Adam Feist

Project Scientist

Adam's research interests are in the application and generation of genome-scale in silico models, as well as advanced genetic and biochemical engineering approaches, towards metabolic engineering of microorganisms.

Adam graduated from the Bioengineering Ph.D. Program in Fall of 2008 and was a Research Scientist at GT Life Sciences in 2009-10 before coming back to UCSD.

Education

Doctor of Philosophy in Bioengineering University of California - San Diego, December 2008

Master of Science in Bioengineering University of California - San Diego, December 2005

Bachelor of Science in Chemical Engineering University of Nebraska - Lincoln, May 2003, Honors Program Graduate

Previous Research Experience

GT Life Sciences, Inc., San Diego, CA (2009 - 2010)

Biological Process Development Facility / UNL - Protein Purification Laboratory (2002 - 2003)

Goodyear Inc., Lincoln, Nebraska - Co-Op Participant (2001 - 2002)

Research Experience for Undergraduates Program (REU) / Colorado State University (Summer 2001)

Honors and Activities

Woolley Award and Fellowship for Leadership at the Graduate Level (2007-2008) Video for Award

Bioengineering Graduate Student group (BEGS) Committee Faculty Representative (2004 - 2007)

University of California, San Diego Ice Hockey Team, UCSD (2006 - 2007)

Preuss School Youth Mentor, UCSD (2005-2006)

Youth Hockey Coach, San Diego Ice Arena (2004 - 2006)

Tau Beta Pi Honorary Engineering Society, President (2001 - 2002)

University of Nebraska Honors Program (1998 - 2003)

University of Nebraska Club Hockey Team Player / Organizer / Coach (1998 - 2003)

American Institute of Chemical Engineers (1998)

Golden Key National Honor Society

Sigma Phi Epsilon Fraternity

Department of Engineering and Technology Dean’s List (1998 - 2003)

James Blackman Scholarship for Student Leadership (2002)

Milton E. Mohr Research Scholarship (2001, 2002)

Teaching Experience

Teaching Assistant for Systems Biology and Bioengineering II: Network Reconstruction & Functional States (BENG212)

Teaching Assistant for Systems Biology and Bioengineering I: Biological Components (BENG211)

Teaching Assistant for Systems Biology and Engineering (BENG123) Teaching Assistant for Introduction to Bioengineering (BENG100)

Publications

Research Articles

Feist A.M. and Palsson BO. The biomass objective function, Curr Opin Microbiol, 13: 344-349 (2010).

Feist, A.M., Zielinski, D.C., Orth, J.D., Schellenberger, J., Herrgard, M.J., Palsson, B.O., Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli, Metabolic Engineering, 12:3 173-186 (2010).

Feist, A.M., Herrgard, M.J., Thiele, I., Reed, J.L., Palsson, B.Ø., "Reconstruction of Biochemical Networks in Microbial Organisms" Nature Reviews Microbiology, 7(2) (2009).

Feist, A.M. and Palsson, B.Ø., "The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli" Nature Biotechnology, 26(6): 659 - 667 (2008).

Lee, J., Yun, H., Feist, A.M., Palsson, B.O., and Lee, S.Y., "Genome-scale reconstruction and in silico analysis of the Clostridium acetobutylicum ATCC 824 metabolic network", Appl Microbiol Biotechnol, 80(5): 849 - 862 (2008).

Feist A.M., Henry C.S., Reed J.L., Krummenacker M., Joyce A.R., Karp P.D., Broadbelt L.J., Hatzimanikatis V., Palsson B.Ø., {"A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information"](http://www.nature.com/msb/journal/v3/n1/full/msb4100155.html) Mol Syst Biol 3: 121 (2007).

Becker S.A., Feist A.M., Mo M.L., Hannum G., Palsson B.Ø., Herrgard M.J., "Quantitative prediction of cellular metabolism with constraint-based models: The COBRA Toolbox." Nat Protocols 2: 727-738 (2007).

