Microbial genomics: E. coli relatives out of doors and out of body

Current Biology

Volumn 21, Issue 15, 2011, Pages

  Cohan, Frederick M ^a   Kopac, Sarah M ^a  

^a WESLEYAN UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ESCHERICHIA; ESCHERICHIA COLI;

EID: 79961235998     PISSN: 09609822     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cub.2011.06.011     Document Type: Short Survey

References (19)

1. A. Böck, R.I. Curtiss, J.B. Kaper, P.D. Karp, F.C. Neidhardt, T. Nyström, J.M. Slauch, C.L. Squires, and D. Ussery EcoSal - Escherichia coli and Salmonella: Cellular and Molecular Biology 2011 ASM Press Washington, DC
2. American Public Health Association Standard Methods for the Examination of Water and Wastewater 1992 American Public Health Association Washington, DC
3. D.M. Gordon, O. Clermont, H. Tolley, and E. Denamur Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triplex method Environ. Microbiol. 10 2008 2484 2496
4. D.J. Ingle, O. Clermont, D. Skurnik, E. Denamur, S.T. Walk, and D.M. Gordon Biofilm formation by and thermal niche and virulence characteristics of Escherichia spp Appl. Environ. Microbiol. 77 2011 2695 2700
5. C. Luo, S.T. Walk, D.M. Gordon, M. Feldgarden, J.M. Tiedje, and K.T. Konstantinidis Genome sequencing of environmental Escherichia coli expands understanding of the ecology and speciation of the model bacterial species Proc. Natl. Acad. Sci. USA 108 2011 7200 7205
6. S.T. Walk, E.W. Alm, D.M. Gordon, J.L. Ram, G.A. Toranzos, J.M. Tiedje, and T.S. Whittam Cryptic lineages of the genus Escherichia Appl. Environ. Microbiol. 75 2009 6534 6544
7. M.L. Coleman, and S.W. Chisholm Ecosystem-specific selection pressures revealed through comparative population genomics Proc. Natl. Acad. Sci. USA 107 2010 18634 18639
8. L. Petersen, J.P. Bollback, M. Dimmic, M. Hubisz, and R. Nielsen Genes under positive selection in Escherichia coli Genome Res. 17 2007 1336 1343 (Pubitemid 47360908)
9. V.J. Denef, L.H. Kalnejais, R.S. Mueller, P. Wilmes, B.J. Baker, B.C. Thomas, N.C. VerBerkmoes, R.L. Hettich, and J.F. Banfield Proteogenomic basis for ecological divergence of closely related bacteria in natural acidophilic microbial communities Proc. Natl. Acad. Sci. USA 107 2010 2383 2390
10. 2 fixation over the diel cycle in a hot spring microbial mat ISME J. 2 2008 364 378 (Pubitemid 351518396)
11. J. Qin, R. Li, J. Raes, M. Arumugam, K.S. Burgdorf, C. Manichanh, T. Nielsen, N. Pons, F. Levenez, and T. Yamada A human gut microbial gene catalogue established by metagenomic sequencing Nature 464 2010 59 65
12. M. Vulić, F. Dionisio, F. Taddei, and M. Radman Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria Proc. Natl. Acad. Sci. USA 94 1997 9763 9767 (Pubitemid 27408137)
13. F.M. Cohan, and E.B. Perry A systematics for discovering the fundamental units of bacterial diversity Curr. Biol. 17 2007 R373 R386
14. A. Koeppel, E.B. Perry, J. Sikorski, D. Krizanc, W.A. Warner, D.M. Ward, A.P. Rooney, E. Brambilla, N. Connor, and R.M. Ratcliff Identifying the fundamental units of bacterial diversity: a paradigm shift to incorporate ecology into bacterial systematics Proc. Natl. Acad. Sci. USA 105 2008 2504 2509 (Pubitemid 351520543)
15. D.E. Hunt, L.A. David, D. Gevers, S.P. Preheim, E.J. Alm, and M.F. Polz Resource partitioning and sympatric differentiation among closely related bacterioplankton Science 320 2008 1081 1085 (Pubitemid 351929550)
16. F.M. Cohan, and A.F. Koeppel The origins of ecological diversity in prokaryotes Curr. Biol. 18 2008 R1024 R1034
17. M. Arumugam, J. Raes, E. Pelletier, D. Le Paslier, T. Yamada, D.R. Mende, G.R. Fernandes, J. Tap, T. Bruls, and J.M. Batto Enterotypes of the human gut microbiome Nature 473 2011 174 180
18. S. Kopac, and F.M. Cohan A theory-based pragmatism for discovering and classifying newly divergent bacterial species M. Tibayrenc, Genetics and Evolution of Infectious Diseases 2011 Elsevier London 21 41
19. G.E. Hutchinson When are species necessary? R.C. Lewontin, Population Biology and Evolution 1968 Syracuse University Press Syracuse 177 186