Stephane Audic

Summary

Affiliation: Centre National de la Recherche Scientifique
Country: France

Publications

  1. pmc Transcriptome analysis of functional differentiation between haploid and diploid cells of Emiliania huxleyi, a globally significant photosynthetic calcifying cell
    Peter von Dassow
    Evolution du Plancton et PaleOceans, Station Biologique de Roscoff, CNRS UPMC UMR7144, 29682 Roscoff, France
    Genome Biol 10:R114. 2009
  2. pmc Analysis of the Rickettsia africae genome reveals that virulence acquisition in Rickettsia species may be explained by genome reduction
    Pierre Edouard Fournier
    Unite des Rickettsies, IFR 48 CNRS UMR 6020, Faculte de Medecine, Universite de la Mediterranee, 27 Boulevard Jean Moulin, Marseille Cedex 05, France
    BMC Genomics 10:166. 2009
  3. pmc Genome analysis of Minibacterium massiliensis highlights the convergent evolution of water-living bacteria
    Stephane Audic
    Structural and Genomic Information Laboratory, Institute for Structural Biology and Microbiology, Marseille, France
    PLoS Genet 3:e138. 2007
  4. pmc Brucella microti: the genome sequence of an emerging pathogen
    Stephane Audic
    Laboratoire Information Génomique et Structurale, CNRS UPR2589, Aix Marseille University, Institut de Microbiologie de la Méditerranée IM2, IFR 88, Parc Scientifique de Luminy, FR 13288, Marseille Cedex 09, France
    BMC Genomics 10:352. 2009
  5. pmc Reductive genome evolution from the mother of Rickettsia
    Guillaume Blanc
    Structural and Genomic Information Laboratory, Institut de Biologie Structurale et Microbiologie, Parc Scientifique de Luminy, Marseille, France
    PLoS Genet 3:e14. 2007
  6. pmc Lateral gene transfer between obligate intracellular bacteria: evidence from the Rickettsia massiliae genome
    Guillaume Blanc
    Structural and Genomic Information Laboratory, CNRS UPR 2589, Institut de Biologie Structurale et Microbiologie, IFR 88, Parc Scientifique de Luminy, 13288 Marseille Cedex 9, France
    Genome Res 17:1657-64. 2007
  7. pmc Genome sequence of Rickettsia bellii illuminates the role of amoebae in gene exchanges between intracellular pathogens
    Hiroyuki Ogata
    Structural and Genomic Information Laboratory, Centre National de la Recherche Scientifique UPR 2589, Institut de Biologie Structurale et Microbiologie, Parc Scientifique de Luminy, Marseille, France
    PLoS Genet 2:e76. 2006
  8. pmc Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee
    Fabrice Armougom
    Laboratoire Information Génomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology IBSM, Parc Scientifique de Luminy, 163 Avenue de Luminy, FR 13288, Marseille Cedex 09, France
    Nucleic Acids Res 34:W604-8. 2006
  9. pmc Comparative genomics of multidrug resistance in Acinetobacter baumannii
    Pierre Edouard Fournier
    Information Genomique et Structurale, Institute for Structural Biology and Microbiology, IBSM, Marseille, France
    PLoS Genet 2:e7. 2006
  10. pmc mRNA deep sequencing reveals 75 new genes and a complex transcriptional landscape in Mimivirus
    Matthieu Legendre
    Structural and Genomic Information Laboratory, Centre National de la Recherche Scientifique, UPR2589, Mediterranean Institute of Microbiology IFR88, Aix Marseille University, Parc Scientifique de Luminy, FR 13288 Marseille, France
    Genome Res 20:664-74. 2010

