Gouy Manolo

A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea

Monique Aouad, Jean-Pierre Flandrois, Frédéric Jauffrit, Manolo Gouy, Simonetta Gribaldo, Celine Brochier-Armanet

BMC Ecology and Evolution . 22 ( 1 ) : 1-12

DOI: 10.1186/s12862-021-01952-0

2022

Article dans une revue

voir la publication

The Molecular Determinants of Thermoadaptation: Methanococcales as a Case Study

Michel Lecocq, Mathieu Groussin, Manolo Gouy, Celine Brochier-Armanet

Molecular Biology and Evolution . 38 ( 5 ) : 1761–1776

DOI: 10.1093/molbev/msaa312

2021

Article dans une revue

voir la publication

Seaview Version 5: A Multiplatform Software for Multiple Sequence Alignment, Molecular Phylogenetic Analyses, and Tree Reconciliation

Manolo Gouy, Eric Tannier, Nicolas Comte, David Parsons

Multiple Sequence Alignment . 2231 : 241-260

DOI: 10.1007/978-1-0716-1036-7_15

2021

Chapitre d'ouvrage

voir la publication

Resurrection of Ancestral Malate Dehydrogenases Reveals the Evolutionary History of Halobacterial Proteins : Deciphering Gene Trajectories and Changes in Biochemical Properties

Samuel Blanquart, Mathieu Groussin, Aline Le Roy, Gergely J Szöllosi, Eric Girard, Bruno Franzetti...

Molecular Biology and Evolution . 38 ( 9 ) : 3754-3774

DOI: 10.1093/molbev/msab146

2021

Article dans une revue

voir la publication

Bioinformatique - 3e édition

Gilbert Deléage, Manolo Gouy, Alexandre de Brevern

978-2-10-081515-9

2021

Ouvrage

voir la publication

Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.

Nicolas Comte, Benoît Morel, Damir Hasic, Laurent Guéguen, Bastien Boussau, Vincent Daubin...

Bioinformatics . 36 ( 18 ) : 4822-4824

DOI: 10.1093/bioinformatics/btaa615

2020

Article dans une revue

voir la publication

Extreme halophilic archaea derive from two distinct methanogen Class II lineages

Monique Aouad, Najwa Taïb, Anne Oudart, Michel Lecocq, Manolo Gouy, Céline Brochier-Armanet

Molecular Phylogenetics and Evolution . 127 : 46-54

DOI: 10.1016/j.ympev.2018.04.011

2018

Article dans une revue

voir la publication

Ancestral Reconstruction: Theory and Practice

Mathieu Groussin, Vincent Daubin, Eric Tannier, Manolo Gouy

Encyclopedia of Evolutionary Biology . : 70–77

DOI: 10.1016/B978-0-12-800049-6.00166-9

2016

Chapitre d'ouvrage

voir la publication

RiboDB database: a comprehensive resource for prokaryotic systematics

Frédéric Jauffrit, Simon Penel, Stéphane Delmotte, Carine Rey, Damien M de Vienne, Manolo Gouy...

Molecular Biology and Evolution . 33 ( 8 ) : 2170--2172

DOI: 10.1093/molbev/msw088

2016

Article dans une revue

voir la publication

Gene Acquisitions from Bacteria at the Origins of Major Archaeal Clades Are Vastly Overestimated

Mathieu Groussin, Bastien Boussau, Gergely J Szollosi, Laura Eme, Manolo Gouy, Céline Brochier-Armanet...

Molecular Biology and Evolution . 33 ( 2 ) : 305 - 310

DOI: 10.1093/molbev/msv249

2016

Article dans une revue

voir la publication

leBIBIQBPP: a set of databases and a webtool for automatic phylogenetic analysis of prokaryotic sequences

Jean-Pierre Flandrois, G. Perrière, Manolo Gouy

BMC Bioinformatics . 16 ( 1 ) : 251

DOI: 10.1186/s12859-015-0692-z

2015

Article dans une revue

voir la publication

Toward more accurate ancestral protein genotype-phenotype reconstructions with the use of species tree-aware gene trees

