2011. As of June 30, 2012, there was approximately $698,820 of total unrecognized compensation cost related to non-vested share-based compensation arrangements to be recognized over a weighted-average period of 2.5 years.

Cash received from the exercise of stock options for the years ended June 30, 2012 and 2011 was $3,187 and $0, respectively. Cash flows from tax benefits attributable to tax deductions in excess of the compensation cost recognized for those options (excess tax benefits) are classified as financing cash flows.

The weighted average fair value at date of grant for options granted during the years ended June 30, 2012 and 2011 was $1.75 and $1.61 per share, respectively. The fair value of options at date of grant was estimated using the Black-Scholes option-pricing model utilizing the following assumptions:

	2012			2011
Risk-free interest rates		3.4	%		4.1	%
Expected option life in years		6.5			6.5
Expected stock price volatility		75.44	%		77.88	%
Expected dividend yield		0	%		0	%

The risk free interest rate is based on the U.S. Treasury yield in effect at the time of grant. The expected option term is based upon the number of years the company estimates the option will be outstanding. The expected dividend yield is based upon historical and projected dividends. The Company estimates volatility based upon historical price changes of the Company’s stock over a period equal to that of the expected life of the option.

In March 1996, the Board of Directors adopted and, in February 1997, the shareholders approved the 1996 Employee Incentive Stock Option Plan covering an aggregate of 450,000 shares (the "1996 Plan") and the 1996 Non-Employee Director Stock Option Plan (the "1996 Directors Plan") covering an aggregate of 1,125,000 shares of common stock. At June 30, 2012, options to purchase 41,000 shares were outstanding at exercise prices ranging from $5.18 to $7.60 per share with a vesting period of immediate to three years under the 1996 Plan and options to acquire 135,000 shares were outstanding at exercise prices ranging from $3.21 to $7.60 per share with a vesting period of immediate to three years under the 1996 Directors Plan. At June 30, 2012, options to purchase 138,295 shares under the 1996 Plan have been exercised and options to purchase 422,650 shares have been forfeited (of which options to purchase 182,945 shares have been reissued).  There are no shares available for future grants. At June 30, 2012, options to purchase 808,500 shares under the 1996 Directors Plan have been exercised and options to purchase 115,000 shares have been forfeited (of which none have been reissued). There are no shares available for future grants.

In October 1998, the Board of Directors adopted and, in January 1999, the shareholders approved the 1998 Employee Stock Option Plan (the "1998 Plan") covering an aggregate of 500,000 shares of common stock. At June 30, 2012, options to purchase 14,750 shares were outstanding under the 1998 Plan at exercise prices ranging from $3.45 to $7.60 per share with a vesting period of immediate to three years. At June 30, 2012, options to purchase 72,848 shares under the 1998 Plan have been exercised and options to purchase 477,677 shares under the 1998 Plan have been forfeited (of which options to purchase 65,275 shares have been reissued). At June 30, 2012, there were no shares available for future grants.

In October 2000, the Board of Directors adopted and, in February 2001, the shareholders approved the 2001 Employee Stock Option Plan (the "2001 Plan") covering an aggregate of 1,000,000 shares of common stock. At June 30, 2012, options to purchase 667,880 shares were outstanding under the 2001 Plan at exercise prices ranging from $1.82 to $8.00 per share with a vesting period of one to four years. At June 30, 2012, options to purchase 128,306 shares under the 2001 Plan have been exercised and options to purchase 455,075 shares under the 2001 Plan have been forfeited (of which 251,406 options have been reissued). At June 30, 2012, there were no shares available for future grants.

In September 2005, the Board of Directors adopted, and in December 2005, the shareholders approved, the 2005 Employee Equity Incentive Plan (the "2005 Plan") covering an aggregate of 500,000 shares of common stock and the 2005 Non-Employee Director Stock Option Plan (the "2005 Directors Plan") covering an aggregate of 200,000 shares of common stock. At June 30, 2012, there were options to purchase 495,550 shares outstanding under the 2005 Plan at exercise prices ranging from $.85 to $4.98 per share with a vesting period of four years. At June 30, 2012, there were 3,750 options exercised under the 2005 Plan and options to purchase 36,500 shares have been forfeited (of which 35,800 options have been reissued). At June 30, 2012, 700 shares were available for future grants under the 2005 Plan. At June 30, 2012, options to purchase 195,000 shares were outstanding under the 2005 Directors Plan at exercise prices ranging from $2.41 to $5.42 with a vesting period over three years. At June 30, 2012, there were no options exercised and 5,000 shares were available for future grants under the 2005 Directors Plan.

In December 2009, the Board of Directors and shareholders adopted the 2009 Employee Equity Incentive Plan (the "2009 Plan") covering an aggregate of 500,000 shares of common stock and the 2009 Non-Employee Director Stock Option Plan (the "2009 Directors Plan") covering an aggregate of 200,000 shares of common stock. At June 30, 2012 there were options to purchase 241,750 shares outstanding under the 2009 Plan at exercise prices ranging from $1.80 to $2.19 per share with a vesting period of four years.  At June 30, 2012, there were no options exercised and options to purchase 500 shares were forfeited under the 2009 Plan.  At June 30, 2012, there were 258,250 shares available for future grants under the 2009 Plan.  At June 30, 2012 there were options to purchase 30,000 shares outstanding under the 2009 Directors Plan at an exercise price of $2.41 per share with a vesting period of four years.  At June 30, 2012 there were no options exercised or forfeited under the 2009 Directors Plan.  At June 30, 2012, there were 170,000 shares available for future grants under the 2009 Directors Plan.