Collaborators

Detail Information

Publications20

  1. pmc Transcriptome analysis of functional differentiation between haploid and diploid cells of Emiliania huxleyi, a globally significant photosynthetic calcifying cell
    Peter von Dassow
    Evolution du Plancton et PaleOceans, Station Biologique de Roscoff, CNRS UPMC UMR7144, 29682 Roscoff, France
    Genome Biol 10:R114. 2009
    ..huxleyi normalized cDNA libraries to identify genes involved in important processes specific to each life phase (2N calcification or 1N motility), and to better understand the haploid phase of this prominent haplo-diplontic organism...
  2. pmc Analysis of the Rickettsia africae genome reveals that virulence acquisition in Rickettsia species may be explained by genome reduction
    Pierre Edouard Fournier
    Unite des Rickettsies, IFR 48 CNRS UMR 6020, Faculte de Medecine, Universite de la Mediterranee, 27 Boulevard Jean Moulin, Marseille Cedex 05, France
    BMC Genomics 10:166. 2009
    ..prowazekii, which causes epidemic typhus and kills its arthropod host, to the mild pathogen R. africae, the agent of African tick-bite fever, which does not affect the fitness of its tick vector...
  3. pmc Genome analysis of Minibacterium massiliensis highlights the convergent evolution of water-living bacteria
    Stephane Audic
    Structural and Genomic Information Laboratory, Institute for Structural Biology and Microbiology, Marseille, France
    PLoS Genet 3:e138. 2007
    ..The M. massiliensis genome analyses strongly suggest that water-living bacteria are a common source for genes involved in heavy-metal resistance, antibiotics resistance, and virulence factors...
  4. pmc Brucella microti: the genome sequence of an emerging pathogen
    Stephane Audic
    Laboratoire Information Génomique et Structurale, CNRS UPR2589, Aix Marseille University, Institut de Microbiologie de la Méditerranée IM2, IFR 88, Parc Scientifique de Luminy, FR 13288, Marseille Cedex 09, France
    BMC Genomics 10:352. 2009
    ..The atypical phenotype of B. microti prompted us to look for genomic differences compared to other Brucella species and to look for similarities with Ochrobactrum...
  5. pmc Reductive genome evolution from the mother of Rickettsia
    Guillaume Blanc
    Structural and Genomic Information Laboratory, Institut de Biologie Structurale et Microbiologie, Parc Scientifique de Luminy, Marseille, France
    PLoS Genet 3:e14. 2007
    ....
  6. pmc Lateral gene transfer between obligate intracellular bacteria: evidence from the Rickettsia massiliae genome
    Guillaume Blanc
    Structural and Genomic Information Laboratory, CNRS UPR 2589, Institut de Biologie Structurale et Microbiologie, IFR 88, Parc Scientifique de Luminy, 13288 Marseille Cedex 9, France
    Genome Res 17:1657-64. 2007
    ..Further analysis of the genomic sequences identifies additional candidates of LGT between Rickettsia. Our study indicates that recent LGT between obligate intracellular Rickettsia is more common than previously thought...
  7. pmc Genome sequence of Rickettsia bellii illuminates the role of amoebae in gene exchanges between intracellular pathogens
    Hiroyuki Ogata
    Structural and Genomic Information Laboratory, Centre National de la Recherche Scientifique UPR 2589, Institut de Biologie Structurale et Microbiologie, Parc Scientifique de Luminy, Marseille, France
    PLoS Genet 2:e76. 2006
    ....
  8. pmc Expresso: automatic incorporation of structural information in multiple sequence alignments using 3D-Coffee
    Fabrice Armougom
    Laboratoire Information Génomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology IBSM, Parc Scientifique de Luminy, 163 Avenue de Luminy, FR 13288, Marseille Cedex 09, France
    Nucleic Acids Res 34:W604-8. 2006
    ..Providing the suitable structural information is available, Expresso delivers sequence alignments with accuracy comparable with structure-based alignments. The server is available on http://www.tcoffee.org/...
  9. pmc Comparative genomics of multidrug resistance in Acinetobacter baumannii
    Pierre Edouard Fournier
    Information Genomique et Structurale, Institute for Structural Biology and Microbiology, IBSM, Marseille, France
    PLoS Genet 2:e7. 2006
    ..Whole-genome sequencing appears to be a fast and efficient approach to the exhaustive identification of resistance genes in epidemic infectious agents of clinical significance...
  10. pmc mRNA deep sequencing reveals 75 new genes and a complex transcriptional landscape in Mimivirus
    Matthieu Legendre
    Structural and Genomic Information Laboratory, Centre National de la Recherche Scientifique, UPR2589, Mediterranean Institute of Microbiology IFR88, Aix Marseille University, Parc Scientifique de Luminy, FR 13288 Marseille, France