M. Groussin, J. K. Hobbs, G. J. Szollosi, S. Gribaldo, V. L. Arcus, Manolo Gouy

Molecular Biology and Evolution . 32 : 13-22

DOI: 10.1093/molbev/msu305

2015

Article dans une revue

voir la publication

Phylogenomic test of the hypotheses for the evolutionary origin of eukaryotes

Nc. Rochette, Céline Brochier-Armanet, M. Gouy

Molecular Biology and Evolution . 31 ( 4 ) : 832-45

DOI: 10.1093/molbev/mst272

2014

Article dans une revue

voir la publication

The molecular signal for the adaptation to cold temperature during early life on Earth

Mathieu Groussin, Bastien Boussau, Sandrine Charles, Samuel Blanquart, Manolo Gouy

Biology Letters . 9 ( 5 ) : 20130608

DOI: 10.1098/rsbl.2013.0608

2013

Article dans une revue

voir la publication

Bioinformatique : cours et cas pratique

Gilbert Deléage, Manolo Gouy

978-2-10-058751-3

2013

Ouvrage

voir la publication

Genome-scale coestimation of species and gene trees.

Bastien Boussau, Gergely J Szöllosi, L. Duret, Manolo Gouy, Eric Tannier, Vincent Daubin

Genome Research . 23 ( 2 ) : 323-330

DOI: 10.1101/gr.141978.112

2013

Article dans une revue

voir la publication

Bio++ : Efficient Extensible Libraries and Tools for Computational Molecular Evolution

Laurent Gueguen, Sylvain Gaillard, Bastien Boussau, Manolo Gouy, Mathieu Groussin, Nicolas C. Rochette...

Molecular Biology and Evolution . 30 ( 8 ) : 1745 - 1750

DOI: 10.1093/molbev/mst097

2013

Article dans une revue

voir la publication

Experimental assessment of the accuracy of genomic selection in sugarcane

M. Gouy, Y. Rousselle, Denis Bastianelli, Philippe Lecomte, Laurent Bonnal, D. Roques...

TAG Theoretical and Applied Genetics . 126 ( 10 ) : 2575-2586

DOI: 10.1007/s00122-013-2156-z

2013

Article dans une revue

voir la publication

A Branch-Heterogeneous Model of Protein Evolution for Efficient Inference of Ancestral Sequences

M. Groussin, Bastien Boussau, Manolo Gouy

Systematic Biology . 62 ( 4 ) : 523-538

DOI: 10.1093/sysbio/syt016

2013

Article dans une revue

voir la publication

What genomes have to say about the evolution of the Earth

Bastien Boussau, Manolo Gouy

Gondwana Research . 21 : 483-494

DOI: 10.1016/j.gr.2011.08.002

2012

Article dans une revue

voir la publication

Lateral gene transfer as a support for the tree of life.

Sophie S Abby, Eric Tannier, Manolo Gouy, Vincent Daubin

Proceedings of the National Academy of Sciences of the United States of America . 109 ( 13 ) : 4962-4967

DOI: 10.1073/pnas.1116871109

2012

Article dans une revue

voir la publication

Species identification of staphylococci by amplification and sequencing of the tuf gene compared to the gap gene and by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.

Marie Bergeron, Olivier Dauwalder, Manolo Gouy, Anne-Marie Freydiere, Michèle Bes, Hélène Meugnier...

European Journal of Clinical Microbiology and Infectious Diseases . 30 ( 3 ) : 343-54

DOI: 10.1007/s10096-010-1091-z

2011

Article dans une revue

voir la publication

Adaptation to Environmental Temperature Is a Major Determinant of Molecular Evolutionary Rates in Archaea

M. Groussin, Manolo Gouy

Molecular Biology and Evolution . 28 : 2661-2674

DOI: 10.1093/molbev/msr098

2011

Article dans une revue

voir la publication

Pendant trois milliards d'années les micro-organismes sont les seuls habitants de la terre

J.C. Bertrand, Céline Brochier-Armanet, Manolo Gouy, F. Westall

incollection . 2-35311-022-3 9782353110223 : 94-U259

2011

Chapitre d'ouvrage

voir la publication

Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests

Sophie S. Abby, Eric Tannier, Manolo Gouy, Vincent Daubin

BMC Bioinformatics . 11 ( 324 ) : 13

DOI: 10.1186/1471-2105-11-324

2010

Article dans une revue

voir la publication

Species identification of staphylococci by amplification and sequencing of the gene compared to the gene and by matrix-assisted laser desorption ionization time-of-flight mass spectrometry

