Eric Bapteste

Summary

Affiliation: Dalhousie University
Country: Canada

Publications

  1. ncbi Do orthologous gene phylogenies really support tree-thinking?
    E Bapteste
    GenomeAtlantic, 1721 Lower Water Street, Suite 401, Halifax, NS, B3J 1S5, Canada
    BMC Evol Biol 5:33. 2005
  2. ncbi Does the 'Ring of Life' ring true?
    Eric Bapteste
    Canadian Institute for Advanced Research Program in Evolutionary Biology, Department of Biochemistry and Molecular Biology, Dalhousie University, 5850 College Street, Halifax, Nova Scotia, B3H 1X5, Canada
    Trends Microbiol 13:256-61. 2005
  3. ncbi Pattern pluralism and the Tree of Life hypothesis
    W Ford Doolittle
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, NS, Canada B3H 1X5
    Proc Natl Acad Sci U S A 104:2043-9. 2007
  4. ncbi The two tempos of nuclear pore complex evolution: highly adapting proteins in an ancient frozen structure
    Eric Bapteste
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, B3H 1X5, Canada
    Genome Biol 6:R85. 2005
  5. ncbi Phylogenetic reconstruction and lateral gene transfer
    Eric Bapteste
    Canadian Institute for Advanced Research and Genome Atlantic, Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    Trends Microbiol 12:406-11. 2004
  6. ncbi Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement
    Dave MacLeod
    GenomeAtlantic, 1721 Lower Water Street, Suite 401, Halifax, NS, B3J 1S5, Canada
    BMC Evol Biol 5:27. 2005
  7. ncbi Evolution of rhodopsin ion pumps in haloarchaea
    Adrian K Sharma
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    BMC Evol Biol 7:79. 2007
  8. ncbi The genome of Thermosipho africanus TCF52B: lateral genetic connections to the Firmicutes and Archaea
    Camilla L Nesbø
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    J Bacteriol 191:1974-8. 2009
  9. ncbi Higher-level classification of the Archaea: evolution of methanogenesis and methanogens
    Eric Bapteste
    Department of Biochemistry and Molecular Biology, Dalhousie University, Sir Charles Tupper Building, Halifax, NS, B3H 4H7, Canada
    Archaea 1:353-63. 2005
  10. ncbi Integron-associated gene cassettes in Halifax Harbour: assessment of a mobile gene pool in marine sediments
    J E Koenig
    Dalhousie University Department of Biochemistry and Molecular Biology, 5850 College Street Halifax, Nova Scotia, Canada B3H 1X5
    Environ Microbiol 10:1024-38. 2008

