GECO Evolutionary and Computational Genomics

Transcriptome Characterisation of the Ant Formica exsecta with New Insights into the Evolution of Desaturase Genes in Social Hymenoptera

Hélène E Badouin, Khalid Belkhir, Emma Gregson, Juan Galindo, Liselotte Sundström, Stephen Martin...

PLoS ONE . 8 ( 7 ) : e68200

DOI: 10.1371/journal.pone.0068200

2013

Journal article

see the 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

Journal article

see the publication

« ArthropodaCyc » : une collection de bases de données enrichies à l’aide de CycADS pour étudier et comparer le métabolisme des arthropodes.

Patrice Baa-Puyoulet, Stefano Colella, Augusto Vellozo, Jaime Huerta-Cepas, Gérard Febvay, Federica Calevro...

17. Colloque de Biologie de l’Insecte - CBI-2013 .

2013

Poster

see the publication

Nickel import in bacteria, structural study of extracytoplasmic nickel-binding proteins

Hugo Lebrette, Christine Cavazza, Céline Brochier-Armanet, Elise Borezée-Durant

16. International Conference on Biological Inorganic Chemistry (ICBIC) . 19 : 1

2013

Conference paper

see the publication

Procédé de fabrication de Gaz Naturel de Synthèse par couplage d'une méthanation avec une électrolyse de vapeur d'eau à haute température

Myriam de Saint Jean, Vincent Lacroix, Pierre Baurens, Chakib Bouallou

XIVeme congrès SFGP . 104 : 2012214

2013

Conference paper

see the publication

XACT, a long non-coding transcript coating the active X chromosome in human pluripotent cells

Céline Vallot, Christophe Huret, Yann Lesecque, Alissa Resch, Noufϊssa Oudrhiri, Annelise Bennaceur...

Epigenetics and Chromatin: Interactions and processes . 6 ( Suppl 1 ) : O33

DOI: 10.1186/1756-8935-6-S1-O33

2013

Conference paper

see the publication

New developments in KisSplice: Combining local and global transcriptome assemblers to decipher splicing in RNA-seq data

Alice Julien-Laferriere, Gustavo Sacomoto, Rayan Chikhi, Erwan Scaon, David P. Parsons, Marie-France Sagot...

Journées Ouvertes en Biologie, Informatique et Mathématiques (JOBIM) .

2013

Conference paper

see the publication

Endosymbiosis in trypanosomatids: the genomic cooperation between bacterium and host in the synthesis of essential amino acids is heavily influenced by multiple horizontal gene transfers

João Alves, Cecilia Klein, Flávia Maia da Silva, André Costa-Martins, Myrna Serrano, Gregory Buck...

BMC Evolutionary Biology . 13 ( 1 ) : 190

DOI: 10.1186/1471-2148-13-190

2013

Journal article

see the publication

Biosynthesis of vitamins and cofactors in bacterium-harbouring trypanosomatids depends on the symbiotic association as revealed by genomic analyses

Cecilia C Klein, João M P Alves, Myrna G Serrano, Gregory A Buck, Ana Tereza R Vasconcelos, Marie-France Sagot...

PLoS ONE . 8 ( 11 ) : e79786

DOI: 10.1371/journal.pone.0079786

2013

Journal article

see the 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

Journal article

see the 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

Journal article

see the publication

Egyptian mummies record increasing aridity in the Nile valley from 5500 to 1500yr before present

Alexandra Touzeau, Janne Blichert-Toft, Romain Amiot, François Fourel, François Martineau, Jenefer Cockitt...