The selection of participants, allotments of shares and determination of price and other conditions relating to options are determined by the Board of Directors or a committee thereof, depending on the Plan, and in accordance with Rule 4350(c) of the Corporate Governance Requirements applicable to Nasdaq-listed companies. Incentive stock options granted under the plans are exercisable for a period of up to ten years from the date of grant at an exercise price which is not less than the fair market value of the common stock on the date of the grant, except that the term of an incentive stock option granted under the plans to a shareholder owning more than 10% of the outstanding common stock may not exceed five years and its exercise price may not be less than 110% of the fair market value of the common stock on the date of grant. Options shall become exercisable at such time and in such installments as provided in the terms of each individual option agreement.

The following table summarizes information about stock option activity during 2012 and 2011:

	Options
						Weighted
						Average
				Weighted		Remaining
	Number			Average		Contractual		Aggregate
	of			Exercise		Life		Intrinsic
	Shares			Price		Years		Value
Outstanding as of June 30, 2011		1,795,415		$	4.06
Granted		233,750			2.19
Exercised		(3,750	)		.85
Forfeited		(1,000	)		2.13
Expired		(203,485	)		6.07
Outstanding as of June 30, 2012		1,820,930		$	3.60		5.7	$	241,414
Vested and exercisable at June 30, 2012		1,243,868		$	4.30		4.7	$	96,426
Outstanding as of June 30, 2010		1,848,510		$	4.99
Granted		294,500			1.97
Exercised		—			—
Forfeited		(2,145	)		1.94
Expired		(345,450	)		7.29
Outstanding as of June 30, 2011		1,795,415		$	4.06		5.7	$	300,925
Vested and exercisable at June 30, 2011		1,241,028		$	4.92		4.1	$	68,407

The following table summarizes information about stock options outstanding at June 30, 2012:

		Options Outstanding						Options Exercisable
				Weighted
				Average		Weighted				Weighted
Range of				Contractual		Average				Average
Exercise				Life		Exercise				Exercise
Price		Number		(Yrs)		Price		Number		Price
	$0.85 – 2.66		943,450		7.6	$	2.13		366,388	$	2.17
	$3.21 – 4.99		322,750		3.9	$	4.37		322,750	$	4.37
	$5.10 – 8.00		554,730		2.9	$	5.66		554,730	$	5.66
			1,820,930		5.7	$	3.60		1,243,868	$	4.30

As of June 30, 2012 and 2011, 1,820,930 and 1,795,415 shares are reserved for issuance under outstanding options and 433,950 and 666,700 shares are reserved for the granting of additional options, respectively.  All outstanding options expire between September 2012 and September 2021 and vest over periods of up to four years.

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Income Taxes

12 Months Ended

Jun. 30, 2012

Income Tax Disclosure [Abstract]

Income Tax Disclosure [Text Block]

10. Income Taxes

Open tax years related to federal and state income tax filings are for the years ended June 30, 2009, 2010, 2011 and 2012. The Company files state tax returns in New York and Colorado. The Company's foreign subsidiaries, Misonix Ltd. and Misonix Urology Services Limited (formerly, UKHIFU Limited) filed tax returns in the United Kingdom. In general, open years related to the United Kingdom for filing are June 30, 2010, 2011, and 2012. As of June 30, 2012 and 2011, the Company has no material unrecognized tax benefits and no accrued interest and penalties.

Deferred income taxes reflect the net tax effects of temporary differences between the carrying amounts of assets and liabilities for financial reporting purposes and the amounts used for income tax purposes.

The tax effects of temporary differences that give rise to significant portions of the deferred tax assets and liabilities are presented below:

	June 30,
	2012			2011
Deferred tax liabilities:
Depreciation and amortization	$	(237,291	)	$	(169,095	)
Total deferred tax liabilities		(237,291	)		(169,095	)
Deferred tax assets:
Bad debt reserves		36,535			23,120
Accruals and allowances		13,506			13,732
Inventory valuation		286,527			276,453
License fee income		55,653			72,090
Stock-based compensation		225,823			229,607
Deferred gain — HIFU and Labcaire		211,263			198,145
Tax credits		475,386			424,664
Net operating loss carry forwards		4,745,221			4,608,441
Capital loss carryover		-			387,112
Other		5,993			8,468
Total deferred tax assets		6,055,907			6,241,832
Valuation allowance		(5,818,616	)		(6,072,737	)
Net deferred tax asset	$	-		$	-
Recorded as:
Current deferred tax asset	$	-		$	-
Non-current deferred tax liability, net		-			-
	$	-		$	-

As of June 30, 2012, the valuation allowance was determined by estimating the recoverability of the deferred tax assets. In assessing the realizability of deferred tax assets, management considers whether it is more likely than not that some portion or all of the deferred tax assets will not be realized. In making this assessment, the ultimate realization of deferred tax assets is dependent upon the generation of future taxable income and tax planning strategies. Based on these considerations, management concluded that it is more likely than not that its deferred tax assets will not be fully realized. The reduction in the valuation allowance is primarily due to the gain from the sale of discontinued operations.

As of June 30, 2012, the Company had approximately $12,000,000 U.S. federal net operating loss carryforwards which expire in tax years between 2026 and 2031.  Of the net operating loss carryforwards, approximately $3,900,000 is subject to the separate return loss rules under the Internal Revenue Code of 1986, as amended (the “Code”).  The Company has approximately $397,000 of research and development tax credit carryforwards which expire in the tax years between 2026 and 2031.  In addition, the Company has approximately $78,000 of alternative minimum tax credit which has an indefinite carryforward period.

