C. Médigue

发表

Detection of new genes in a bacterial genome using Markov models for three gene classes.

M. Borodovsky, J. McIninch, E. Koonin, 1995, Nucleic acids research.

Comparative Analysis of Acinetobacters: Three Genomes for Three Lifestyles

J. Poulain, J. Weissenbach, C. Médigue, 2008, PloS one.

Mutation rate dynamics in a bacterial population reflect tension between adaptation and genetic load

Michael J. Wiser, Jeffrey E. Barrick, R. Lenski, 2012, Proceedings of the National Academy of Sciences.

Advances in environmental genomics: towards an integrated view of micro-organisms and ecosystems.

C. Médigue, P. Bertin, P. Normand, 2008, Microbiology.

A horizontally acquired filamentous phage contributes to the pathogenicity of the plague bacillus

M. Prevost, C. Médigue, B. J. Hinnebusch, 2007, Molecular microbiology.

MaGe: a microbial genome annotation system supported by synteny results

C. Médigue, V. Barbe, C. Scarpelli, 2006, Nucleic acids research.

MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis

C. Médigue, D. Vallenet, Z. Rouy, 2019, Nucleic Acids Res..

The complete genome sequence of the Gram-positive bacterium Bacillus subtilis

A. Goffeau, D. Noone, B. Purnelle, 1997, Nature.

Coping with cold: the genome of the versatile marine Antarctica bacterium Pseudoalteromonas haloplanktis TAC125.

A. Danchin, E. Rocha, G. von Heijne, 2005, Genome research.

The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis.

Ruben G. A. van Heck, A. Danchin, V. de Lorenzo, 2016, Environmental microbiology.

From a consortium sequence to a unified sequence: the Bacillus subtilis 168 reference genome a decade later

A. Danchin, C. Médigue, V. Barbe, 2009, Microbiology.

The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens

A. Danchin, C. Médigue, C. Buchrieser, 2003, Nature Biotechnology.

Evidence for horizontal gene transfer in Escherichia coli speciation.

A. Danchin, C. Médigue, A. Hénaut, 1991, Journal of molecular biology.

Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths

A. Danchin, M. Touchon, E. Rocha, 2009, PLoS genetics.

Revealing the hidden functional diversity of an enzyme family.

J. Weissenbach, C. Médigue, F. Artiguenave, 2014, Nature chemical biology.

Profiling the orphan enzymes

C. Médigue, D. Vallenet, M. Stam, 2014, Biology Direct.

Genome analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of the etiologic agent of tuberculosis

E. Willery, C. Locht, J. Tap, 2013, Nature Genetics.

Ancestral state reconstruction of metabolic pathways across pangenome ensembles

C. Ouzounis, C. Médigue, J. van Helden, 2020, Microbial genomics.

Re-annotation of the genome sequence of Mycobacterium tuberculosis H37Rv.

Claudine Médigue, C. Médigue, S. Cole, 2002, Microbiology.

Complete genome of the cellulolytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evolutionary adaptations.

Alla Lapidus, Rebecca E Parales, Claudine Médigue, 2009, Genome research.

Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis.

C. Médigue, J. Lamerdin, F. Larimer, 2004, Proceedings of the National Academy of Sciences of the United States of America.

Accurate Microbial Genome Annotation Using an Integrated and User-Friendly Environment for Community Expertise of Gene Functions: The MicroScope Platform

Eugeni Belda, Claudine Médigue, David Vallenet, 2015 .

An updated metabolic view of the Bacillus subtilis 168 genome.

Anne Morgat, Antoine Danchin, Eugeni Belda, 2013, Microbiology.

Complete Genome Sequence of Crohn's Disease-Associated Adherent-Invasive E. coli Strain LF82

Eric Peyretaillade, Pierre Peyret, Richard Bonnet, 2010, PloS one.

“Candidatus Cloacamonas Acidaminovorans”: Genome Sequence Reconstruction Provides a First Glimpse of a New Bacterial Division

Georges N. Cohen, Eric Pelletier, Annett Kreimeyer, 2008, Journal of bacteriology.

Sequencing of K60, Type Strain of the Major Plant Pathogen Ralstonia solanacearum

C. Médigue, C. Allen, Aurélie Lajus, 2012, Journal of bacteriology.

Mutation Rate Inferred From Synonymous Substitutions in a Long-Term Evolution Experiment With Escherichia coli

Richard E. Lenski, Dominique Schneider, Claudine Médigue, 2011, G3: Genes | Genomes | Genetics.

Detecting and analyzing DNA sequencing errors: toward a higher quality of the Bacillus subtilis genome sequence.

A Danchin, A. Danchin, C. Médigue, 1999, Genome research.

Identification of the Last Unknown Genes in the Fermentation Pathway of Lysine*

Claudine Médigue, Marcel Salanoubat, David Vallenet, 2007, Journal of Biological Chemistry.

