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Education
Ph.D. Biochemistry, University of California San Francisco, 2013
B.Sc. Biochemistry and Molecular Biology, University of California Santa Cruz, 2003
Research Interests
Molecular Genetics, Biochemistry, Stress Responses, & Synthetic Biology: Characterizing molecular mechanisms underlying microbe-microbe and microbe-host interactions. Identifying genetic determinants involved in microbial community dynamics. Development and utilization of synthetic biology tools for microbial manipulation in native communities.
Publications
K Jiang, W Li, M Tong, J Xu, Z Chen, Y Yang, Y Zang, X Jiao, C Liu, B Lim, X Jiang, J Wang, D Wu, M Wang, SJ Liu, F Shao, X Gao. (2023) Bacteroides fragilis ubiquitin homologue drives intraspecies bacterial competition in the gut microbiome. Nature Microbiology Dec 11
C Tawk, B Lim, NA Bencivenga-Barry, HJ Lees, RJF Ramos, J Cross, AL Goodman. (2023) Infection leaves a genetic and functional mark on the gut population of a commensal bacterium. Cell Host & Microbe 31 (5), 811-826. e6
K Yan, A Hung, C Parmer, H Yang, D Jain, B Lim, AL Goodman, G Garcia-Tsao. (2021) Obeticholic Acid Decreases Intestinal Content of Enterococcus in Rats With Cirrhosis and Ascites. Hepatology Communications 5 (9), 1507-1517
NA Bencivenga-Barry, B Lim, CM Herrera, MS Trent, AL Goodman. (2020) Genetic Manipulation of Wild Human Gut Bacteroides. Journal of Bacteriology 202 (3), 10.1128/jb. 00544-19
E Gülden, NK Vudattu, S Deng, P Preston-Hurlburt, M Mamula, JC Reed, S Mohandas, BC Herold, R Torres, SM Vieira, B Lim, JD Herazo-Maya, M Kriegel, AL Goodman, C Cotsapas, KC Herold. (2017) Microbiota control immune regulation in humanized mice. JCI insight 2 (21)
B Lim, M Zimmermann, N Barry, A Goodman. (2017) Engineered Regulatory Systems Modulate Gene Expression of Human Commensals in the Gut. Cell 169 (3), 547-558
B Lim, R Miyazaki, S Neher, DA Siegele, K Ito, P Walter, Y Akiyama, T Yura, CA Gross. (2013) Heat Shock Transcription Factor σ32 Co-opts the Signal Recognition Particle to Regulate Protein Homeostasis in E. coli. PLoS Biology 11 (12), e1001735
B Lim, CA Gross. (2010) Cellular response to heat shock and cold shock. Bacterial Stress Responses, 91-114
X Liu, S Beyhan, B Lim, RG Linington, FH Yildiz. (2010) Identification and Characterization of a Phosphodiesterase That Inversely Regulates Motility and Biofilm Formation in Vibrio cholerae. Journal of Bacteriology 192 (18), 4541-4552
A Typas, RJ Nichols, DA Siegele, M Shales, SR Collins, B Lim, H Braberg, N Yamamoto, R Takeuchi, BL Wanner, H Mori, JS Weissman, NJ Krogan, CA Gross. (2008) High-throughput, quantitative analyses of genetic interactions in E. coli. Nature Methods 5 (9), 781-787
B Lim, S Beyhan, FH Yildiz. (2007) Regulation of Vibrio Polysaccharide Synthesis and Virulence Factor Production by CdgC, a GGDEF-EAL Domain Protein, in Vibrio cholerae. Journal of Bacteriology 189 (3), 717-729
B Lim, S Beyhan, J Meir, FH Yildiz. (2006) Cyclic‐diGMP signal transduction systems in Vibrio cholerae: modulation of rugosity and biofilm formation. Molecular Microbiology 60 (2), 331-348
Patents
A Goodman, B Lim, N Barry. Compositions and methods for regulated gene expression. (2023) US Patent 11,549,115