GECO Evolutionary and Computational Genomics

A nonhyperthermophilic common ancestor to extant life forms

N. Galtier, N. Tourasse, Manolo Gouy

Science . 283 ( 5399 ) : 220-221

DOI: 10.1126/science.283.5399.220

1999

Journal article

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Accounting for evolutionary rate variation among sequence sites consistently changes universal phylogenies deduced from rRNA and protein-coding genes

N.J. Tourasse, Manolo Gouy

Molecular Phylogenetics and Evolution . 13 : 159-168

DOI: 10.1006/mpev.1999.0675

1999

Journal article

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Characterization of Unexpected Growth of Escherichia coli O157:H7 by Modeling

M. Cornu, Marie Laure Delignette-Muller, Jean-Pierre Flandrois

Applied and Environmental Microbiology . 65 : 5322-5327

1999

Journal article

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A model describing the relationship between regrowth lag time and mild temperature increase for Listeria monocytogenes

S. Breand, G. Fardel, Jean-Pierre Flandrois, L. Rosso, R. Tomassone

International Journal of Food Microbiology . 46 : 251-261

1999

Journal article

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Synonymous codon usage variation among Giardia lamblia genes and isolates.

Bénédicte Lafay, Paul M. Sharp

Molecular Biology and Evolution . 16 ( 11 ) : 1484-95

1999

Journal article

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Retrotransposons and retroviruses: analysis of the envelope gene

E. Lerat, P. Capy

Molecular Biology and Evolution . 16 : 1198-1207

1999

Journal article

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Regulation of dauer larva development in Caenorhabditis elegans by daf-18, a homologue of the tumour suppressor PTEN

Jean-Pierre Rouault, Patricia Kuwabara, Olga Sinilnikova, Laurent Duret, Danielle Thierry-Mieg, Marc Billaud

Current Biology . 9 ( 6 ) : 329-334

DOI: 10.1016/S0960-9822(99)80143-2

1999

Journal article

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Human and nematode orthologs--lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans

S.J. Wheelan, M.S. Boguski, L. Duret, W. Makalowski

Gene . 238 : 163-170

1999

Journal article

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Molecular characterization and placental expression of HERV-W a new human endogenous retrovirus family

J.L. Blond, F. Beseme, L. Duret, O. Bouton, F. Bedin, H. Perron...

Journal of Virology . 73 : 1175-1185

1999

Journal article

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HOVERGEN: comparative analysis of homologous vertebrate genes

L. Duret, G. Perrière, Manolo Gouy

incollection . 978-0-7923-8573-8 : 21-35

DOI: 10.1007/0-306-46903-0_3

1999

Book chapter

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Expression pattern and surprisingly gene length shape codon usage in Caenorhabditis Drosophila and Arabidopsis

L. Duret, Dominique Mouchiroud

Proceedings of the National Academy of Sciences of the United States of America . 96 : 4482-4487

1999

Journal article

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Promoter sequences and algorithmical methods for identifying them

A. Vanet, L. Marsan, M.-F. Sagot

Research in Microbiology . 150 : 779-799

1999

Journal article

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JaDis: computing distances between nucleic acid sequences

I. Goncalves, M. Robinson, G. Perrière, Dominique Mouchiroud

Bioinformatics . 15 : 424-425

1999

Journal article

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Is the evolution of transposable elements modular?

E. Lerat, F. Brunet, C. Bazin, P. Capy

Genetica . 107 : 15-25

1999

Journal article

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Proteome composition and codon usage in spirochaetes: species-specific and DNA strand-specific mutational biases.

Bénédicte Lafay, Andrew T. Lloyd, Michael J. Mclean, Kevin M. Devine, Paul M. Sharp, Kenneth H. Wolfe

Nucleic Acids Research . 27 ( 7 ) : 1642-9

1999

Journal article

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New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling

L. Duret, N. Guex, M.C. Peitsch, A. Bairoch

Genome Research . 8 : 348-353

1998

Journal article

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Highly conserved RNA sequences that are sensors of environmental stress

A. Spicher, O.M. Guicherit, L. Duret, A. Aslanian, E.M. Sanjines, N.C. Denko...

Molecular and Cellular Biology . 18 : 7371-7382

1998

Journal article

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Sensitivity of the relative-rate test to taxonomic sampling

M. Robinson, Manolo Gouy, Christian Gautier, Dominique Mouchiroud

Molecular Biology and Evolution . 15 ( 9 ) : 1091-1098

DOI: 10.1093/oxfordjournals.molbev.a026016

1998

Journal article

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Microsporidia amitochondrial protists possess a 70-kDa heat shock protein gene of mitochondrial evolutionary origin

E. Peyretaillade, V. Broussolle, P. Peyret, G. Metenier, Manolo Gouy, Christian Vivarès

Molecular Biology and Evolution . 15 : 683-689

DOI: 10.1093/oxfordjournals.molbev.a025971

1998

Journal article

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Saccharomyces boulardii Fungemia in a Patient Receiving Ultra‐levure Therapy

Jean-Pierre Flandrois, I. Fredenucci, M. Chomarat, C. Boucaud

Clinical Infectious Diseases . 27 ( 1 ) : 222-223

DOI: 10.1086/517685

1998

Journal article

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Molecular diversity of rhizobia occurring on native shrubby legumes in southeastern Australia

Bénédicte Lafay, Jeremy J. Burdon

Applied and Environmental Microbiology . 64 ( 10 ) : 3989-97

1998

Journal article

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What is the state of the art in molecular systematics of marine Porifera ?