Earth and Planetary Science Letters . 375 : 92-100

DOI: 10.1016/j.epsl.2013.05.014

2013

Journal article

see the publication

Phylogenies of Central Element Proteins Reveal the Dynamic Evolutionary History of the Mammalian Synaptonemal Complex: Ancient and Recent Components

J. Fraune, Céline Brochier-Armanet, M. Alsheimer, R. Benavente

GENETICS . 195 : 781--793

DOI: 10.1534/genetics.113.156679

2013

Journal article

see the publication

LUCA, ancêtre de tous les êtres vivants

Simonetta Gribaldo, Céline Brochier-Armanet

Les Dossiers de la Recherche . 2 : 29--31

2013

Journal article

see the publication

Classification of bacterial replicons based on the Genetic Information Transmission Systems

Olivier Poirion, Bénédicte Lafay

11th RECOMB - Comparative Genomics 2013 .

2013

Conference paper

see the publication

Cellular Source and Mechanisms of High Transcriptome Complexity in the Mammalian Testis

M. Soumillon, A. Necsulea, M. Weier, D. Brawand, X. Zhang, H. Gu...

Cell Reports . 3 ( 6 ) : 2179-2190

DOI: 10.1016/j.celrep.2013.05.031

2013

Journal article

see the publication

Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26.

Jérémy Andres, Florence Arsène-Ploetze, Valérie Barbe, Céline Brochier-Armanet, Jessica Cleiss-Arnold, Jean-Yves Coppée...

Genome Biology and Evolution . 5 ( 5 ) : 934-53

DOI: 10.1093/gbe/evt061

2013

Journal article

see the publication

Phylogenetic Patterns of GC-Biased Gene Conversion in Placental Mammals and the Evolutionary Dynamics of Recombination Landscapes

Nicolas Lartillot

Molecular Biology and Evolution . 30 ( 3 ) : 489-502

DOI: 10.1093/molbev/mss239

2013

Journal article

see the publication

An Experimentally Tested Scenario for the Structural Evolution of Eukaryotic Cys2His2 Zinc Fingers from Eubacterial Ros Homologs

Fortuna Netti, Gaetano Malgieri, Sabrina Esposito, Maddalena Palmieri, Ilaria Baglivo, Carla Isernia...

Molecular Biology and Evolution . 30 ( 7 ) : 1504 - 1513

DOI: 10.1093/molbev/mst068

2013

Journal article

see the 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

Journal article

see the publication

Short and long-term genome stability analysis of prokaryotic genomes

Matteo Brilli, Pietro Liò, Vincent Lacroix, Marie-France Sagot

BMC Genomics . 14 ( 1 ) : 309

DOI: 10.1186/1471-2164-14-309

2013

Journal article

see the publication

TPMS: a set of utilities for querying collections of gene trees.

Thomas Bigot, Vincent Daubin, Florent Lassalle, Guy Perrière

BMC Bioinformatics . 14 : 109

DOI: 10.1186/1471-2105-14-109

2013

Journal article

see the publication

Mechanisms and Evolutionary Patterns of Mammalian and Avian Dosage Compensation

Philippe Julien, David Brawand, Magali Soumillon, Anamaria Necsulea, Angélica Liechti, Frédéric Schütz...

PLoS Biology . 10 ( 5 ) : e1001328

DOI: 10.1371/journal.pbio.1001328

2012

Journal article

see the publication

Different kinds of genetic markers permit inference of Paleolithic and Neolithic expansions in humans

Carla Aimé, Guillaume Laval, Etienne Patin, Paul Verdu, Laure Ségurel, Raphaëlle Chaix...

Conférence Jacques Monod .

2012

Poster

see the publication

Geographical delimitation of a partial selective sweep in African \textitDrosophila melanogaster

L. Frezal, F. Meli, Sylvain Mousset, S. Mona, M. Veuille

Molecular ecology . 21 : 5702--14

DOI: 10.1111/mec.12004

2012

Journal article

see the publication

The genetic prehistory of southern Africa

Joseph Pickrell, Nick Patterson, Chiara Barbieri, Falko Berthold, Linda Gerlach, Tom Güldemann...

