Metabolix, Inc. Focused on Yield10 Bioscience as the Core Business

Investor PresentationDecember 2016

Safe Harbor Statement*

*Under the Private Securities Litigation Reform Act of 1995

The statements made by Metabolix, Inc. (the “Company,” “we,” “our” or “us”) herein regarding the Company and its business may be forward-looking in nature and are made pursuant to the safe harbor provisions of the Private Securities Litigation Reform Act of 1995. Forward-looking statements describe the Company’s future plans, projections, strategies and expectations, including statements regarding future results of operations and financial position, business strategy, prospective products and technologies, timing and likelihood of success, and objectives of the Company for the future, and are based on certain assumptions and involve a number of risks and uncertainties, many of which are beyond the control of the Company, including, but not limited to, the risks detailed in the Company’s Quarterly Report on Form 10-Q for the quarter ended June 30, 2016 and other reports filed by the Company with the Securities and Exchange Commission (the “SEC”). Forward-looking statements include all statements which are not historical facts, and can generally be identified by terms such as anticipates, believes, could, estimates, intends, may, plans, projects, should, will, would, or the negative of those terms and similar expressions.

Because forward-looking statements are inherently subject to risks and uncertainties, some of which cannot be predicted or quantified and may be beyond the Company’s control, you should not rely on these statements as predictions of future events. Actual results could differ materially from those projected due to our history of losses, lack of market acceptance of our products and technologies, the complexity of technology development and relevant regulatory processes, market competition, changes in the local and national economies, and various other factors. All forward-looking statements contained herein speak only as of the date hereof, and the Company undertakes no obligation to update any forward-looking statements, whether to reflect new information, events or circumstances after the date hereof or otherwise, except as may be required by law.

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Company Overview

• Headquartered in Woburn, MA

• Oilseeds center of excellence in Saskatoon, Canada

• Based on 10+ years of Metabolix crop science research

• Launched as Yield10 Bioscience in September 2015

• Planning to rebrand as “Yield10 Bioscience”

Yield10 is bringing the extensive expertise and track record of Metabolix in optimizing the flow of carbon in living systems to the agriculture sector with a focus on increasing yield in key row crops

• Impressive track record of biotechnology innovation -- more than 350 patents issued on legacy inventions

• 10 recent patent applications for increased crop yield (IP foundation for Yield10)

• Initial development targets are canola, soybean and corn

• Additional market opportunities include licensing or partnering in other crops, such as cotton, alfalfa, sorghum, rice, potato, sugarcane and sugarbeet

Yield10 Bioscience is working to produce step-change improvements in crop yield to enhance global food security

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Yield10 The Opportunity

A New Crop Science Paradigm to Enhance Global Food Security

9 October 2009Revised June, 2015GA/EF/3242Food Production Must Double by 2050 to Meet Demand from World’s Growing Population

Realizing a New Vision for Agriculture:A roadmap for stakeholdershttp://www3.weforum.org/docs/WEF_IP_NVA_Roadmap_Report.pdf

Y10 is… aligned with compelling megatrends

• Global population growth from 7 billion to 9.6 billion by 2050

• Reduction in available land due to infrastructure growth

• Increased pressure on scarce water and other resources

• Changing global weather patterns

• Environmental issues with intensive agriculture

Need… more than 70% increase in food production over the same period

But… can the current rates of crop yield increase get us there?

Reality… traditional breeding and business models cannot solve this problem

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NY Times Article

Business Day | Uncertain Harvest Doubts About the Promised Bounty of Genetically Modified Crops

LONDON — The controversy over genetically modified crops has long focused on largely unsubstantiated fears that they are unsafe to eat.But an extensive examination by The New York Times indicates that the debate has missed a more basic problem — genetic modification in the United States and Canada has not accelerated increases in crop yields or led to an overall reduction in the use of chemical pesticides.

Go to the article by clicking Here.

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Yield10 The Opportunity

A New Crop Science Paradigm to Enhance Global Food Security

• Traditional breeding won’t get us there

• Failure could lead to global catastrophe

• Has re opened the GMO conversation

• Technology solutions are needed and can be developed

…BUT…

• Global dissemination should be maximized

• New business models will be required

Yield Trends Are Insufficient to Double Global Crop Production by 2050Deepak K. Ray, Nathaniel D. Mueller, Paul C. West, Jonathan A. Foley

Step change yield impact: 17% yield increase for corn Plus traditional breeding

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Yield 10 Approach

CO2

per acre or unit

input

Fix more carbon

Enhanced Carbon Capture

Photosynthesis

(Source)

Plant Central Metabolism

Robust plants with targeted

carbon deposition

Starch or oil

Biomass

Seed Yield

Nutrition

Industrial

Products

Carbon fixed in products

(Sink)

“Enhanced Carbon Capture >>>> Targeted Carbon Deposition”

