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Obscured phylogeny and possible recombinational dormancy in Escherichia coli

By Shana R Leopold, Stanley A Sawyer, Thomas S Whittam and Phillip I Tarr
Topics: Research Article
Publisher: BioMed Central
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Provided by: PubMed Central

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  1. (2008). al: Phylogenetic and genomic diversity of human bacteremic Escherichia coli strains.
  2. (2006). al: Sex and virulence in Escherichia coli: an evolutionary perspective. Mol Microbiol
  3. (2007). An introduction to categorical data analysis.
  4. (2006). Application of phylogenetic networks in evolutionary studies. Mol Biol Evol
  5. (1994). Clonal divergence in Escherichia coli as a result of recombination, not mutation. Science
  6. (2004). Denamur E: A specific genetic background is required for acquisition Leopold et al.
  7. (2008). Denamur E: Assigning Escherichia coli strains to phylogenetic groups: multi-locus sequence typing versus the PCR triplex method. Environ Microbiol
  8. (1998). Denamur E: Escherichia coli molecular phylogeny using the incongruence length difference test. Mol Biol Evol
  9. (1973). Electrophoretic variation in Escherichia coli from natural sources. Science
  10. (2009). et al: A precise reconstruction of the emergence and constrained radiations of Escherichia coli O157 portrayed by backbone concatenomic analysis. Proc Natl Acad Sci USA
  11. (2001). et al: Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res
  12. (2001). et al: Genome sequence of enterohaemorrhagic Escherichia coli O157:H7. Nature
  13. (2006). et al: Identification of genes subject to positive selection in uropathogenic strains of Escherichia coli: a comparative genomics approach. Proc Natl Acad Sci USA
  14. (2004). et al: Large-scale population structure of human commensal Escherichia coli isolates. Appl Environ Microbiol
  15. (2005). et al: Opinion: Re-evaluating prokaryotic species. Nat Rev Microbiol
  16. (1999). GENECONV: A computer package for the statistical detection of gene conversion. Distributed by the author,
  17. (2009). Hyper-recombination, diversity, and antibiotic resistance in pneumococcus. Science
  18. (2007). JG: Temporal fragmentation of speciation in bacteria. Science
  19. (2004). Lecointre G: Decreasing the effects of horizontal gene transfer on bacterial phylogeny: the Escherichia coli case study. Mol Phylogenet Evol
  20. (1997). Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res
  21. (2005). MA: Highways of gene sharing in prokaryotes.
  22. (1997). Molecular keys to speciation: DNA polymorphism and the control of genetic exchange in enterobacteria.
  23. (2006). NT: Genome-wide detection and analysis of homologous recombination among sequenced strains of Escherichia coli. Genome Biol
  24. (2009). Organised genome dynamics in the Escherichia coli species results in highly diverse adaptive paths. PLoS Genet
  25. (2000). Pathogenicity islands and the evolution of microbes. Annu Rev Microbiol
  26. Phylogenetic incongruence arising from fragmented speciation in enteric bacteria.
  27. (1991). Recombination in Escherichia coli and the definition of biological species.
  28. (1983). RK: Enzyme polymorphism and genetic population structure in Escherichia coli and Shigella.
  29. (1997). RK: Evolutionary genetics of the isocitrate dehydrogenase gene (icd)i nEscherichia coli and Salmonella enterica.
  30. (1992). RK: Evolutionary genetics of the proline permease gene (putP) and the control region of the proline utilization operon in populations of Salmonella and Escherichia coli.
  31. (1994). RK: Molecular genetic basis of allelic polymorphism in malate dehydrogenase (mdh)
  32. (1983). RK: Multilocus genetic structure in natural populations of Escherichia coli.
  33. (1991). RK: Nucleotide polymorphism and evolution in the glyceraldehyde-3-phosphate dehydrogenase gene (gapA)
  34. (1997). RK: Size and sequence polymorphism in the isocitrate dehydrogenase kinase/phosphatase gene (aceK) and flanking regions in Salmonella enterica and Escherichia coli. Genetics
  35. (2007). S: MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol
  36. (2006). SB: Phylogenetic relationships among clonal groups of extraintestinal pathogenic Escherichia coli as assessed by multi-locus sequence analysis. Microbes Infect
  37. SeaView version 4: A multiplatform graphical user interface for sequence alignment and phylogenetic tree building.
  38. (1984). Selander RK: Standard reference strains of Escherichia coli from natural populations.
  39. (1942). Systematics and the Origin of Species.
  40. (2007). Tenaillon O: Extraintestinal virulence is a coincidental by-product of commensalism in B2 phylogenetic group Escherichia coli strains. Mol Biol Evol
  41. (2006). Tiedje JM: The bacterial species definition in the genomic era.
  42. (1994). TJ: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res
  43. (2002). What are bacterial species? Annu Rev Microbiol
  44. (2009). Whittam TS: Cryptic lineages of the genus Escherichia. Appl Environ Microbiol
  45. (2007). Whittam TS: Genetic diversity and population structure of Escherichia coli isolated from freshwater beaches. Environ Microbiol
  46. (1990). Whittam TS: Phylogenetic distribution of branched RNA-linked multicopy single-stranded DNA among natural isolates of Escherichia coli.