Significant components of the income tax expense (benefit) attributable to continuing operations are as follows:

	Year ended June 30,
	2012			2011
Current:
Federal	$	(181,016	)	$	33,100
State		(13,766	)		31,116
Total current		(194,782	)		64,216
Deferred:
State		-			-
Total deferred		-			-
	$	(194,782	)	$	64,216

The reconciliation of income tax expense (benefit) computed at the Federal statutory tax rates to income tax expense (benefit) is as follows:

	Year ended June 30,
	2012			2011
Tax at federal statutory rates	$	(273,206	)	$	(799,394	)
State income taxes, net of federal benefit		(9,086	)		20,519
Research credit		(50,722	)		(168,495	)
Capital loss		-			(375,323	)
Stock-based compensation		116,541			80,320
Rate change		24,093			-
Valuation allowance		(21,306	)		1,295,045
Travel and entertainment		22,099			15,084
Other		(3,195	)		(3,540	)
	$	(194,782	)	$	64,216

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Fair Value of Financial Instruments (Details) (USD $)	Jun. 30, 2012	Jun. 30, 2011	Jun. 30, 2010
Cash and Cash Equivalents, Carrying Amount	$ 6,273,015	$ 6,881,093	$ 9,900,605
Trade accounts receivable, Carrying amount	3,158,084	2,085,972
Trade accounts payable, Carrying amount	1,507,695	1,110,694
Notes receivable short term, Carrying amount	198,117	210,000
Notes receivable long term (included in other assets) Carrying amount	0	440,000
Cash and Cash Equivalents, Fair value	6,273,015	6,881,093
Trade accounts receivable, Fair value	3,158,084	2,294,254
Trade accounts payable, Fair value	1,507,695	1,336,558
Notes receivable short term, Fair value	198,117	210,000
Notes receivable long term (included in other assets) Fair value	$ 0	$ 440,000

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Employee Profit Sharing Plan (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Supplemental Employee Retirement Plans, Defined Benefit [Member]
Employee Benefits and Share Based Compensation Age Limit For Discretion	50 Years
Defined Contribution Plan Employer Matching Contribution Percent	10.00%
Defined Contribution Plan Employers Matching Contribution Amount	$ 41,964	$ 42,186
Maximum [Member]
Defined Contribution Plan Maximum Annual Contribution Per Employee Amount	22,500
Minimum [Member]
Defined Contribution Plan Maximum Annual Contribution Per Employee Amount	$ 17,000

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Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Tables)

12 Months Ended

Jun. 30, 2012

Accounting Policies [Abstract]

Schedule of Revenue from External Customers Attributed to Foreign Countries by Geographic Area [Table Text Block]

	Twelve months ended June 30,
	2012		2011
United States	$	9,297,719	$	8,329,323
Australia		238,926		234,181
Europe		2,495,582		1,668,493
Asia		1,430,708		220,797
Canada and Mexico		499,162		228,704
South America		775,309		687,321
South Africa		425,084		564,286
Middle East		515,510		266,556
Other				173,368
	$	15,678,000	$	12,373,029

Schedule of Disposal Groups, Including Discontinued Operations, Income Statement, Balance Sheet and Additional Disclosures [Table Text Block]

	For the twelve months ended
	June 30,
	2012			2011
Revenues	$	1,552,153		$	2,067,032
Loss from discontinued operations, before tax	$	(535,223	)	$	(1,429,359	)
Gain on sale of discontinued operations		1,705,414			-
Income tax (expense)/benefit		(195,101	)		-
Net income/(loss) from discontinued operations net of tax	$	975,090		$	(1,429,359	)

Schedule of Expected Amortization Expense [Table Text Block]

The following is a schedule of estimated future amortization expense as of June 30, 2012:

			Customer
	Patents		Relationships
2013	$	70,869	$	160,000
2014		68,227		160,000
2015		62,664		160,000
2016		59,602		40,000
2017		58,661		-
Thereafter		241,484		-
	$	561,507	$	520,000

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Leases (Tables)

12 Months Ended

Jun. 30, 2012

Leases [Abstract]

Schedule Of Future Minimum Lease Payments For Capital and Operating Leases [Table Text Block]

The following is a schedule of future minimum lease payments, by year and in the aggregate, under operating leases with initial or remaining terms of one year or more at June 30, 2012:

	Operating
	Leases
2013	$	321,537
2014		326,555
2015		331,291
2016		25,968
2017		16,639
Total minimum lease payments	$	1,021,990

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Income Taxes (Details Textual) (USD $)	12 Months Ended
	Jun. 30, 2012
Operating Loss Carryforwards	3,900,000
Deferred Tax Assets, Tax Credit Carryforwards, Research	397,000
Deferred Tax Assets, Tax Credit Carryforwards, Alternative Minimum Tax	78,000
Minimum [Member]
Expiration Date Of Tax Credit Carryforward	2026
Maximum [Member]
Expiration Date Of Tax Credit Carryforward	2031
U S Federal [Member]
Operating Loss Carryforwards	12,000,000

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Stock-Based Compensation Plans (Details)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Risk-free interest rates	3.40%	4.10%
Expected option life in years	6 years 6 months	6 years 6 months
Expected stock price volatility	75.44%	77.88%
Expected dividend yield	0.00%	0.00%

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Consolidated Statements of Operations [Parenthetical] (USD $)	12 Months Ended
	Jun. 30, 2012	Jun. 30, 2011
Loss from discontinued operations , Tax Effect	$ 89,236	$ 0
Gain from sale of discontinued operations ,Tax Effect	$ 284,337	$ 0

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Inventories

12 Months Ended

Jun. 30, 2012

Inventory Disclosure [Abstract]

Inventory Disclosure [Text Block]

3. Inventories

Inventories are summarized as follows:

	June 30,		June 30,
	2012		2011
Raw material	$	2,172,536	$	1,845,667
Work-in-process		875,000		1,173,639
Finished goods		1,795,529		491,015
		4,843,065		3,510,321
Less valuation reserve		462,224		380,114
	$	4,380,841	$	3,130,207

