Sokurenko Lab < Department of Microbiology < University of Washington

Microbial Variome Database

species-specific resources of gene presence/absence and point mutation
Link to MVD
Variome

All genetic variations in a species, both gene presence/absence and mutation.
Microbial Variome Database

Resource to identify adaptive mutations in pathogens and select potential drug-targets
Goal

Application of microevolutionary population analysis in

  • experimental research
  • clinical diagnostics
  • epidemiology
  • environmental control of human pathogens.

Present Status

Analysis-results of CORE genes for Escherichia coli and Salmonella enterica
Related References Chattopadhyay et al. (2012) Convergent molecular evolution of genomic cores in Salmonella enterica and Escherichia coli. Journal of Bacteriology, 194:5002-5011.
Chattopadhyay et al. (2009) High frequency of hotspot mutations in core genes of Escherichia coli due to short-term positive selection. Proceedings of the National Academy of Sciences USA, 106: 12412-12417
Chattopadhyay et al. (2007) ZPS: visualization of recent adaptive evolution of proteins. BMC Bioinformatics, 8: 187
Sokurenko et al. (2006) Source-sink dynamics of virulence evolution. Nature Reviews Microbiology 4: 548-555
Sokurenko et al. (2004) Selection footprint in the FimH adhesin shows pathoadaptive niche differentiation in Escherichia coli. Molecular Biology and Evolution 21: 1373-1383
Downloads E coli database in Excel format
S enterica database in Excel format
Contact

Evgeni V. Sokurenko, MD, Ph.D.
Professor, Microbiology
evs@uw.edu

Box 357735
University of Washington
Seattle, WA 98195
 Office: (206) 685-2162
Lab: (206) 221-6690
Fax: (206) 543-8297