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Genomics and the bacterial species problem
W Ford Doolittle, R Thane Papke
Genome Biol. 2006; 7(9): 116. Published online 2006 September 29. doi: 10.1186/gb-2006-7-9-116
PMCID:
PMC1794555
Abstract Full Text PDF–113K

Is Cited by the Following 18 Articles in this Archive:

Pervasive Recombination and Sympatric Genome Diversification Driven by Frequency-Dependent Selection in Borrelia burgdorferi, the Lyme Disease Bacterium
James Haven, Levy C. Vargas, Emmanuel F. Mongodin, Vincent Xue, Yozen Hernandez, Pedro Pagan, Claire M. Fraser-Liggett, Steven E. Schutzer, Benjamin J. Luft, Sherwood R. Casjens, Wei-Gang Qiu
Genetics. 2011 November; 189(3): 951–966. doi: 10.1534/genetics.111.130773
PMCID:
PMC3213364
Free in PMC on 2012/11/01
Merging Taxonomy with Ecological Population Prediction in a Case Study of Vibrionaceae
Sarah P. Preheim, Sonia Timberlake, Martin F. Polz
Appl Environ Microbiol. 2011 October; 77(20): 7195–7206. doi: 10.1128/AEM.00665-11
PMCID:
PMC3194886
Abstract Full Text PDF–2.4M Supplementary Material
Planktonic Microbes in the Gulf of Maine Area
William K. W. Li, Robert A. Andersen, Dian J. Gifford, Lewis S. Incze, Jennifer L. Martin, Cynthia H. Pilskaln, Juliette N. Rooney-Varga, Michael E. Sieracki, William H. Wilson, Nicholas H. Wolff
PLoS One. 2011; 6(6): e20981. Published online 2011 June 15. doi: 10.1371/journal.pone.0020981
PMCID:
PMC3115965
Abstract Full Text PDF–507K Supplementary Material
Defining Pathogenic Bacterial Species in the Genomic Era
Kalliopi Georgiades, Didier Raoult
Front Microbiol. 2010; 1: 151. Published online 2011 January 17. doi: 10.3389/fmicb.2010.00151
PMCID:
PMC3109419
Abstract Full Text PDF–2.3M
Genes but Not Genomes Reveal Bacterial Domestication of Lactococcus Lactis
Delphine Passerini, Charlotte Beltramo, Michele Coddeville, Yves Quentin, Paul Ritzenthaler, Marie-Line Daveran-Mingot, Pascal Le Bourgeois
PLoS One. 2010; 5(12): e15306. Published online 2010 December 17. doi: 10.1371/journal.pone.0015306
PMCID:
PMC3003715
Abstract Full Text PDF–504K Supplementary Material
In Silico Prediction of Human Pathogenicity in the γ-Proteobacteria
Massimo Andreatta, Morten Nielsen, Frank Møller Aarestrup, Ole Lund
PLoS One. 2010; 5(10): e13680. Published online 2010 October 27. doi: 10.1371/journal.pone.0013680
PMCID:
PMC2965111
Abstract Full Text PDF–741K Supplementary Material
Gene cassette transcription in a large integron-associated array
Carolyn A Michael, Maurizio Labbate
BMC Genet. 2010; 11: 82. Published online 2010 September 15. doi: 10.1186/1471-2156-11-82
PMCID:
PMC2945992
Abstract Full Text PDF–2.0M
Co-assortment in integron-associated gene cassette assemblages in environmental DNA samples
Carolyn A Michael, Nigel R Andrew
BMC Genet. 2010; 11: 75. Published online 2010 August 10. doi: 10.1186/1471-2156-11-75
PMCID:
PMC2927473
Abstract Full Text PDF–522K Supplementary Material
On the Origins of a Vibrio Species
Tammi Vesth, Trudy M. Wassenaar, Peter F. Hallin, Lars Snipen, Karin Lagesen, David W. Ussery
Microb Ecol. 2010 January; 59(1): 1–13. Published online 2009 October 15. doi: 10.1007/s00248-009-9596-7
PMCID:
PMC2807590
Abstract Full Text PDF–667K
Gene and genome trees conflict at many levels
Leanne S. Haggerty, Fergal J. Martin, David A. Fitzpatrick, James O. McInerney
Philos Trans R Soc Lond B Biol Sci. 2009 August 12; 364(1527): 2209–2219. doi: 10.1098/rstb.2009.0042
PMCID:
PMC2873008
Abstract Full Text PDF–1.1M
Population Genomics and the Bacterial Species Concept
Margaret A. Riley, Michelle Lizotte-Waniewski
Methods Mol Biol. Author manuscript; available in PMC 2010 March 22.