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Stock-Based Compensation Plans (Tables)

12 Months Ended

Jun. 30, 2012

Share-Based Compensation [Abstract]

Schedule of Share-based Payment Award, Stock Options, Valuation Assumptions [Table Text Block]

The fair value of options at date of grant was estimated using the Black-Scholes option-pricing model utilizing the following assumptions:

	2012			2011
Risk-free interest rates		3.4	%		4.1	%
Expected option life in years		6.5			6.5
Expected stock price volatility		75.44	%		77.88	%
Expected dividend yield		0	%		0	%

Schedule of Share-based Compensation, Activity [Table Text Block]

The following table summarizes information about stock option activity during 2012 and 2011:

	Options
						Weighted
						Average
				Weighted		Remaining
	Number			Average		Contractual		Aggregate
	of			Exercise		Life		Intrinsic
	Shares			Price		Years		Value
Outstanding as of June 30, 2011		1,795,415		$	4.06
Granted		233,750			2.19
Exercised		(3,750	)		.85
Forfeited		(1,000	)		2.13
Expired		(203,485	)		6.07
Outstanding as of June 30, 2012		1,820,930		$	3.60		5.7	$	241,414
Vested and exercisable at June 30, 2012		1,243,868		$	4.30		4.7	$	96,426
Outstanding as of June 30, 2010		1,848,510		$	4.99
Granted		294,500			1.97
Exercised		—			—
Forfeited		(2,145	)		1.94
Expired		(345,450	)		7.29
Outstanding as of June 30, 2011		1,795,415		$	4.06		5.7	$	300,925
Vested and exercisable at June 30, 2011		1,241,028		$	4.92		4.1	$	68,407

Schedule of Share-based Compensation, Stock Options, Activity [Table Text Block]

The following table summarizes information about stock options outstanding at June 30, 2012:

		Options Outstanding						Options Exercisable
				Weighted
				Average		Weighted				Weighted
Range of				Contractual		Average				Average
Exercise				Life		Exercise				Exercise
Price		Number		(Yrs)		Price		Number		Price
	$0.85 – 2.66		943,450		7.6	$	2.13		366,388	$	2.17
	$3.21 – 4.99		322,750		3.9	$	4.37		322,750	$	4.37
	$5.10 – 8.00		554,730		2.9	$	5.66		554,730	$	5.66
			1,820,930		5.7	$	3.60		1,243,868	$	4.30

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Accrued Expenses and Other Current Liabilities (Details) (USD $)	Jun. 30, 2012	Jun. 30, 2011
Accrued payroll and vacation	$ 468,505	$ 465,272
Accrued bonuses	200,000	200,000
Accrued commissions	96,644	141,408
Accrued professional and legal fees	74,192	752,609
Accrued royalties	25,275	154,761
Deferred income	44,213	95,363
Other	166,103	159,665
Total	$ 1,074,932	$ 1,969,078

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Basis of Presentation, Organization and Business and Summary of Significant Accounting Policies (Policies)

12 Months Ended

Jun. 30, 2012

Accounting Policies [Abstract]

Basis of Accounting, Policy [Policy Text Block]

Basis of Presentation

The consolidated financial statements of MISONIX, INC. ("Misonix" or the "Company") include the accounts of Misonix and its 100% owned subsidiaries, Fibra-Sonics (NY) Inc. (“F-S”) and Hearing Innovations, Inc. ("Hearing Innovations"). All significant intercompany balances and transactions have been eliminated.

Discontinued Operations, Policy [Policy Text Block]

Discontinued Operations

	For the twelve months ended
	June 30,
	2012			2011
Revenues	$	1,552,153		$	2,067,032
Loss from discontinued operations, before tax	$	(535,223	)	$	(1,429,359	)
Gain on sale of discontinued operations		1,705,414			-
Income tax (expense)/benefit		(195,101	)		-
Net income/(loss) from discontinued operations net of tax	$	975,090		$	(1,429,359	)

Current assets of discontinued operations are comprised of accounts receivable of $208,282 and inventories of $648,813 at June 30, 2011. Long-term assets of discontinued operations are comprised entirely of property, plant and equipment at June 30, 2011. Current liabilities of discontinued operations are comprised entirely of accounts payable and accrued expenses at June 30, 2011.

Laboratory and Forensic Safety Products Business

On October 19, 2011, Misonix sold its Laboratory and Forensic Safety Products business, which comprised substantially all of the Laboratory and Scientific Products segment, to Mystaire, Inc. (“Mystaire”) for $1.5 million in cash plus a potential additional payment of up to an aggregate $500,000 based upon 30% of net sales in excess of $2.0 million for each of the three years following the closing (the “earn-out”). The Laboratory and Forensic Safety Products business manufactured and marketed ductless fume, laminar airflow and polymerase chain reaction workstations both domestically and internationally with revenues for fiscal 2011 of approximately $2.1 million.

In accordance with the Asset Purchase Agreement with Mystaire, Misonix retained among other items, the existing accounts receivable, inventory, accounts payable and accrued expenses of the Laboratory and Forensic Safety Products business. After considering the proceeds received of $1,500,000 in cash, professional fees of $25,000 in connection with the sale and the net book value of the assets sold of $24,000, which wascomprised primarily of property and equipment, Misonix reported a gain on sale of $1,451,000 and recorded income taxes of $242,000 on the gain during the fiscal year ended June 30, 2012. The earn-out will not be factored into the gain on sale until it is earned by Misonix.

In accordance with the terms of the Transition and Manufacturing Services Agreement with Mystaire, which was entered into as part of the sale, Misonix continued for a period of six weeks to manufacture and deliver products for orders received prior to the closing date as well as to provide product to Mystaire as transition inventory, which transition period was completed on November 30, 2011. 