Detail Information

Publications23

  1. ncbi Do orthologous gene phylogenies really support tree-thinking?
    E Bapteste
    GenomeAtlantic, 1721 Lower Water Street, Suite 401, Halifax, NS, B3J 1S5, Canada
    BMC Evol Biol 5:33. 2005
    ..The selection of congruent markers is thus a fundamental step in simultaneous analysis of many genes...
  2. ncbi Does the 'Ring of Life' ring true?
    Eric Bapteste
    Canadian Institute for Advanced Research Program in Evolutionary Biology, Department of Biochemistry and Molecular Biology, Dalhousie University, 5850 College Street, Halifax, Nova Scotia, B3H 1X5, Canada
    Trends Microbiol 13:256-61. 2005
    ....
  3. ncbi Pattern pluralism and the Tree of Life hypothesis
    W Ford Doolittle
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, NS, Canada B3H 1X5
    Proc Natl Acad Sci U S A 104:2043-9. 2007
    ....
  4. ncbi The two tempos of nuclear pore complex evolution: highly adapting proteins in an ancient frozen structure
    Eric Bapteste
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, B3H 1X5, Canada
    Genome Biol 6:R85. 2005
    ..Until recently, too little phylogenetic information was available to address this issue by using multiple characters for many lineages...
  5. ncbi Phylogenetic reconstruction and lateral gene transfer
    Eric Bapteste
    Canadian Institute for Advanced Research and Genome Atlantic, Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    Trends Microbiol 12:406-11. 2004
    ..We suggest instead a more complex but more natural framework for classification, which we call the Synthesis of Life...
  6. ncbi Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement
    Dave MacLeod
    GenomeAtlantic, 1721 Lower Water Street, Suite 401, Halifax, NS, B3J 1S5, Canada
    BMC Evol Biol 5:27. 2005
    ..Indeed, even when the true history is a mixture of vertical descent for some genes and lateral gene transfer (LGT) for others, such methods produce unique topologies...
  7. ncbi Evolution of rhodopsin ion pumps in haloarchaea
    Adrian K Sharma
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    BMC Evol Biol 7:79. 2007
    ..In this initial study, we assess the roles of LGT and gene loss in the evolution of haloarchaeal rhodopsin ion pump genes, using phylogenetics and comparative genomics approaches...
  8. ncbi The genome of Thermosipho africanus TCF52B: lateral genetic connections to the Firmicutes and Archaea
    Camilla L Nesbø
    Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    J Bacteriol 191:1974-8. 2009
    ..Firmicutes emerge as the principal LGT partner. Twenty-six percent of phylogenetic trees suggest LGT with this group, while 13% of the open reading frames indicate LGT with Archaea...
  9. ncbi Higher-level classification of the Archaea: evolution of methanogenesis and methanogens
    Eric Bapteste
    Department of Biochemistry and Molecular Biology, Dalhousie University, Sir Charles Tupper Building, Halifax, NS, B3H 4H7, Canada
    Archaea 1:353-63. 2005
    ..Given that fossil evidence for methanogenesis dates back 2.8 billion years, a unique origin of this process makes the methanogenic archaea a very ancient taxon...
  10. ncbi Integron-associated gene cassettes in Halifax Harbour: assessment of a mobile gene pool in marine sediments
    J E Koenig
    Dalhousie University Department of Biochemistry and Molecular Biology, 5850 College Street Halifax, Nova Scotia, Canada B3H 1X5
    Environ Microbiol 10:1024-38. 2008
    ..Finally, the two most environmentally similar sample sites considered in this study display the greatest overlap of cassette types, consistent with the hypothesis that cassette genes encode adaptive proteins...
  11. ncbi Evolution of the RNA polymerase B' subunit gene (rpoB') in Halobacteriales: a complementary molecular marker to the SSU rRNA gene
    David A Walsh
    Canadian Institute for Advanced Research Program in Evolutionary Biology, Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada
    Mol Biol Evol 21:2340-51. 2004
    ..In addition, we present a valuable phylogenetic framework encompassing a broad diversity of Halobacteriales, in which novel sequences can be inserted for evolutionary, ecological, or taxonomic investigations...
  12. ncbi Evolutionary plasticity of methionine biosynthesis
    Uri Gophna
    Genome Atlantic and Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Nova Scotia, Canada B3H 1X5
    Gene 355:48-57. 2005
    ..This study illustrates how diverse molecular solutions can fulfill a conserved function in living beings...
  13. ncbi Eubacterial phylogeny based on translational apparatus proteins
    Celine Brochier
    Phylogénie, Bioinformatique et Génome, UMR 7622 CNRS, Universite Pierre et Marie Curie, 9, quai St Bernard, 75005 Paris, France
    Trends Genet 18:1-5. 2002
    ..Few of the genes studied show evidence for transfer. The phylogeny based on the genes devoid of transfer is very consistent with the ribosomal RNA tree, suggesting that an eubacterial phylogeny does exist...
  14. ncbi Lateral gene transfer challenges principles of microbial systematics
    Eric Bapteste
    UPMC UMR 7138, 7 quai Saint Bernard, Paris, France
    Trends Microbiol 16:200-7. 2008
    ..Furthermore, we argue that a comprehensive database containing overlapping taxonomical groups would constitute a step forward regarding the classification of microbes in the presence of lateral gene transfer...
  15. ncbi The potential value of indels as phylogenetic markers: position of trichomonads as a case study
    Eric Bapteste
    Mol Biol Evol 19:972-7. 2002
  16. ncbi A selective barrier to horizontal gene transfer in the T4-type bacteriophages that has preserved a core genome with the viral replication and structural genes
    Jonathan Filee
    Laboratoire de Microbiologie et Genetique Moleculaire, CNRS UMR 5100, Toulouse, France
    Mol Biol Evol 23:1688-96. 2006
    ..Such segments could be a sort of genetic glue that maintains the genetic cohesion of the T4-type phages via recombination within the most conserved sequences. This could mediate the swapping of nonconserved sequences that they flank...
  17. ncbi Rampant horizontal gene transfer and phospho-donor change in the evolution of the phosphofructokinase
    Eric Bapteste
    Equipe Phylogenie, Bioinformatique et Génome, UMR CNRS 7622, Universite Pierre et Marie Curie, 9 Quai St Bernard, 75005 Paris, France
    Gene 318:185-91. 2003
    ..These rampant HGT events and flexibility in phospho-donor use illustrate the importance of tinkering in molecular evolution...
  18. ncbi The genome reduction hypothesis and the phylogeny of eukaryotes
    Eric Bapteste
    , , 9 quai Saint Bernard, , 75005 Paris, France
    Trends Genet 19:696-700. 2003
  19. ncbi Phylogenomics of eukaryotes: impact of missing data on large alignments
    Hervé Philippe
    School of Animal and Microbial Sciences, The University of Reading, Reading, UK
    Mol Biol Evol 21:1740-52. 2004
    ....
  20. ncbi The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium, Entamoeba, and Mastigamoeba
    Eric Bapteste
    , , 9 quai Saint Bernard, , 75005 Paris, France
    Proc Natl Acad Sci U S A 99:1414-9. 2002
    ..g., loss of typical mitochondria) occurred in its free-living ancestors. Applying this inexpensive expressed sequence tag approach to many other lineages will surely improve our understanding of eukaryotic evolution...
  21. ncbi The genes encoding cAMP-dependent protein kinase catalytic subunit homologues of the microsporidia Encephalitozoon intestinalis and E. cuniculi: molecular characterisation and phylogenetic analysis
    Leila Equinet
    INSERM U609, Wellcome Centre for Molecular Parasitology, University of Glasgow, 56 Dumbarton Road, Glasgow G11 6NU, Scotland, UK
    Parasitol Int 53:277-85. 2004
    ..cuniculi orthologue (EcPKAc) is a single copy gene. RT-PCR data showed that the EiPKAc gene is expressed in at least one of the intracellular stages during infection of the mammalian host cell by E. intestinalis...
  22. ncbi Horizontal gene transfer and the evolution of cnidarian stinging cells
    Elsa Denker
    Curr Biol 18:R858-9. 2008
  23. ncbi The timing of eukaryotic evolution: does a relaxed molecular clock reconcile proteins and fossils?
    Emmanuel J P Douzery
    Department of Paleontology, Phylogeny, and Paleobiology, Institut des Sciences de l Evolution Unité Mixte de Recherche 5554, Centre National de la Recherche Scientifique, Universite Montpellier II, Montpellier Cedex 5, France
    Proc Natl Acad Sci U S A 101:15386-91. 2004
    ....