Michael D Lynch | Scholars@Duke

Michael D Lynch
Assistant Professor in the Department of Biomedical Engineering

Current Research Interests

Focused on genetically engineering microbes to shut off their growth circuits and turn on new pathways to produce different compounds—improving production of biofuels, pharmacological molecules and industrial chemicals.

Current Appointments & Affiliations

Assistant Professor in the Department of Biomedical Engineering, Biomedical Engineering, Pratt School of Engineering 2014
Faculty Fellow in The Energy Initiative, Duke University Energy Initiative, Initiatives 2012
Associate of the Duke Initiative for Science & Society, Duke Science & Society, Initiatives 2017

Contact Information

Background
Education, Training, & Certifications
- M.D., University of Colorado School of Medicine 2007
- Ph.D., University of Colorado at Boulder 2005
Duke Appointment History
- Assistant Professor in the Department of Chemistry, Chemistry, Trinity College of Arts & Sciences 2014 - 2018
- Assistant Research Professor in the Department of Biomedical Engineering, Biomedical Engineering, Pratt School of Engineering 2013 - 2014
Recognition
In the News
- JUN 2, 2016
  
  Duke Biomanufacturing Technology Licensed by Spinoff Company DMC
- NOV 5, 2014 Pratt School of Engineering
  
  Michael Lynch: Bending Microbial Metabolisms to Generate New Chemicals
Research
Selected Grants
- University Training Program in Biomolecular and Tissue Engineering awarded by National Institutes of Health 1994 - 2022
- Production of a beta-carotene derivatives using Dynamic Metabolic Control awarded by BASF Corporation 2019 - 2020
- A Platform for Next Generation Biologics awarded by North Carolina Biotechnology Center 2018 - 2019
- Process Intensification for Reduced Commercial CAPEX of Biofuels Production (PRICE CAP) using Dynamic Metabolic Control awarded by Department of Energy 2016 - 2019
- Sustainable Biological Production of Energetic Materials awarded by Office of Naval Research 2016 - 2019
- Dynamic Metabolic Control for the Production of Limonene awarded by DMC Limited 2017 - 2019
- A High through-put Automated Strain Evaluation Platform for Advanced Renewable Chemicals and Materials awarded by Office of Naval Research 2017 - 2018
- EAGER:Dynamic Flux Control Enabled by Synthetic Metabolic Valves awarded by National Science Foundation 2014 - 2017
- Modular Microbial Chasses for the Rapid Scale Up of Living Foundary Molecules awarded by Defense Advanced Research Projects Agency 2014 - 2016
- Multi-Site Public Engagement with Science-Synthetic Biology awarded by Museum of Science 2016
Publications & Artistic Works
Selected Publications
- Academic Articles
  - Menacho-Melgar, R, Decker, JS, Hennigan, JN, and Lynch, MD. "A review of lipidation in the development of advanced protein and peptide therapeutics." Journal of Controlled Release : Official Journal of the Controlled Release Society 295 (February 2019): 1-12. (Review) Full Text
  - Moreb, EA, Hoover, B, Yaseen, A, Valyasevi, N, Roecker, Z, Menacho-Melgar, R, and Lynch, MD. "Managing the SOS Response for Enhanced CRISPR-Cas-Based Recombineering in E. coli through Transient Inhibition of Host RecA Activity." Acs Synthetic Biology 6, no. 12 (December 2017): 2209-2218. Full Text
  - Burg, JM, Cooper, CB, Ye, Z, Reed, BR, Moreb, EA, and Lynch, MD. "Large-scale bioprocess competitiveness: the potential of dynamic metabolic control in two-stage fermentations." Current Opinion in Chemical Engineering 14 (November 1, 2016): 121-136. (Review) Full Text
  - Lynch, MD. "Into new territory: improved microbial synthesis through engineering of the essential metabolic network." Current Opinion in Biotechnology 38 (April 2016): 106-111. (Review) Full Text
  - Boyle, NR, Reynolds, TS, Evans, R, Lynch, M, and Gill, RT. "Recombineering to homogeneity: extension of multiplex recombineering to large-scale genome editing." Biotechnology Journal 8, no. 5 (May 2013): 515-522. (Review) Full Text
  - Garst, A, Lynch, M, Evans, R, and Gill, RT. "Strategies for the multiplex mapping of genes to traits." Microbial Cell Factories 12 (January 2013): 99-null. (Review) Full Text
  - Warnecke, TE, Lynch, MD, Lipscomb, ML, and Gill, RT. "Identification of a 21 amino acid peptide conferring 3-hydroxypropionic acid stress-tolerance to Escherichia coli." Biotechnology and Bioengineering 109, no. 5 (May 2012): 1347-1352. (Letter) Full Text
  - Prior, JE, Lynch, MD, and Gill, RT. "Broad-host-range vectors for protein expression across gram negative hosts." Biotechnology and Bioengineering 106, no. 2 (June 2010): 326-332. Full Text
