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Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli
Bob Mau, Jeremy D Glasner, Aaron E Darling, Nicole T Perna
Genome Biol. 2006; 7(5): R44. Published online 2006 May 31. doi: 10.1186/gb-2006-7-5-r44
PMCID:
PMC1779527
Abstract Full Text PDF–890K Supplementary Material
 Is Cited by the Following 14 Articles in this Archive:
Obscured phylogeny and possible recombinational dormancy in Escherichia coli
Shana R Leopold, Stanley A Sawyer, Thomas S Whittam, Phillip I Tarr
BMC Evol Biol. 2011; 11: 183. Published online 2011 June 27. doi: 10.1186/1471-2148-11-183
PMCID:
PMC3152902
Abstract Full Text PDF–398K Supplementary Material
Directed networks reveal genomic barriers and DNA repair bypasses to lateral gene transfer among prokaryotes
Ovidiu Popa, Einat Hazkani-Covo, Giddy Landan, William Martin, Tal Dagan
Genome Res. 2011 April; 21(4): 599–609. doi: 10.1101/gr.115592.110
PMCID:
PMC3065707
Abstract Full Text PDF–1.1M
Gorgeous mosaic of mitochondrial genes created by horizontal transfer and gene conversion
Weilong Hao, Aaron O. Richardson, Yihong Zheng, Jeffrey D. Palmer
Proc Natl Acad Sci U S A. 2010 December 14; 107(50): 21576–21581. Published online 2010 November 29. doi: 10.1073/pnas.1016295107
PMCID:
PMC3003057
Abstract Full Text PDF–1.2M Supplementary Material
progressiveMauve: Multiple Genome Alignment with Gene Gain, Loss and Rearrangement
Aaron E. Darling, Bob Mau, Nicole T. Perna
PLoS One. 2010; 5(6): e11147. Published online 2010 June 25. doi: 10.1371/journal.pone.0011147
PMCID:
PMC2892488
Abstract Full Text PDF–1.3M Supplementary Material
Small variable segments constitute a major type of diversity of bacterial genomes at the species level
Fabrice Touzain, Erick Denamur, Claudine Médigue, Valérie Barbe, Meriem El Karoui, Marie-Agnès Petit
Genome Biol. 2010; 11(4): R45. Published online 2010 April 30. doi: 10.1186/gb-2010-11-4-r45
PMCID:
PMC2884548
Abstract Full Text PDF–1.0M Supplementary Material
Inference and Characterization of Horizontally Transferred Gene Families Using Stochastic Mapping
Ofir Cohen, Tal Pupko
Mol Biol Evol. 2010 March; 27(3): 703–713. Published online 2009 October 6. doi: 10.1093/molbev/msp240
PMCID:
PMC2822287
Abstract Full Text PDF–258K Supplementary Material
Lateral genetic transfer: open issues
Mark A. Ragan, Robert G. Beiko
Philos Trans R Soc Lond B Biol Sci. 2009 August 12; 364(1527): 2241–2251. doi: 10.1098/rstb.2009.0031
PMCID:
PMC2872999
Abstract Full Text PDF–298K
Are Protein Domains Modules of Lateral Genetic Transfer?
Cheong Xin Chan, Aaron E. Darling, Robert G. Beiko, Mark A. Ragan
PLoS ONE. 2009; 4(2): e4524. Published online 2009 February 20. doi: 10.1371/journal.pone.0004524
PMCID:
PMC2639706
Abstract Full Text PDF–520K Supplementary Material
ATGC: a database of orthologous genes from closely related prokaryotic genomes and a research platform for microevolution of prokaryotes
Pavel S. Novichkov, Igor Ratnere, Yuri I. Wolf, Eugene V. Koonin, Inna Dubchak
Nucleic Acids Res. 2009 January; 37(Database issue): D448–D454. Published online 2009 January. doi: 10.1093/nar/gkn684
PMCID:
PMC2686458
Abstract Full Text PDF–4.6M
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
Population Genomic Analysis of Strain Variation in Leptospirillum Group II Bacteria Involved in Acid Mine Drainage Formation
Sheri L Simmons, Genevieve DiBartolo, Vincent J Denef, Daniela S. Aliaga Goltsman, Michael P Thelen, Jillian F Banfield
PLoS Biol. 2008 July; 6(7): e177. Published online 2008 July 22. doi: 10.1371/journal.pbio.0060177
PMCID:
PMC2475542
Abstract Full Text PDF–954K Supplementary Material
Dynamics of Genome Rearrangement in Bacterial Populations
Aaron E. Darling, István Miklós, Mark A. Ragan
PLoS Genet. 2008 July; 4(7): e1000128. Published online 2008 July 18. doi: 10.1371/journal.pgen.1000128
PMCID:
PMC2483231
Abstract Full Text PDF–700K Supplementary Material
Comparing Patterns of Natural Selection across Species Using Selective Signatures
B. Jesse Shapiro, Eric J Alm
PLoS Genet. 2008 February; 4(2): e23. Prepublished online 2008 January 2. Published online 2008 February 8. doi: 10.1371/journal.pgen.0040023
PMCID:
PMC2233676
Abstract Full Text PDF–653K Supplementary Material
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
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