    Genome Res 20:664-74. 2010
    ....
  11. pmc The polyadenylation site of Mimivirus transcripts obeys a stringent 'hairpin rule'
    Deborah Byrne
    Structural and Genomic Information Laboratory, CNRS UPR 2589, IFR 88, Aix Marseille University, Parc Scientifique de Luminy, Case 934, 13288 Marseille Cedex 9, France
    Genome Res 19:1233-42. 2009
    ..The precise molecular mechanisms implementing the hairpin rule into the 3'-end processing of Mimivirus pre-mRNAs remain to be elucidated...
  12. pmc The genome sequence of Rickettsia felis identifies the first putative conjugative plasmid in an obligate intracellular parasite
    Hiroyuki Ogata
    Structural and Genomic Information Laboratory, UPR 2589, IBSM, CNRS, Marseille Cedex, France
    PLoS Biol 3:e248. 2005
    ..Our study demonstrates that complete genome sequencing is the fastest approach to reveal phenotypic characters of recently cultured obligate intracellular bacteria...
  13. pmc The genome of Borrelia recurrentis, the agent of deadly louse-borne relapsing fever, is a degraded subset of tick-borne Borrelia duttonii
    Magali Lescot
    Structural and Genomic Information Laboratory, CNRS UPR2589, IFR88, Parc Scientifique de Luminy, Marseille, France
    PLoS Genet 4:e1000185. 2008
    ..The correlation between gene loss and increased virulence of B. recurrentis parallels that of Rickettsia prowazekii, with both species being genomic subsets of less-virulent strains...
  14. ncbi request reprint Mimivirus and the emerging concept of "giant" virus
    Jean Michel Claverie
    Information Genomique et Structurale, CNRS UPR 2589, IBSM, Parc Scientifique de Luminy, 163 Avenue de Luminy, Case 934, 13288 Marseille Cedex 9, France
    Virus Res 117:133-44. 2006
    ..We propose to introduce the word "girus" to recognize the intermediate status of these giant DNA viruses, the genome complexity of which makes them closer to small parasitic prokaryotes than to regular viruses...
  15. pmc PROTOGENE: turning amino acid alignments into bona fide CDS nucleotide alignments
    Sebastien Moretti
    Information Genomique et Structurale, CNRS UPR2589, Institute for Structural Biology and Microbiology IBSM, Parc Scientifique de Luminy, 163 Avenue de Luminy, FR 13288, Marseille Cedex 09, France
    Nucleic Acids Res 34:W600-3. 2006
    ..Protogene can handle protein fragments and will return every CDS coding for a given protein, even if they occur in different genomes. Protogene is available from http://www.tcoffee.org/...
  16. pmc BLAST-EXPLORER helps you building datasets for phylogenetic analysis
    Alexis Dereeper
    Information Génomique and Structurale CNRS UPR2589, Institut de Microbiologie de la Méditerranée IFR 88, Marseille, France
    BMC Evol Biol 10:8. 2010
    ....
  17. pmc The genome sequence of Brucella pinnipedialis B2/94 sheds light on the evolutionary history of the genus Brucella
    Stephane Audic
    Laboratoire Information Génomique et Structurale, CNRS UPR2589, Aix Marseille University, Institut de Microbiologie de la Mediterranee, IFR 88, Parc Scientifique de Luminy 163 Avenue de Luminy Case 934 FR 13288, Marseille Cedex 09, France
    BMC Evol Biol 11:200. 2011
    ..pinnipedialis and B. ceti from marine mammals raised many questions about their origin as well as on the evolutionary history of the whole genus...
  18. pmc Mimivirus gene promoters exhibit an unprecedented conservation among all eukaryotes
    Karsten Suhre
    Information Genomique et Structurale, Centre National de la Recherche Scientifique, Institut de Biologie Structurale et Microbiologie, 13402 Marseille, France
    Proc Natl Acad Sci U S A 102:14689-93. 2005
    ..This unprecedented conservation of core promoter regions is another exceptional feature of Mimivirus that again raises the question of its evolutionary origin...
  19. pmc Protein coding palindromes are a unique but recurrent feature in Rickettsia
    Hiroyuki Ogata
    Information Génétique and Structurale, CNRS AVENTIS UMR 1889, 13402 Marseille Cedex 20, France
    Genome Res 12:808-16. 2002
    ..This comprehensive study of Rickettsia repeats confirms and extends our previous observations and further indicates a significant role of selfish DNAs in the creation and modification of proteins...
  20. ncbi request reprint Impact of the tail and mutations G131V and M129V on prion protein flexibility
    Sébastien Santini
    Information Genetique et Structurale, CNRS UMR 1889, Marseille, France
    Proteins 51:258-65. 2003
    ..They also extend the short beta-sheet in the normal protein into a larger sheet at neutral pH. This finding suggests a critical role of the tail for triggering the topological change...