The Yield10 technology platform leverages advanced metabolic engineering systems and proprietary transcriptome network analysis to enhance carbon capture and control metabolic pathways driving crop yield

Fundamentally increasing crop yield is a complex two step carbon optimization problem

1) Increase the rate of carbon fixation in crops having the C3 (e.g. soybean) and C4 (e.g. corn) photosynthesis systems

2) Directing the increased fixed carbon to the harvested part of the plant, mostly seed

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Yield10 leverages microbial diversity to eliminate bottlenecks inplant carbon metabolism using its “Smart Carbon Grid for Crops”

“Smart Carbon Grid for Crops” The “T3 Platform”

Technology Platforms

Yield10 uses its “T3 Platform” to identify crop global regulator genes achieve step change improvements in crop yield

Yield10 applies its Smart Carbon Grid for Crops and T3 Technology Platforms to the complex and challenging goal of producing step change improvements in crop yield

Translation

Demonstration

Discovery

Using the Camelina Fast Field Testing platform to accelerate timelines for validation and optimization of breakthrough yield traits

Of value of lead traits in major food and feed crops including canola, soybean and corn

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Photorespiration: A Well Known Limit to Yield in C3 plants

Photorespiration: A side reaction in crops having the C3 photosynthesis system

• Many key food crops rely on C3 photosynthesis• Rice, wheat, soybean, canola, potato, etc.

• Calvin cycle of photosynthesis, key enzyme RuBisCofixes carbon dioxide producing sugar for plant growth

• C3 crops have considerable yield loss due to photorespiration, a wasteful cycle of photosynthesis where RuBisCo fixes oxygen• produces a toxic compound that must be

recycled• leads to significant energy loss and net loss of

fixed carbon

• Crops with C4 photosynthesis have evolved separately and have 4-5x higher yield than crops with C3 photosynthesis

loss of fixed carbon

toxic molecule recycled through photorespiration

0.5

1

C3 photosynthesis reactions

sugar

Photorespiration Calvin Cycle

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Photorespiration: A Well Known Limit to Yield in C3 plants

Photorespiration: A side reaction in crops having the C3 Photosynthesis system

• Recently yield losses in C3 crops due to photorespiration have been quantified (Walker et al., 2016) • estimated 36% and 20% yield loss in US soybean

and wheat

• A 5% reduction of photorespiration in soybean and wheat in the US would add ~$500 million/year of value

• Models suggest that photosynthesis could improve by 12-55% in the absence of photorespiration

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Innovative Approach to Increasing Seed Yield in C3 Crops(vast majority of food consumed by humans, e.g., canola, soybean, rice, wheat, potato, cotton, alfalfa)

CO2

Enhance photosynthesis

(carbon capture)

Biomass

Seed (Food)Sugar

CO2

CO2

+

+

Reduce photorespiration

~35% potential yield increase

Shift carbon distribution from

biomass to seed

~5-20% potential yield increase

Smart Carbon Grid for Crops

C3003 trait

C3004 trait

Central metabolism

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2016 Fast Field Testing in Camelina

Trait Technology Target

C3003 (In-licensed) Improve carbon capture from C3 photosynthesis

C3004 (In-licensed) Partition more carbon from leaf, stem, etc. (biomass) to seed

C3005 A, B (In-licensed) Recapture carbon lost as C02 from cellular metabolism

C3006 (In-house) Recapture carbon lost as C02 by seed metabolism

2016 Multi-Site Fast Field Testing of Novel Traits in Camelina; Harvest Fall 2016• Build robust system for rapid field testing of novel strategies and traits • Using camelina platform as a proxy for oilseed and other C3 crops --- rapid genetic transformation,

fast growth cycle time, ability to bulk up seeds quickly, agronomic performance suitable for field testing • Use results and molecular analysis to guide further development and next round of field tests

Planted May 2016

July 2016

Link to a White House OSTP Fact Sheet here.

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Traits in Development

As a result of over 4 years investment in fundamental crop research projects, we have a number of yield traits under development for applications in major food crops; Opportunities exist for licensing and/or partnerships

TraitBiological

MechanismValue GMO Editing Status

Current ActivityNext Steps

Licensing/PartneringOpportunities

C3003(1st Gen)

Reducephotorespiration

Seed yieldWater use + No

Greenhouse data,Initial third partyfield studies

Camelina field testing Canola and soybean in development

alfalfa, cotton, potato, rice, wheat, sugarbeet and potentially corn

C3004(2nd Gen)

Carbon partitioning Seed yield + + Third party dataCamelina field testing,editing underway

Corn?, cotton, potato, rice, wheat, sugarbeet

C3005/6(1st Gen)

Increased carbon conversion efficiency

Oil content, Seed yield + No Greenhouse data Camelina field testing All oilseeds

C4001(1st Gen)