The results of operations of the Laboratory and Forensic Safety Products business will be presented as discontinued operations for all periods presented as Misonix does not have any significant cash flow or continuing involvement in this business. Following the sale of the Laboratory and Forensic Safety Products business, the Company operates in one reportable segment, Medical Devices.

High Intensity Focused Ultrasound Technology

During the year ended June 30, 2012 the Company received $254,788 related to and earn-out from the May 2010 sale of its rights to the High Intensity focused Ultrasound (“HIFU”) technology to USHIFU, LLC (“USHIFU”), which has been recorded as a component of gain on the sale of discontinued operation during the period.

In consideration for the sale, Misonix will receive up to approximately $5.8 million, paid out of an earn-out of 7% of gross revenues received by USHIFU related to the business being sold up to the time the Company has received the first $3 million and thereafter 5% of the gross revenues up to the $5.8 million. Commencing 90 days after each December 31st and beginning December 31, 2011, the payment will be the greater of (a) $250,000 or (b) 7% of gross revenues receivedup to the time the Company has received the first $3 million and thereafter 5% of gross revenues up to the $5.8 million.

Labcaire Systems

On August 4, 2009, the Company sold its Labcaire Systems, Ltd. ("Labcaire") subsidiary to PuriCore International Limited ("PuriCore Limited") for a total purchase price of up to $5.6 million. The Company received $3.6 million at closing and a promissory note in the principal amount of $1 million, payable in equal installments of $250,000 on the next four anniversaries of the closing. During the year ended June 30, 2011, the Company received the first installment. The note receivable was discounted over the four years using a 4% imputed interest rate. This rate was consistent with published discounts. The discounted value of the note ($900,000) was used to determine gain or loss on the sale and the remaining outstanding balance is included in other assets in the consolidated balance sheet, with the current portion reflected as a component of notes receivable. The Company was also to receive a commission paid on sales for the period commencing on the date of closing and ending on December 31, 2013 of 8% of the pass through Automated Endoscope Reprocessing ("AER") and Drying Cabinet products, and 5% of license fees from any chemical licenses marketed by Labcaire directly associated with sale of AERs, specifically for the disinfection of the endoscope. The aggregate commission payable to the Company was also to be subject to a maximum payment of $1 million. The aggregate commission was not recognized in determining the gain or loss on the sale of Labcaire until the commission was to be paid. As of June 30, 2011, there were no commissions paid. For the year ended June 30, 2010, the Company recorded a pre-tax loss on the sale of Labcaire of $295,879. Results of Labcaire operations have been reported as a discontinued operation for all periods presented.

In January 2011, PuriCore Limited initiated a lawsuit against the Company in the High Court of Justice, Queens Bench Division, Commercial Court, Royal Courts of Justice, London, England (Claim No. 2011-42) (the "Lawsuit"). In the Lawsuit, PuriCore Limited claimed damages from the Company in respect of breach of warranties contained in the Stock Purchase Agreement, dated August 4, 2009 (the "SPA"), pursuant to which the Company sold Labcaire to PuriCore Limited. PuriCore Limited claimed damages of £2,167,000 or approximately $3,600,000, plus interest and its legal costs. The Company denied the allegations contained in the Lawsuit.

On July 19, 2011, PuriCore Limited and the Company reached an agreement to settle the Lawsuit (the "Settlement"). The Settlement provides that the Company (i) forgive in full PuriCore Limited and PuriCore plc's obligation under the SPA to pay up to $1 million of the previously unrecorded, contingent commissions (as described above); (ii) pay PuriCore, Inc. ("PuriCore"), an affiliate of PuriCore Limited, $650,000 towards PuriCore Limited's legal costs which had been accrued for as of June 30, 2011 and recorded as a component of loss from discontinued operations for the year ended June 30, 2011 and (iii) enter into a Product License and Distribution Agreement, dated as of July 19, 2011, with PuriCore (the "Distribution Agreement").

Pursuant to the Distribution Agreement, the Company has been granted the right to distribute PuriCore's Vashe^®solution products in the United States, on a private label basis, as an irrigating solution for the treatment of human wound care in conjunction with therapeutic ultrasonic procedures (the "Field"). PuriCore has agreed, subject to modification, not to sell the products that are the subject of the Distribution Agreement (the "Licensed Products") to any other therapeutic ultrasound company for distribution in the Field in the United States ("Exclusivity"). The Company has agreed not to sell or distribute in the United States in the Field any irrigating solution that has anti-microbial properties other than the Licensed Products so long as the Company has Exclusivity.

The Distribution Agreement is for a three (3) year term with automatic renewals for successive two (2) year periods; provided that the Company and PuriCore have agreed upon sales volume targets for each renewal period (such volume targets not to increase by more than ten (10%) percent year over year unless otherwise agreed) and provided that the cost terms shall be no less favorable than the twelve (12) months leading up to the start of such renewal period. In no event will the Distribution Agreement survive beyond the expiration or invalidation of all of PuriCore's patents.

During the initial term of the Distribution Agreement, the Company is obligated to either purchase or pay a minimum of $2 million in gross margin value to PuriCore for the Licensed Products (the "Minimum Payment"). The Minimum Payment is subject to downward adjustment and elimination in the event that (i) PuriCore chooses to eliminate Exclusivity, (ii) the Company's right to manufacture the Licensed Products under certain conditions has been triggered but the Company is unable to manufacture the Licensed Products or to have the Licensed Products manufactured for it by third parties or (iii) the U.S. Food and Drug Administration has made a final determination that prohibits the sale of the licensed products for use in the Field. As of June 30, 2012, Misonix has incurred approximately $321,750 towards the Minimum Payment, leaving a Minimum Payment balance of $1,678,250. At the start of fiscal 2012, the discounted value of the note was $650,000. During fiscal 2012, Misonix has purchased $451,883 of Licensed Products from Puricore, which has been offset against the note, leaving a note receivable balance of $298,117.

