Michael Jacobs



Senior Research Scientist
Univ. of Washington Microbiology
1959 NE Pacific St. HSB K-161
Box 357710 Seattle, WA 98195-7710
(206) 616-3128

My research program is dedicated to describing the variation among bacterial isolates through whole genome sequencing. We use the latest technology as it becomes available, and currently use the Illumina GAIIx and HiSeq2000 platforms, the Life Sciences Ion Torrent, and the ABI 3730xl sequencing platforms. Our deep experience in whole genome sequencing and finishing is leveraged by the bioinformatics expertise of my collaborators. We have gone in a few short years from sequencing one genome at a time to dozens, and soon hundreds.

We are currently studying the evolution of a clonal epidemic of S. dysenteriae from the period of 1968 to 1992 in central America, in-patient diversification and selection of B. pseudomallei and the diversity found in non-typhoidal Salmonellae.

Selected Publications.

Karol, K.G., Jacobs MA, Zhou Y, Sims EH, Gillett WD, Cattolico RA. 2010. Comparative analysis of complete mitochondrial genome sequences from two geographically distinct Heterosigma akashiwo
(Raphidophyceae) strains. Proceedings of the Seventh International Chrysophyte Symposium. 261-282.

Kulasekara BR, Jacobs MA, Zhou Y, Wu Z, Sims E, Saenfigphimmachak C, Rohmer L, Ritchie JM, Radey M, McKevitt M, Freeman TL, Hayden HS, Haugen E, Gillett W, Fong C, Chang J, Beskhlebnaya V, Waldor MK, Samadpour M, Whittam TS, Kaul R, Olson MV, Brittnacher M, Miller SI. 2009. The complete genome sequence of the outbreak enterohemorrhagic Escherichia coli isolate TW14359 identifies genetic factors that may enhance virulence. Infec. And Immun. 77(9):3713-3721.

Hayden HS, Gillett W, Saenphimmachak C, Lim R., Zhou Y, Jacobs MA, Chang J, Rohmer L, D’Argenio DA, Palmieri A, Levy R, Haugen E, Wong GK, Brittnacher MJ, Burns JL, Miller SI, Olson MV, Kaul R. 2008. Large-insert genome analysis technology detects structural variation in Pseudomonas aeruginosa clinical strains from cystic fibrosis patients. Genomics. 291(6):530-7. Epub 2008 Apr 29.

Cattolico RA, Jacobs MA, Zhou Y, Chang J, Duplessis M, Lybrand T, McKay J, Ong HC, 2, Sims EH, Rocap G. 2008. Chloroplast genome sequence analysis using a fosmid cloning approach: Analysis of Heterosigma akashiwo CCMP452 (West Atlantic) and NIES 293 (West Pacific) strains. BMC Genomics. 9:211 (1-20).

Jacobs, MA. 2007. How to Make a Defined Near-Saturation Mutant Library. Case 1: Pseudomonas aeruginosa PAO1. Methods Mol Biol. 416: Microbial Gene Essentiality Eds. Osterman AL, Gerdes, SY Humana Press, Totowa NJ. Pgs. 133-52.

Jacobs M. and Manoil C. 2006. P. aeruginosa comprehensive mutant library, in: Pseudomonas IV, eds. Ramos and Levesque, Plenum Press, New York.

Miller DG, Trobridge GD, Petek LM, Jacobs MA, Kaul R, Russell DW. 2005. Large-scale analysis of adeno-associated virus vector integration sites in normal human cells. J Virol. 79(17):11434-42.

Wu, L., Estrada, O., Zaborina, O., Bains, M., Shen, L., Kohler, J. E., Patel, N., Musch, M. W., Chang, E. B., Fu, Y.-X., Jacobs, M. A., Nishimura, M. I., Hancock, R. E. W., Turner, J. R., Alverdy, J. C. 2005. Recognition of Host Immune Activation by Pseudomonas aeruginosa. Science 2005 309: p. 774-777.

Jacobs MA, Alwood A, Thaipisuttikul I, Spencer D, Haugen E, Ernst S, Will O, Kaul R, Raymond C, Levy R, Chun-Rong L, Guenthner D, Bovee D, Olson MV, Manoil C. 2003. Comprehensive transposon mutant library of Pseudomonas aeruginosa. Proc Natl Acad Sci U S A. 100(24):14339-44.


B.A. Aquatic Sciences, Univ. of California Santa Barbara 1992

PhD Botany. University of Washington. 2000.