Global regulator genePhotosynthesis

Yield + + Greenhouse data Corn transformation Forage, all major crops

C4002(1st Gen)

Global regulator genePhotosynthesis

Yield + + Greenhouse data Corn transformation Forage, all major crops

C4003(1st Gen)

Global regulator genePhotosynthesis

Yield + + Greenhouse data Corn transformation Forage, all major crops

C4004(2nd Gen)

Regulator gene Yield + + Greenhouse data Corn transformation All major crops

C4005(2nd Gen)

Regulator gene Drought + + Greenhouse data Corn transformation All major crops

C4006(2nd Gen)

Regulator gene Drought + + Greenhouse data Corn transformation All major crops

22 additional targets for genome editing have been identified and will undergo validation with potential for IP

Smar

t G

rid

T3 P

latf

orm

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Trait Development Process

Commercial value increases and risk decreases as we progress through field validation, with numerous options for value capture along the way

Indicative Development Timeline for C3003

Crop/TraitYear

2016 2017 2018 2019 2020 2021

Camelina/Gen 1 C3003 Field test Field test

Camelina/Gen 2 C3003 Greenhouse Field test

Camelina/Gen 3 C3003 Greenhouse Field test

Canola/Gen 1 C3003 Greenhouse Initial Field Test Field trial Field trial

Canola/Gen 2 C3003 Greenhouse Initial Field Test Field trial

Canola/Gen 3 C3003

Soybean/Gen 1 C3003 Greenhouse Initial Field Test

Field trial Field trial

Soybean/Gen 2 C3003 Greenhouse Initial Field Test

Field Trial Field Trial

Rice/Gen 1 C3003 Greenhouse

Translation

Demonstration

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Value Creation Opportunity

Yield10 Seeks to Participate in Incremental Value Created by Yield10 Technologies

Example of potential value creation opportunity in U.S. soybean…

• Approximately 84 million acres planted in the U.S.*

• 10 bushel/acre increase in yield

• Average price approximately $10.00 per bushel

• Approximately $8.4 billion of potential value creation

*Source: USDA Acreage Report 6/30/16

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Upcoming Milestones

• Continue to leverage academic collaborations to access breakthrough crop science

• Progress Fast Field Testing platform development and trials in Camelina

• Complete field tests, harvest seed, collect and analyze data and refine testing platform and

protocols

• Continue to deploy technology into camelina, canola, soybean and corn lines

• Use Fast Field Testing results to guide go/no-go decisions on row crop transformation activities

• Plan and initiate additional Fast Field Tests for 2017 growing season

• Leverage “Smart Carbon Grid for Crops” and “T3 Platform” technologies to identify additional trait leads

• Secure Ag industry collaborations and additional grants

• Publication of technical papers on key technologies

• Continue to build intellectual property portfolio

Yield10 is working to progress its yield enhancement technologies and build collaborations

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Leadership Team

Oliver Peoples, Ph.D.CEO

• Founder and CSO of Metabolix, Dr. Peoples is an experienced entrepreneur and biotechnology executive with over 30 years of experience in science and technology innovation

• He initiated the Metabolix crop science program over a decade ago and more recently spearheaded the development of Yield10’s research and business focus

Kristi Snell, Ph.D. VP Research & CSO

• VP of Research and Biotechnology at Metabolix with over 20 years of experience and industry recognized expertise in metabolic engineering of plants and microbes for the production of novel products and increased plant yield

• Following her post-doctoral research at MIT on metabolic engineering, Dr. Snell joined Metabolix in 1997 where she has led the plant science research program since its inception

Charles HaaserVP, Finance & CAO

• Joined Metabolix in 2008 as corporate controller and was named chief accounting officer in 2014• Has more than 30 years of senior accounting management and executive experience with public technology-based

companies• Strong professional background includes technical accounting, SEC financial reporting, Sarbanes-Oxley and tax compliance

Lynne BrumVP, Planning & Communications

• Joined Metabolix in 2011 as vice president marketing and corporate communications • Has more than 25 years experience in the life science industry including roles in corporate communications, investor

relations, financial planning and corporate development

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enables… Numerous opportunities for value capture• Commercialize seed lines for select crops• Licensing and/or funded development projects with strategic partners

is… Aligned with compelling megatrends• Global population growth from 7 billion to 9 billion by 2050 driving need for

>70% increase in food production over the same period• Growing pressure on water and land resources, issues with intensive agriculture

developing… Breakthrough technology for improved crop yield• Novel yield trait technologies for both C3 and C4 photosynthetic crops• Foundation IP in place (owned/in-licensed)• Staff and research facilities in place

creates… Large addressable market opportunity• Crop R&D $4 billion Total Seed $53 billion Global food $4 trillion

Investment Considerations

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19 Presidential WayWoburn, MA 01801