A Tale of Two Oxidation States: Bacterial Colonization of Arsenic-Rich Environments

J. Weissenbach, A. Danchin, C. Médigue, 2007, PLoS genetics.

Enhanced structural and functional genome elucidation of the arsenite-oxidizing strain Herminiimonas arsenicoxydans by proteomics data.

C. Médigue, Stéphanie Weiss, J. Coppee, 2009, Biochimie.

Units of plasticity in bacterial genomes: new insight from the comparative genomics of two bacteria interacting with invertebrates, Photorhabdus and Xenorhabdus

Claudine Médigue, Alexandra Calteau, Zoé Rouy, 2010, BMC Genomics.

Epistasis and Allele Specificity in the Emergence of a Stable Polymorphism in Escherichia coli

Richard E. Lenski, Dominique Schneider, Claudine Médigue, 2014, Science.

Comparative analysis of the complete genome of KPC-2-producing Klebsiella pneumoniae Kp13 reveals remarkable genome plasticity and a wide repertoire of virulence and resistance mechanisms

Ana Tereza Ribeiro de Vasconcelos, A. T. Vasconcelos, Claudine Médigue, 2014, BMC Genomics.

Exploring the Penicillium marneffei genome

James J. Cai, P. Woo, C. Médigue, 2003, Archives of Microbiology.

Persistent biases in the amino acid composition of prokaryotic proteins.

A. Danchin, C. Médigue, G. Pascal, 2006, BioEssays : news and reviews in molecular, cellular and developmental biology.

Universal biases in protein composition of model prokaryotes

Antoine Danchin, Claudine Médigue, Géraldine Pascal, 2005, Proteins.

Comparative Genomics between Two Xenorhabdus bovienii Strains Highlights Differential Evolutionary Scenarios within an Entomopathogenic Bacterial Species

C. Médigue, Z. Rouy, A. Givaudan, 2016, Genome biology and evolution.

Large Chromosomal Rearrangements during a Long-Term Evolution Experiment with Escherichia coli

Jeffrey E. Barrick, Daniel E. Deatherage, R. Lenski, 2014, mBio.

Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography.

Eugene Goltsman, Alla Lapidus, Pascal Lapierre, 2006, Genome research.

Contrasting effects of historical contingency on phenotypic and genomic trajectories during a two-step evolution experiment with bacteria

D. Schneider, C. Médigue, S. Cruveiller, 2016, BMC Evolutionary Biology.

Transcriptome analysis of Yersinia pestis in human plasma: an approach for discovering bacterial genes involved in septicaemic plague.

C. Médigue, J. Coppee, C. Lacroix, 2007, Microbiology.

Extended-spectrum β-lactamase-encoding genes are spreading on a wide range of Escherichia coli plasmids existing prior to the use of third-generation cephalosporins

C. Médigue, O. Tenaillon, E. Denamur, 2018, Microbial genomics.

Extensive recombination events and horizontal gene transfer shaped the Legionella pneumophila genomes

C. Médigue, C. Buchrieser, V. Barbe, 2011, BMC Genomics.

A Genomic Island of the Pathogen Leptospira interrogans Serovar Lai Can Excise from Its Chromosome

C. Médigue, Aurélie Lajus, M. Picardeau, 2006, Infection and Immunity.

The Complete Genome Sequence of Cupriavidus metallidurans Strain CH34, a Master Survivalist in Harsh and Anthropogenic Environments

C. Médigue, M. Mergeay, A. Lapidus, 2010, PloS one.

NeMeSys: a biological resource for narrowing the gap between sequence and function in the human pathogen Neisseria meningitidis

Carmen Buchrieser, Philippe Glaser, Christophe Rusniok, 2009, Genome Biology.

The Odyssey of the Ancestral Escherich Strain through Culture Collections: an Example of Allopatric Diversification

C. Médigue, E. Denamur, K. Bastard, 2018, mSphere.

Genome sequence of Vibrio splendidus: an abundant planctonic marine species with a large genotypic diversity.

C. Médigue, C. Buchrieser, D. Mazel, 2009, Environmental microbiology.

The chimeric nature of the genomes of marine magnetotactic coccoid‐ovoid bacteria defines a novel group of Proteobacteria

C. Médigue, B. Henrissat, V. Barbe, 2017, Environmental microbiology.

Frankia alni proteome under nitrogen‐fixing and nitrogen‐replete conditions

C. Médigue, D. Vallenet, P. Normand, 2007 .

Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis.

J. Weissenbach, A. Danchin, C. Médigue, 2017, Nature chemical biology.

Re-annotation of the genome sequence of Clostridium difficile strain 630 1

C. Médigue, D. Vallenet, I. Martin-Verstraete, 2019 .

Reannotation of the genome sequence of Clostridium difficile strain 630.

C. Médigue, D. Vallenet, I. Moszer, 2011, Journal of medical microbiology.

Specialization of small non-conjugative plasmids in Escherichia coli according to their family types

C. Médigue, E. Denamur, V. Barbe, 2019, Microbial genomics.

Annotating bacterial genomes

A. Danchin, C. Médigue, 2008 .

Synonymous Genetic Variation in Natural Isolates of Escherichia coli Does Not Predict Where Synonymous Substitutions Occur in a Long-Term Experiment

Jeffrey E. Barrick, R. Lenski, J. Barrick, 2015, Molecular biology and evolution.