M. Bergeron, O. Dauwalder, M. Gouy, A.-M. Freydiere, M. Bes, H. Meugnier...

European Journal of Clinical Microbiology and Infectious Diseases . : 343-354

DOI: 10.1007/s10096-010-1091-z

2010

Article dans une revue

voir la publication

Evolution Moléculaire

L. Duret, T. Bataillon, N. Bierne, Vincent Daubin, J. Dutheil, Christian Gautier...

Biologie évolutive . 978-2-8041-0161-9 : 114-173

2010

Chapitre d'ouvrage

voir la publication

SeaView Version 4: a Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building

Manolo Gouy, Stéphane Guindon, Olivier Gascuel

Molecular Biology and Evolution . 27 : 221-224

DOI: 10.1093/molbev/msp259

2010

Article dans une revue

voir la publication

Proposals for classification methods dedicated to biological data

Anne-Muriel Arigon Chifolleau, Guy Perrière, Manolo Gouy

International Journal of Biomedical Engineering and Technology (IJBET) . 3 ( 1/2 ) : 4-21

DOI: 10.1504/IJBET.2010.029649

2010

Article dans une revue

voir la publication

A Mixture Model and a Hidden Markov Model to Simultaneously Detect Recombination Breakpoints and Reconstruct Phylogenies

Bastien Boussau, Laurent Guéguen, Manolo Gouy

Evolutionary Bioinformatics . 5 : 67-79

DOI: 10.4137/EBO.S2242

2009

Article dans une revue

voir la publication

Publications

A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea

The Molecular Determinants of Thermoadaptation: Methanococcales as a Case Study

Seaview Version 5: A Multiplatform Software for Multiple Sequence Alignment, Molecular Phylogenetic Analyses, and Tree Reconciliation

Resurrection of Ancestral Malate Dehydrogenases Reveals the Evolutionary History of Halobacterial Proteins : Deciphering Gene Trajectories and Changes in Biochemical Properties

Bioinformatique - 3e édition

Treerecs: an integrated phylogenetic tool, from sequences to reconciliations.

Extreme halophilic archaea derive from two distinct methanogen Class II lineages

Ancestral Reconstruction: Theory and Practice

RiboDB database: a comprehensive resource for prokaryotic systematics

Gene Acquisitions from Bacteria at the Origins of Major Archaeal Clades Are Vastly Overestimated

leBIBIQBPP: a set of databases and a webtool for automatic phylogenetic analysis of prokaryotic sequences

Toward more accurate ancestral protein genotype-phenotype reconstructions with the use of species tree-aware gene trees

Phylogenomic test of the hypotheses for the evolutionary origin of eukaryotes

The molecular signal for the adaptation to cold temperature during early life on Earth

Bioinformatique : cours et cas pratique

Genome-scale coestimation of species and gene trees.

Bio++ : Efficient Extensible Libraries and Tools for Computational Molecular Evolution

Experimental assessment of the accuracy of genomic selection in sugarcane

A Branch-Heterogeneous Model of Protein Evolution for Efficient Inference of Ancestral Sequences

What genomes have to say about the evolution of the Earth

Lateral gene transfer as a support for the tree of life.

Species identification of staphylococci by amplification and sequencing of the tuf gene compared to the gap gene and by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.

Adaptation to Environmental Temperature Is a Major Determinant of Molecular Evolutionary Rates in Archaea

Pendant trois milliards d'années les micro-organismes sont les seuls habitants de la terre

Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests

Species identification of staphylococci by amplification and sequencing of the gene compared to the gene and by matrix-assisted laser desorption ionization time-of-flight mass spectrometry

Evolution Moléculaire

SeaView Version 4: a Multiplatform Graphical User Interface for Sequence Alignment and Phylogenetic Tree Building

Proposals for classification methods dedicated to biological data

A Mixture Model and a Hidden Markov Model to Simultaneously Detect Recombination Breakpoints and Reconstruct Phylogenies