Published in final edited form as: Methods Mol Biol. 2009; 532: 367–377. doi: 10.1007/978-1-60327-853-9_21
PMCID:
PMC2842946
Abstract Full Text PDF–835K
Intraspecies Genomic Diversity and Natural Population Structure of the Meat-Borne Lactic Acid Bacterium Lactobacillus sakei
Stéphane Chaillou, Marie Daty, Fabienne Baraige, Anne-Marie Dudez, Patricia Anglade, Rhys Jones, Carl-Alfred Alpert, Marie-Christine Champomier-Vergès, Monique Zagorec
Appl Environ Microbiol. 2009 February; 75(4): 970–980. Published online 2008 December 29. doi: 10.1128/AEM.01721-08
PMCID:
PMC2643555
Abstract Full Text PDF–899K Supplementary Material
The dynamic genetic repertoire of microbial communities
Paul Wilmes, Sheri L Simmons, Vincent J Denef, Jillian F Banfield
FEMS Microbiol Rev. 2009 January; 33(1): 109–132. Published online 2008 December 1. doi: 10.1111/j.1574-6976.2008.00144.x
PMCID:
PMC2704941
Abstract Full Text PDF–1.0M
Metagenomic Approaches for Defining the Pathogenesis of Inflammatory Bowel Diseases
Daniel A. Peterson, Daniel N. Frank, Norman R. Pace, Jeffrey I. Gordon
Cell Host Microbe. Author manuscript; available in PMC 2010 May 19.
Published in final edited form as: Cell Host Microbe. 2008 June 12; 3(6): 417–427. doi: 10.1016/j.chom.2008.05.001
PMCID:
PMC2872787
Abstract Full Text PDF–1.8M
Horizontal Gene Transfer Regulation in Bacteria as a “Spandrel” of DNA Repair Mechanisms
Saliou Fall, Anne Mercier, Franck Bertolla, Alexandra Calteau, Laurent Gueguen, Guy Perrière, Timothy M. Vogel, Pascal Simonet
PLoS ONE. 2007; 2(10): e1055. Published online 2007 October 24. doi: 10.1371/journal.pone.0001055
PMCID:
PMC2013936
Abstract Full Text PDF–391K Supplementary Material
Genetic flux over time in the Salmonella lineage
Georgios S Vernikos, Nicholas R Thomson, Julian Parkhill
Genome Biol. 2007; 8(6): R100. Published online 2007 June 4. doi: 10.1186/gb-2007-8-6-r100
PMCID:
PMC2394748
Abstract Full Text PDF–484K Supplementary Material
Diversification of Lupine Bradyrhizobium Strains: Evidence from Nodulation Gene Trees
Tomasz Stępkowski, Colin E. Hughes, Ian J. Law, Łukasz Markiewicz, Dorota Gurda, Agnieszka Chlebicka, Lionel Moulin
Appl Environ Microbiol. 2007 May; 73(10): 3254–3264. Published online 2007 March 30. doi: 10.1128/AEM.02125-06
PMCID:
PMC1907101
Abstract Full Text PDF–462K Supplementary Material
Similarity and Differences in the Lactobacillus acidophilus Group Identified by Polyphasic Analysis and Comparative Genomics
Bernard Berger, R. David Pridmore, Caroline Barretto, Françoise Delmas-Julien, Kerstin Schreiber, Fabrizio Arigoni, Harald Brüssow
J Bacteriol. 2007 February; 189(4): 1311–1321. Published online 2006 December 1. doi: 10.1128/JB.01393-06
PMCID:
PMC1797336
Abstract Full Text PDF–2.4M Supplementary Material
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