Emmanuelle Lerat

Summary

Affiliation: University of Arizona
Country: USA

Publications

  1. pmc Evolutionary origins of genomic repertoires in bacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona, USA
    PLoS Biol 3:e130. 2005
  2. ncbi request reprint The evolutionary history of quorum-sensing systems in bacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA
    Mol Biol Evol 21:903-13. 2004
  3. pmc Examining bacterial species under the specter of gene transfer and exchange
    Howard Ochman
    Department of Biochemistry and Molecular Biophysics, University of Arizona, Tucson, 85721, USA
    Proc Natl Acad Sci U S A 102:6595-9. 2005
  4. pmc From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, USA
    PLoS Biol 1:E19. 2003
  5. ncbi request reprint A bunch of fun-guys: the whole-genome view of yeast evolution
    Howard Ochman
    Department of Biochemistry and Molecular Biophysics, University of Arizona, Tucson, AZ 87521, USA
    Trends Genet 21:1-3. 2005
  6. pmc The source of laterally transferred genes in bacterial genomes
    Vincent Daubin
    Laboratoire de Biometrie et Biologie Evolutive, UMR CNRS 5558, Universite Claude Bernard Lyon 1, Cedex, France
    Genome Biol 4:R57. 2003
  7. pmc Recognizing the pseudogenes in bacterial genomes
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 87521, USA
    Nucleic Acids Res 33:3125-32. 2005
  8. pmc Psi-Phi: exploring the outer limits of bacterial pseudogenes
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 87521, USA
    Genome Res 14:2273-8. 2004
  9. ncbi request reprint Codon usage by transposable elements and their host genes in five species
    Emmanuelle Lerat
    Laboratoire Biométrie et Biologie Evolutive, UMR CNRS 5558, Universite Lyon 1, 69622 Villeurbanne Cedex, France
    J Mol Evol 54:625-37. 2002
  10. ncbi request reprint Maintenance in the chicken genome of the retroviral-like cENS gene family specifically expressed in early embryos
    Emmanuelle Lerat
    Laboratoire de Biometrie et Biologie Evolutive, Universite de Lyon, Universite Lyon 1, CNRS, UMR 5558, Villeurbanne, France
    J Mol Evol 65:215-27. 2007

Collaborators

Detail Information

Publications14

  1. pmc Evolutionary origins of genomic repertoires in bacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona, USA
    PLoS Biol 3:e130. 2005
    ..Although our analyses are limited to the gamma-Proteobacteria, these results resolve a long-standing paradox-i.e., the ability to make robust phylogenetic inferences in light of substantial LGT...
  2. ncbi request reprint The evolutionary history of quorum-sensing systems in bacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA
    Mol Biol Evol 21:903-13. 2004
    ..Gene phylogenies for the main LuxI/R family in Pseudomonas species imply a complex history of lateral transfer, ancestral duplication, and gene loss within the genus...
  3. pmc Examining bacterial species under the specter of gene transfer and exchange
    Howard Ochman
    Department of Biochemistry and Molecular Biophysics, University of Arizona, Tucson, 85721, USA
    Proc Natl Acad Sci U S A 102:6595-9. 2005
    ..Taken as a whole, the results derived from the analysis of complete gene inventories support several of the current means to recognize and define bacterial species...
  4. pmc From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-Proteobacteria
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, USA
    PLoS Biol 1:E19. 2003
    ....
  5. ncbi request reprint A bunch of fun-guys: the whole-genome view of yeast evolution
    Howard Ochman
    Department of Biochemistry and Molecular Biophysics, University of Arizona, Tucson, AZ 87521, USA
    Trends Genet 21:1-3. 2005
    ..The pattern of genome evolution in yeast differs from that in bacteria apparently as a result of stronger selective constraints on bacterial chromosomes...
  6. pmc The source of laterally transferred genes in bacterial genomes
    Vincent Daubin
    Laboratoire de Biometrie et Biologie Evolutive, UMR CNRS 5558, Universite Claude Bernard Lyon 1, Cedex, France
    Genome Biol 4:R57. 2003
    ....
  7. pmc Recognizing the pseudogenes in bacterial genomes
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ 87521, USA
    Nucleic Acids Res 33:3125-32. 2005
    ....
  8. pmc Psi-Phi: exploring the outer limits of bacterial pseudogenes
    Emmanuelle Lerat
    Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona 87521, USA
    Genome Res 14:2273-8. 2004
    ..Almost all (>95%) pseudogenes are restricted to only one of the genomes and are of relatively recent origin, suggesting that these bacteria possess active mechanisms to eliminate nonfunctional genes...
  9. ncbi request reprint Codon usage by transposable elements and their host genes in five species
    Emmanuelle Lerat
    Laboratoire Biométrie et Biologie Evolutive, UMR CNRS 5558, Universite Lyon 1, 69622 Villeurbanne Cedex, France
    J Mol Evol 54:625-37. 2002
    ..melanogaster, however, the bias in codon usage of the TEs clearly differed from that of weakly expressed genes. These findings suggest that selection acts on TEs and that TEs may display specific behavior within the host genomes...
  10. ncbi request reprint Maintenance in the chicken genome of the retroviral-like cENS gene family specifically expressed in early embryos
    Emmanuelle Lerat
    Laboratoire de Biometrie et Biologie Evolutive, Universite de Lyon, Universite Lyon 1, CNRS, UMR 5558, Villeurbanne, France
    J Mol Evol 65:215-27. 2007
    ..Taken together, these findings suggest a function sustained by a neogene of retroviral origin during the early stages of chicken development...
  11. ncbi request reprint Hypervariable and highly divergent intron-exon organizations in the chordate Oikopleura dioica
    Rolf B Edvardsen
    Sars Centre for Marine Molecular Biology, Bergen High Technology Centre, Thormoehlensgt 55, 5020 Bergen, Norway
    J Mol Evol 59:448-57. 2004
    ..We also speculate that introns placed at gene-specific positions may contribute to suppressing these exchanges and thereby favor their own persistence...
  12. pmc Sequence divergence within transposable element families in the Drosophila melanogaster genome
    Emmanuelle Lerat
    Laboratoire de Biometrie et Biologie Evolutive, Universite Lyon 1, 69622 Villeurbanne Cedex, France
    Genome Res 13:1889-96. 2003
    ..This clearly demonstrates that the TEs are highly active within the genome,suggesting that the genetic variability of the Drosophila genome is still being renewed by the action of TEs...
  13. ncbi request reprint The relative abundance of dinucleotides in transposable elements in five species
    Emmanuelle Lerat
    Mol Biol Evol 19:964-7. 2002
  14. pmc Losing helena: the extinction of a drosophila line-like element
    Rita Rebollo
    Université de Lyon Université Lyon 1 CNRS UMR 5558, Laboratoire de Biometrie et Biologie Evolutive, Villeurbanne F 69622, France
    BMC Genomics 9:149. 2008
    ..simulans, we analyzed the DNA sequences of copies of this element in samples of various natural populations of these two species...