Feist A.M., Scholten J.C.M., Palsson B.Ø., Brockman F.J., Ideker T., "Modeling methanogenesis with a genome-scale metabolic reconstruction of Methanosarcina barkeri" Mol Syst Biol 2: 2006.0004 (2006).

Book Chapters

Feist A.M., Thiele, I., Palsson, B.Ø., "Genome-scale reconstruction, modeling, and simulation of E. coli’s metabolic network" in Systems biology and biotechnology of E. coli Eds: Lee, S.Y., Springer, 2009, XXII, 466 p., Hardcover ISBN: 978-1-4020-9393-7

Selected Oral Presentations

Feist A.M., Palsson B.Ø., "Model-driven metabolic engineering of E. coli to produce high-value compounds" American Chemical Society Conference (Division of Biochemical Technology), August 2008, Philadelphia, PA

Feist A.M., Palsson B.Ø., "Model-driven Metabolic Engineering of E. coli: A Case Study in Strain Design" Society for Industrial Microbiology 2008 Conference, August 2008, San Diego, CA

Feist A.M., Palsson B.Ø., “A Genome-Scale Metabolic Model Of E. coli As A Platform for Metabolic Engineering” ICCMB 2007 Conference, December 2007, Nanyang University, Singapore

Feist A.M., Palsson B.Ø., “Computational Genomes to Life Opportunities for Systems Biology” ASCAC/BERAC Panel DOE Joint Subcommittee Meeting, October 2007, San Francisco, CA

Feist A.M., Herrgard M.H., Palsson B.Ø., “A Genome-Scale Metabolic Model Of E. coli As A Platform for Metabolic Engineering” BMES 2007 Conference, September 2007, Hollywood, CA

Feist A.M., Palsson B.Ø. , “Overview of the Systems Biology Research Group” 19th & 20th Annual Bioengineering Symposium, University of California, San Diego, March 2006 & 2007, La Jolla, CA

Selected Poster Presentations

Society for Industrial Microbiology Conference, August 2007, Denver, Colorado
Poster Presented: [4]

21st Annual Bioengineering Research Symposium, March 2007, University of California - San Diego, California
Poster Presented: [3]

The 3rd International E. coli Alliance Conference of Systems Biology, October 2006, Jeju Island, Republic of Korea
Poster Presented: [3]

14th Annual International Meeting on Microbial Genomics, September 2006, Lake Arrowhead, California
Poster Presented: [3]

20th Annual Bioengineering Research Symposium, March 2006, University of California - San Diego, California
Poster Presented: [3]

Jacobs School of Engineering Graduate Research Expo, February 2006, University of California - San Diego, California
Poster Presented: [3]

RECOMB Satellite Workshop on Systems Biology, December 2005, San Diego, CA
Poster Presented: [2]

International Conference on Systems Biology (ICSB), October 2005, Boston, MA
Poster Presented: [2]

Northwest Symposium for Systems Biology, June 2005, Richland, WA
Poster Presented: [1]

13th Annual International Meeting on Microbial Genomics, September 2005, Madison, Wisconsin
Poster Presented: [1]

19th Annual Bioengineering Research Symposium, March 2005, San Diego,CA
Poster Presented: [1] - Poster Award Winner

Jacobs School of Engineering Graduate Research Expo, February 2005, San Diego,CA
Poster Presented: [1]

Posters

[4] A genome-scale reconstruction of E. coli as a platform for metabolic engineering

[3] A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655, iAF1260: A comprehensive reconstruction for systems engineering and analysis

[2] Modeling methanogenesis with a genome-scale reconstruction of Methanosarcina barkeri

.jpg file (Higher Quality)

.pdf file (Lower Quality)

[1] Genome-scale Reconstruction and Analysis of Methanosarcina barkeri

.jpg file (Higher Quality)

.pdf file (Lower Quality)