The Company has the right to manufacture the Licensed Products if PuriCore is unable to meet certain performance standards and will pay PuriCore a royalty after the $2 million in gross margin value requirement has been satisfied if the Company is then manufacturing the Licensed Products.

During a renewal period, PuriCore may terminate the Distribution Agreement (i) if the Company fails to purchase the agreed upon volume target for such renewal period and does not cure such failure in accordance with the Distribution Agreement or (ii) upon twelve (12) months’ notice.

Reclassification, Policy [Policy Text Block]

Reclassification

Certain prior period amounts in the accompanying financial statements and related notes have been reclassified to conform to the current period's presentation.

Cash and Cash Equivalents, Policy [Policy Text Block]

Cash and Cash Equivalents

The Company considers all highly liquid debt instruments purchased with a maturity of three months or less to be cash equivalents. 

The Company maintains cash balances at various financial institutions. At June 30, 2012, these financial institutions held cash that was approximately $6,034,000 in excess of amounts insured by the Federal Deposit Insurance Corporation and other government agencies.

Major Customers and Concentration Of Credit Risk [Policy Text Block]

Major Customers and Concentration of Credit Risk

Included in sales from continuing operations are sales to Covidien Ltd. (“Covidien”) of $1,484,000 and $3,260,000, Aesculap, Inc. (“Aesculap”) of $1,533,000 and $859,000, and Mentor (a Johnson & Johnson Company) of $1,492,000 and $900,000 for the fiscal years ended June 30, 2012 and 2011, respectively. Total royalties from Covidien related to their sales of the Company's ultrasonic cutting product, which uses high frequency sound waves to coagulate and divide tissue for both open and laparoscopic surgery, were approximately $488,000 and $550,000 during the fiscal years ended June 30, 2012 and 2011, respectively. Accounts receivable from Covidien were approximately $586,000 and $413,000, from Aesculap were approximately $532,000 and $6,300 and from Mentor were approximately $385,000 and $171,000 at June 30, 2012 and 2011, respectively. At June 30, 2012 and 2011, the Company's accounts receivable with customers outside the United States were approximately $700,000 and $674,000, respectively.

Trade and Other Accounts Receivable, Policy [Policy Text Block]

Accounts Receivable

Accounts receivable, principally trade, are generally due within 30 to 90 days and are stated at amounts due from customers, net of an allowance for doubtful accounts. The Company performs ongoing credit evaluations and adjusts credit limits based upon payment history and the customer's current credit worthiness, as determined by a review of their current credit information. The Company continuously monitors aging reports, collections and payments from customers and maintains a provision for estimated credit losses based upon historical experience and any specific customer collection issues that have been identified. While such credit losses have historically been within expectations and the provisions established, the Company cannot guarantee that the same credit loss rates will be experienced in the future. The Company writes off accounts receivable when they become uncollectible.

Inventory, Policy [Policy Text Block]

Inventories

Inventories are stated at the lower of cost (first-in, first-out) or market and consist of raw materials, work-in-process and finished goods. Management evaluates the need to record adjustments for impairments of inventory on a quarterly basis. The Company's policy is to assess the valuation of all inventories, including raw materials, work-in-process and finished goods. Inventory items used for demonstration purposes, rentals or on consignment are classified in property, plant and equipment.

Property, Plant and Equipment, Policy [Policy Text Block]

Property, Plant and Equipment

Property, plant and equipment are recorded at cost. Minor replacements and maintenance and repair expenses are charged to expense as incurred. Depreciation of property and equipment is provided using the straight-line method over estimated useful lives ranging from 3 to 5 years. Leasehold improvements are amortized over the life of the lease or the useful life of the related asset, whichever is shorter. The Company's policy is to periodically evaluate the appropriateness of the lives assigned to property, plant and equipment and make adjustments if necessary. Inventory items included in property, plant and equipment are depreciated using the straight line method over estimated useful lives of 3 to 5 years.

Revenue Recognition, Policy [Policy Text Block]

Revenue Recognition

The Company records revenue upon shipment for products shipped F.O.B. shipping point. Products shipped F.O.B. destination point are recorded as revenue when received at the point of destination. Shipments under agreements with distributors are not subject to return, and payment for these shipments is not contingent on sales by the distributor. Accordingly the Company recognizes revenue on shipments to distributors in the same manner as with other customers. Fees from exclusive license agreements are recognized ratably over the terms of the respective agreements. Service contracts and royalty income are recognized when earned.

The Company currently presents taxes collected from customers and remitted to governmental authorities in the statement of operations on a net basis.

Impairment or Disposal of Long-Lived Assets, Policy [Policy Text Block]

Long-Lived Assets

The carrying values of intangible and other long-lived assets, excluding goodwill, are periodically reviewed to determine if any impairment indicators are present. If it is determined that such indicators are present and the review indicates that the assets will not be fully recoverable, based on undiscounted estimated cash flows over the remaining amortization and depreciation period, their carrying values are reduced to estimated fair value. Impairment indicators include, among other conditions, cash flow deficits, an historic or anticipated decline in revenue or operating profit, adverse legal or regulatory developments, accumulation of costs significantly in excess of amounts originally expected to acquire the asset and a material decrease in the fair value of some or all of the assets. Assets are grouped at the lowest level for which there are identifiable cash flows that are largely independent of the cash flows generated by other asset groups. No such impairment existed at June 30, 2012 and 2011.