Nature Communications . 3 : 1143

DOI: 10.1038/ncomms2140

2012

Journal article

see the publication

Bridging Near and Remote Oceania: mtDNA and NRY Variation in the Solomon Islands

F. Delfin, S. Myles, Y. Choi, D. Hughes, R. Illek, M. van Oven...

Molecular Biology and Evolution . 29 ( 2 ) : 545-564

DOI: 10.1093/molbev/msr186

2012

Journal article

see the publication

Bringing together linguistic and genetic evidence to test the Bantu expansion

C. de Filippo, K. Bostoen, M. Stoneking, Brigitte Pakendorf

Proceedings of the Royal Society B: Biological Sciences . 279 ( 1741 ) : 3256-3263

DOI: 10.1098/rspb.2012.0318

2012

Journal article

see the publication

The endogenous retrovirus ENS-1 provides active binding sites for transcription factors in embryonic stem cells that specify extra embryonic tissue

A. Mey, Hervé Acloque, Emmanuelle Lerat, S. Gounel, V. Tribollet, S. Blanc...

Retrovirology . 9 ( 1 ) : 21

DOI: 10.1186/1742-4690-9-21

2012

Journal article

see the publication

Revisiting an Old Riddle: What Determines Genetic Diversity Levels within Species?

Ellen Miranda Leffler, Kevin Bullaughey, Daniel R Matute, Wynn Meyer, Laure Ségurel, Aarti A. Venkat...

PLoS Biology . 10 ( 9 ) : e1001388

DOI: 10.1371/journal.pbio.1001388

2012

Journal article

see the publication

GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Transcriptome Characterisation of the Ant Formica exsecta with New Insights into the Evolution of Desaturase Genes in Social Hymenoptera

Genome-scale coestimation of species and gene trees.

« ArthropodaCyc » : une collection de bases de données enrichies à l’aide de CycADS pour étudier et comparer le métabolisme des arthropodes.

Nickel import in bacteria, structural study of extracytoplasmic nickel-binding proteins

Procédé de fabrication de Gaz Naturel de Synthèse par couplage d'une méthanation avec une électrolyse de vapeur d'eau à haute température

XACT, a long non-coding transcript coating the active X chromosome in human pluripotent cells

New developments in KisSplice: Combining local and global transcriptome assemblers to decipher splicing in RNA-seq data

Endosymbiosis in trypanosomatids: the genomic cooperation between bacterium and host in the synthesis of essential amino acids is heavily influenced by multiple horizontal gene transfers

Biosynthesis of vitamins and cofactors in bacterium-harbouring trypanosomatids depends on the symbiotic association as revealed by genomic analyses

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

Experimental assessment of the accuracy of genomic selection in sugarcane

Egyptian mummies record increasing aridity in the Nile valley from 5500 to 1500yr before present

Phylogenies of Central Element Proteins Reveal the Dynamic Evolutionary History of the Mammalian Synaptonemal Complex: Ancient and Recent Components

LUCA, ancêtre de tous les êtres vivants

Classification of bacterial replicons based on the Genetic Information Transmission Systems

Cellular Source and Mechanisms of High Transcriptome Complexity in the Mammalian Testis

Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26.

Phylogenetic Patterns of GC-Biased Gene Conversion in Placental Mammals and the Evolutionary Dynamics of Recombination Landscapes

An Experimentally Tested Scenario for the Structural Evolution of Eukaryotic Cys2His2 Zinc Fingers from Eubacterial Ros Homologs

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

Short and long-term genome stability analysis of prokaryotic genomes

TPMS: a set of utilities for querying collections of gene trees.

Mechanisms and Evolutionary Patterns of Mammalian and Avian Dosage Compensation

Different kinds of genetic markers permit inference of Paleolithic and Neolithic expansions in humans

Geographical delimitation of a partial selective sweep in African \textitDrosophila melanogaster

The genetic prehistory of southern Africa

Bridging Near and Remote Oceania: mtDNA and NRY Variation in the Solomon Islands

Bringing together linguistic and genetic evidence to test the Bantu expansion

The endogenous retrovirus ENS-1 provides active binding sites for transcription factors in embryonic stem cells that specify extra embryonic tissue

Revisiting an Old Riddle: What Determines Genetic Diversity Levels within Species?