  - Warnecke, TE, Lynch, MD, Karimpour-Fard, A, Lipscomb, ML, Handke, P, Mills, T, Ramey, CJ, Hoang, T, and Gill, RT. "Rapid dissection of a complex phenotype through genomic-scale mapping of fitness altering genes." Metabolic Engineering 12, no. 3 (May 2010): 241-250. Full Text
  - Singh, A, Lynch, MD, and Gill, RT. "Genes restoring redox balance in fermentation-deficient E. coli NZN111." Metabolic Engineering 11, no. 6 (November 2009): 347-354. Full Text
  - Gall, S, Lynch, MD, Sandoval, NR, and Gill, RT. "Parallel mapping of genotypes to phenotypes contributing to overall biological fitness." Metabolic Engineering 10, no. 6 (November 2008): 382-393. Full Text
  - Warnecke, TE, Lynch, MD, Karimpour-Fard, A, Sandoval, N, and Gill, RT. "A genomics approach to improve the analysis and design of strain selections." Metabolic Engineering 10, no. 3-4 (May 9, 2008): 154-165. Full Text
  - Bonomo, J, Lynch, MD, Warnecke, T, Price, JV, and Gill, RT. "Genome-scale analysis of anti-metabolite directed strain engineering." Metabolic Engineering 10, no. 2 (March 2008): 109-120. Full Text
  - Lynch, MD, Warnecke, T, and Gill, RT. "SCALEs: multiscale analysis of library enrichment." Nature Methods 4, no. 1 (January 2007): 87-93. Full Text
  - Lynch, MD, and Gill, RT. "Broad host range vectors for stable genomic library construction." Biotechnology and Bioengineering 94, no. 1 (May 2006): 151-158. Full Text
  - Lynch, MD, Gill, RT, and Stephanopoulos, G. "Mapping phenotypic landscapes using DNA micro-arrays." Metabolic Engineering 6, no. 3 (July 2004): 177-185. (Review) Full Text
- Book Sections
  - Lipscomb, TW, Lipscomb, ML, Gill, RT, and Lynch, MD. "Metabolic Engineering of Recombinant E. coli for the Production of 3-Hydroxypropionate." In Engineering Complex Phenotypes in Industrial Strains, 185-120. October 24, 2012. Full Text
- Conference Papers
  - Lynch, MD. "A rational microbial design perspective in the design build test era." January 1, 2014.
  - Lipscomb, ML, Lipscomb, TW, Liao, H, Maness, P, and Lynch, MD. "Production of fungible diesel via fatty acid synthesis from hydrogen and carbon dioxide feedstocks." 11th International Biorelated Polymer Symposium / 243rd National Spring Meeting of the American-Chemical-Society (ACS). San Diego, CA. March 25, 2012 - March 29, 2012.: AMER CHEMICAL SOC, March 25, 2012. Link to Item
  - Watson, FD, Mercogliano, CP, Ribble, WK, Anderson, RD, Liao, HH, Lipscomb, TW, and Lynch, MD. "Enzyme engineering of malonyl coA reductase (MCR) to improve 3-hydroxypropionate (3HP) production." 11th International Biorelated Polymer Symposium / 243rd National Spring Meeting of the American-Chemical-Society (ACS). San Diego, CA. March 25, 2012 - March 29, 2012.: AMER CHEMICAL SOC, March 25, 2012. Link to Item
  - Lynch, MD, Manness, PC, Lipscomb, M, Warnecke, T, and Liao, H. "Novel biological conversion of hydrogen and carbon dioxide directly into biodiesel." December 1, 2011.
  - Lipscomb, ML, Warnecke, T, Hans, L, Maness, LP, and Lynch, MD. "Novel biological conversion of hydrogen and carbon dioxide directly into biodiesel." August 25, 2011.
  - Mercogliano, CP, Liao, HH, and Lynch, MD. "Enzyme evolution of an alpha-keto decarboxylase." 241st National Meeting and Exposition of the American-Chemical-Society (ACS). Anaheim, CA. March 27, 2011 - March 31, 2011.: AMER CHEMICAL SOC, March 27, 2011. Link to Item
  - Lynch, MD, Warnecke, T, Singh, A, and Gill, RT. "Genomics tools for elucidating the function of trait conferring genes." December 1, 2005.
  - Warnecke, T, Lynch, MD, and Gill, RT. "Identification of organic acid tolerance genes in E. coli for biorefinery applications." December 1, 2005.
  - Lynch, MD, Warnecke, T, and Gill, RT. "Mixed-library parallel gene trait mapping: A quantitative micro-array technique for the genome-wide identification of trait conferring genes." 229th National Meeting of the American-Chemical-Society. San Diego, CA. March 13, 2005 - March 17, 2005.: AMER CHEMICAL SOC, March 13, 2005. Link to Item
  - Warnecke, TE, Lynch, MD, and Gill, RT. "Post-genomics approach to understanding E. Coli network architecture." 229th National Meeting of the American-Chemical-Society. San Diego, CA. March 13, 2005 - March 17, 2005.: AMER CHEMICAL SOC, March 13, 2005. Link to Item
Teaching & Mentoring
Recent Courses
Scholarly, Clinical, & Service Activities
Outreach & Engaged Scholarship

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Education, Training, & Certifications

Duke Appointment History

In the News

Selected Grants

Selected Publications

Academic Articles

Book Sections

Conference Papers

Recent Courses

Outreach & Engaged Scholarship