Goodwill and Intangible Assets, Goodwill, Policy [Policy Text Block]

Goodwill

Goodwill is not amortized. We review goodwill for impairment annually and whenever events or changes indicate that the carrying value of an asset may not be recoverable. These events or circumstances could include a significant change in the business climate, legal factors, operating performance indicators, competition, or sale or disposition of significant assets or products. Application of these impairment tests requires significant judgments, including estimation of cash flows, which is dependent on internal forecasts, estimation of the long-term rate of growth for the Company’s business, the useful life over which cash flows will occur and determination of the Company’s weighted-average cost of capital. We primarily utilize a discontinued cash flow model in determining the fair value, which consists of Level 3 inputs. Changes in the projected cash flows and discount rate estimates and assumptions underlying the valuation of goodwill could materially affect the determination of fair value at acquisition or during subsequent periods when tested for impairment. The Company completed its annual goodwill impairment tests for fiscal 2012 and 2011 in the respective fourth quarter. No impairment of goodwill was deemed to exist.

Goodwill and Intangible Assets, Intangible Assets, Policy [Policy Text Block]

Intangible and Other Assets

The cost of acquiring or processing patents is capitalized at cost. This amount is being amortized using the straight-line method over the estimated useful lives of the underlying assets, which is approximately 17 years. Net patents reported in intangible and other assets totaled $561,507 and $548,016 at June 30, 2012 and 2011, respectively. Accumulated amortization totaled $479,517 and $420,359 at June 30, 2012 and 2011, respectively. Amortization expense for the years ended June 30, 2012 and 2011 was approximately $59,000 and $65,000, respectively.

On October 7, 2010, the Company, F-S and Aesculap entered into a Termination, Amendment and Buy-Back Agreement to Distributor Agreement (the "Termination Agreement"). Pursuant to the Termination Agreement, the parties agreed to terminate, as of October 15, 2010 (the "Termination Date"), (i) Misonix's remaining obligations under the Distributor Agreement dated November 1999 between Aesculap and F-S, as amended (the "Distributor Agreement"), and (ii) Aesculap's rights to sell procedure packs (the "Sale Rights") to the Sonastar Customers (as defined below). On the Termination Date, in consideration of the purchase and sale of (i) Aesculap's current service contracts ("Sonastar Contracts") for the products (the "Products") that are the subject of the Distributor Agreement, customer list and customers currently evaluating the Products all with respect to the sale and servicing of the Products (the "Customer List") and (ii) the Sale Rights, Misonix paid Aesculap $800,000. Misonix assumed all rights, responsibilities and obligations pursuant to and under the (i) Sonastar Contracts and Customer List and (ii) the Sale Rights, including, without limitation, the sale of accessory Products and servicing and training of the Products to the customers with Sonastar Contracts (the "Sonastar Customers"). Misonix also agreed to repurchase from Aesculap the current inventory of (i) new Products held by Aesculap at the price Aesculap paid for such Products and (ii) used Products held by Aesculap for demonstration and/or loaner purposes at prices equal to Aesculap's book-value as of July 31, 2010 for such Products. The purchase price for the current inventory acquired was $519,000. Aesculap also agreed to certain non-competition and non-solicitation restrictions for an eighteen (18) month period.

The Company has determined that the acquisition did not constitute a business combination in accordance with Financial Accounting Standards Board ("FASB") Accounting Standards Codification 805, “Business Combinations.” Accordingly, it has been recorded as an asset acquisition with the aggregate cost of $1,319,000 assigned to the assets acquired based upon their relative fair values. The Company has allocated $259,000 of the cost to inventory, $260,000 of the cost to equipment which will be amortized over a three year period on a straight-line basis and $800,000 to customer relationships which will be amortized on a straight-line basis over a five year period.

Net customer relationships reported in intangible and other assets totaled $520,000 and $680,000 at June 30, 2012 and June 30, 2011, respectively. Accumulated amortization amounted to $280,000 and $120,000 at June 30, 2012 and June 30, 2011, respectively. Amortization expenses for the years ended June 30, 2012 and June 30, 2011 were $160,000 and $120,000, respectively. 

The following is a schedule of estimated future amortization expense as of June 30, 2012:

			Customer
	Patents		Relationships
2013	$	70,869	$	160,000
2014		68,227		160,000
2015		62,664		160,000
2016		59,602		40,000
2017		58,661		-
Thereafter		241,484		-
	$	561,507	$	520,000

Income Tax, Policy [Policy Text Block]

Income Taxes

Deferred tax assets and liabilities are recognized for the future tax consequences attributable to differences between the financial statement carrying amounts of existing assets and liabilities and their respective tax bases and operating loss and tax credit carry forwards. Deferred tax assets and liabilities are measured using enacted tax rates expected to apply to taxable income in the years in which those temporary differences are expected to be recovered or settled. The effect on deferred tax assets and liabilities of a change in tax rates is recognized in income in the period that includes the enactment date.  The ultimate realization of deferred tax assets is dependent upon the generation of future taxable income in those periods in which temporary differences become deductible.  Should management determine that it is more likely than not that some portion of the deferred tax asset will not be realized, a valuation allowance against the deferred tax asset would be established in the period such determination was made.

The Company recognizes a tax benefit from an uncertain tax position only if it is more likely than not that the tax position will be sustained on examination by the taxing authorities based on the technical merits of the position. The tax benefits recognized in the financial statements from such position is measured based on the largest benefit that has a greater than fifty percent likelihood of being realized upon ultimate settlement. The Company classifies income tax related interest and penalties as a component of income tax expense.

Earnings Per Share, Policy [Policy Text Block]

Income (Loss) Per Share

Basic income (loss) per common share ("Basic EPS") is computed by dividing income (loss) by the weighted average number of common shares outstanding. Diluted income (loss) per common share ("Diluted EPS") is computed by dividing income (loss) by the weighted average number of common shares and the dilutive common share equivalents and convertible securities then outstanding.