Nicole Boury-Esnault, Carole Borchiellini, Catherine Chombard, Bénédicte Lafay

Hydrobiologia .

1998

Conference paper

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Identifying satellites and periodic repetitions in biological sequences

M.-F. Sagot, E.W. Myers

Journal of Computational Biology . 5 : 539-554

1998

Journal article

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Spelling Approximate Repeated or Common Motifs Using a Suffix Tree

M.-F. Sagot

incollection . 1380 : 374-390

1998

Journal article

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The non-redundant Bacillus subtilis (NRSub) database: update 1998

G. Perrière, Manolo Gouy, T. Gojobori

Nucleic Acids Research . 26 ( 1 ) : 60-62

DOI: 10.1093/nar/26.1.60

1998

Journal article

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Multiple sequence alignment with Clustal X

F. Jeanmougin, J.D. Thompson, Manolo Gouy, D.G. Higgins, T.J. Gibson

Trends in Biochemical Sciences . 23 ( 10 ) : 403-405

DOI: 10.1016/S0968-0004(98)01285-7

1998

Journal article

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Inferring pattern and process: maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis

N. Galtier, Manolo Gouy

Molecular Biology and Evolution . 15 ( 7 ) : 871-879

DOI: 10.1093/oxfordjournals.molbev.a025991

1998

Journal article

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Microsporidian Encephalitozoon cuniculi a unicellular eukaryote with an unusual chromosomal dispersion of ribosomal genes and a LSU rRNA reduced to the universal core

E. Peyretaillade, C. Biderre, P. Peyret, F. Duffieux, G. Metenier, Manolo Gouy...

Nucleic Acids Research . 26 : 3513-3520

DOI: 10.1093/nar/26.15.3513

1998

Journal article

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Phylogenetic analysis and genome size of Ostreococcus tauri (Chlorophyta Prasinophyceae)

C. Courties, R. Perasso, M.-J. Chrétiennot-Dinet, Manolo Gouy, Laure Guillou, M. Troussellier

Journal of Phycology . 34 : 844-849

DOI: 10.1046/j.1529-8817.1998.340844.x

1998

Journal article

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Model of the influence of time and mild temperature on Listeria monocytogenes nonlinear survival curves

S. Breand, G. Fardel, Jean-Pierre Flandrois, L. Rosso, R. Tomassone

International Journal of Food Microbiology . 40 : 185-195

1998

Journal article

see the publication

GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

A nonhyperthermophilic common ancestor to extant life forms

Accounting for evolutionary rate variation among sequence sites consistently changes universal phylogenies deduced from rRNA and protein-coding genes

Characterization of Unexpected Growth of Escherichia coli O157:H7 by Modeling

A model describing the relationship between regrowth lag time and mild temperature increase for Listeria monocytogenes

Synonymous codon usage variation among Giardia lamblia genes and isolates.

Retrotransposons and retroviruses: analysis of the envelope gene

Regulation of dauer larva development in Caenorhabditis elegans by daf-18, a homologue of the tumour suppressor PTEN

Human and nematode orthologs--lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans

Molecular characterization and placental expression of HERV-W a new human endogenous retrovirus family

HOVERGEN: comparative analysis of homologous vertebrate genes

Expression pattern and surprisingly gene length shape codon usage in Caenorhabditis Drosophila and Arabidopsis

Promoter sequences and algorithmical methods for identifying them

JaDis: computing distances between nucleic acid sequences

Is the evolution of transposable elements modular?

Proteome composition and codon usage in spirochaetes: species-specific and DNA strand-specific mutational biases.

New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling

Highly conserved RNA sequences that are sensors of environmental stress

Sensitivity of the relative-rate test to taxonomic sampling

Microsporidia amitochondrial protists possess a 70-kDa heat shock protein gene of mitochondrial evolutionary origin

Saccharomyces boulardii Fungemia in a Patient Receiving Ultra‐levure Therapy

Molecular diversity of rhizobia occurring on native shrubby legumes in southeastern Australia

What is the state of the art in molecular systematics of marine Porifera ?

Identifying satellites and periodic repetitions in biological sequences

Spelling Approximate Repeated or Common Motifs Using a Suffix Tree

The non-redundant Bacillus subtilis (NRSub) database: update 1998

Multiple sequence alignment with Clustal X

Inferring pattern and process: maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis

Microsporidian Encephalitozoon cuniculi a unicellular eukaryote with an unusual chromosomal dispersion of ribosomal genes and a LSU rRNA reduced to the universal core

Phylogenetic analysis and genome size of Ostreococcus tauri (Chlorophyta Prasinophyceae)

Model of the influence of time and mild temperature on Listeria monocytogenes nonlinear survival curves