Excluded from the calculation of Diluted EPS are options to purchase 1,408,030 shares of common stock for the three months ended June 30, 2012. The excluded shares are any shares in which the average stock price for the quarter or year-to-date is less than the exercise price of the outstanding options in the period in which the Company has net income.

Diluted EPS for the twelve months ended June 30, 2012 and the twelve and the unaudited three months ended June 30, 2011 presented is the same as Basic EPS, as the inclusion of the effect of common share equivalents then outstanding would be anti-dilutive. For this reason, excluded from the calculations of Diluted EPS for the twelve months ended June 30, 2012 and twelve and the unaudited three months ended June 30, 2011 are outstanding options to purchase 1,820,930 and 1,795,415 shares, respectively.

Comprehensive Income, Policy [Policy Text Block]

Comprehensive Income/(Loss)

Total comprehensive income/(loss) was $366,325 for the year ended June 30, 2012 and $(3,534,246) for the year ended June 30, 2011.

Research and Development Expense, Policy [Policy Text Block]

Research and Development

All research and development expenses are expensed as incurred and are included in operating expenses.

Advertising Costs, Policy [Policy Text Block]

Advertising Expense

The cost of advertising is expensed in the period the advertising first takes place. The Company incurred approximately $105,000 and $56,000 in advertising costs during the years ended June 30, 2012 and 2011, respectively.

Use of Estimates, Policy [Policy Text Block]

Use of Estimates

The preparation of financial statements in conformity with accounting principles generally accepted in the United States requires management to make estimates and judgments that affect the reported amount of assets and liabilities and disclosure of contingent assets and liabilities at the date of the financial statements and the reported amounts of revenues and expenses during the reporting period. Actual results could differ from those estimates.

Shipping and Handling Cost, Policy [Policy Text Block]

Shipping and Handling

Shipping and handling fees for the years ended June 30, 2012 and 2011 were approximately $53,000 and $30,000, respectively, and are reported as a component of net sales. Shipping and handling costs for the years ended June 30, 2012 and 2011 were approximately $92,000 and $79,000, respectively, and are reported as a component of selling expenses.

Compensation Related Costs, Policy [Policy Text Block]

Stock-Based Compensation

The Company measures compensation cost for all share based payments at fair value and recognizes the cost over the vesting period.  The Company utilizes the straight line amortization method to recognize the expense associated with the awards with graded vesting terms.

New Accounting Pronouncements, Policy [Policy Text Block]

Recent Accounting Pronouncements

In December 2010, the FASB issued Accounting Standards Update (“ASU”) 2010-28, When to Perform Step 2 of the Goodwill Impairment Test for Reporting Units with Zero or Negative Carrying Amounts, to modify goodwill impairment testing for reporting units with a zero or negative carrying amount. Under the amended guidance, an entity must consider whether it is more likely than not that a goodwill impairment exists for reporting units with a zero or negative carrying amount. If it is more likely than not that a goodwill impairment exists, the second step of the goodwill impairment test in ASC 350-20-35 must be performed to measure the amount of goodwill impairment loss, if any. This standard was effective for goodwill impairment analysis for fiscal years and interim periods beginning after December 15, 2010, and became effective for our interim and annual reporting periods beginning July 1, 2011. The adoption of the guidance did not have a material impact on the Company's consolidated financial statements.

In May 2011, the FASB issued ASU No. 2011-04, Amendments to Achieve Common Fair Value Measurement and Disclosure Requirements in U.S. Generally Accepted Accounting Principlesand International Financial Reporting Standards. This guidance amends U.S. Generally Accepted Accounting Principles (“U.S. GAAP”) to conform with measurement and disclosure requirements in International Financial Reporting Standards (“IFRS”). The amendments change the wording used to describe the requirements in U.S. GAAP for measuring fair value and for disclosing information about fair value measurements, and they include those that clarify the FASB's intent about the application of existing fair value measurement and disclosure requirements and those that change a particular principle or requirement for measuring fair value or for disclosing information about fair value measurements. In addition, to improve consistency in application across jurisdictions, some changes in wording are necessary to ensure that U.S.  GAAP and IFRS fair value measurement and disclosure requirements are described in the same way. This amended guidance is to be applied prospectively and is effective for fiscal years beginning after December 15, 2011. The Company is evaluating the guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.

In June 2011, the FASB amended Accounting Standard Codification 220, Comprehensive Income.  The amendment eliminates the current option to report other comprehensive income and its components in the statement of changes in stockholders’ equity.  In accordance with the amendment, an entity has the option to present the total of comprehensive income, the components of net income, and the components of other comprehensive income in one continuous statement or in two separate, but consecutive statements.  Additionally, reclassification adjustments from other comprehensive income to net income will be presented on the face of the financial statements.  The amendment is effective for annual reporting periods beginning after December 15, 2011, which for the Company is July 1, 2012, with full retrospective application required.  As a result, the adoption of this standard will change how we present other comprehensive income (loss), which has been historically presented as part of our consolidated statements of stockholders’ equity.

In September 2011, the FASB issued Accounting Standards UpdateNo. 2011-08, Testing Goodwill for Impairment. Under the revised guidance, companies testing goodwill for impairment have the option of performing a qualitative assessment before calculating the fair value of the reporting unit (i.e., step 1 of the goodwill impairment test). If companies determine, on the basis of qualitative factors, that the fair value of the reporting unit is more likely than not less than the carrying amount, the two-step impairment test would be required. This update is effective for annual and interim goodwill impairment tests performed for fiscal years beginning after December 15, 2011, with early adoption permitted. The Company is evaluating the revised guidance and does not anticipate that adoption will have a material impact on the Company's consolidated financial statements.