Comparative genomics of the core and accessory genomes of 48 Sinorhizobium strains comprising five genospecies

C. Médigue, N. Young, G. May, 2013, Genome Biology.

The Genome Sequence of the Cyanobacterium Oscillatoria sp. PCC 6506 Reveals Several Gene Clusters Responsible for the Biosynthesis of Toxins and Secondary Metabolites

C. Médigue, Alexandra Calteau, A. Méjean, 2010, Journal of bacteriology.

Delineation and Analysis of Chromosomal Regions Specifying Yersinia pestis

C. Médigue, B. J. Hinnebusch, C. Huon, 2010, Infection and Immunity.

Delineation and analysis of chromosomal regions 1

C. Médigue, B. J. Hinnebusch, C. Huon, 2010 .

Delineation and analysis of chromosomal regions 1 specifying Yersinia pestis 2 3

C. Médigue, B. J. Hinnebusch, C. Huon, 2010 .

Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis

E. Willery, C. Locht, J. Tap, 2020 .

Strains of the Genus Methylobacterium Complete Genome Sequences of Six

C. Médigue, N. Kyrpides, N. Ivanova, 2012 .

A New O-Antigen Gene Cluster Has a Key Role in the Virulence of the Escherichia coli Meningitis Clone O45:K1:H7

C. Médigue, E. Denamur, V. Barbe, 2007, Journal of bacteriology.

The Frankia alni symbiotic transcriptome.

C. Médigue, D. Vallenet, P. Normand, 2010, Molecular plant-microbe interactions : MPMI.

A Module Located at a Chromosomal Integration Hot Spot Is Responsible for the Multidrug Resistance of a Reference Strain from Escherichia coli Clonal Group A

M. Touchon, E. Rocha, C. Médigue, 2009, Antimicrobial Agents and Chemotherapy.

Genome Sequence of the Saprophyte Leptospira biflexa Provides Insights into the Evolution of Leptospira and the Pathogenesis of Leptospirosis

C. Médigue, R. Coppel, A. McGrath, 2008, PloS one.

Comparative and Functional Genomic Analyses of Iron Transport and Regulation in Leptospira spp

C. Médigue, M. Picardeau, C. Bouchier, 2006, Journal of bacteriology.

Comparative Genomics of Aeschynomene Symbionts: Insights into the Ecological Lifestyle of Nod-Independent Photosynthetic Bradyrhizobia

C. Médigue, D. Vallenet, A. Verméglio, 2011, Genes.

Comparative and Functional Genomic Analyses of Iron Transport and Regulation in Leptospira spp. (cid:1) †

C. Médigue, M. Picardeau, C. Bouchier, 2006 .

Comparative analyses of Legionella species identifies genetic features of strains causing Legionnaires’ disease

Nicola K. Petty, Robert J. Moore, C. Médigue, 2014, Genome Biology.

Ralstonia syzygii, the Blood Disease Bacterium and Some Asian R. solanacearum Strains Form a Single Genomic Species Despite Divergent Lifestyles

C. Médigue, V. Barbe, S. Mangenot, 2011, PloS one.

PlaScope: a targeted approach to assess the plasmidome from genome assemblies at the species level

C. Médigue, E. Denamur, D. Vallenet, 2018, Microbial genomics.

PlaScope: a targeted approach to assess the plasmidome of Escherichia coli strains

C. Médigue, E. Denamur, D. Vallenet, 2018, bioRxiv.

comparative genomics of rhizobia and Cupriavidus taiwanensis-rhizobium β Genome sequence of the Material Supplemental

C. Médigue, B. Servin, V. Barbe, 2008 .

Expansion of the SOS regulon of Vibrio cholerae through extensive transcriptome analysis and experimental validation

C. Médigue, E. Krin, J. Coppee, 2018, BMC Genomics.

solanacearumPlant Pathogen Ralstonia Sequencing of K60, Type Strain of the

C. Médigue, C. Allen, Aurélie Lajus, 2012 .

16S rRNA and As-Related Functional Diversity: Contrasting Fingerprints in Arsenic-Rich Sediments from an Acid Mine Drainage

D. Paslier, J. Weissenbach, C. Médigue, 2015, Microbial Ecology.

Genome Sequence of the Sulfate-Reducing Bacterium Desulfotomaculum hydrothermale Lam5T

C. Médigue, P. Bertin, V. Barbe, 2013, Genome Announcements.

Genomes of three tomato pathogens within the Ralstonia solanacearum species complex reveal significant evolutionary divergence

Claudine Médigue, Alexandra Calteau, Olivier Pruvost, 2010, BMC Genomics.

The Plasmid of Escherichia coli Strain S88 (O45:K1:H7) That Causes Neonatal Meningitis Is Closely Related to Avian Pathogenic E. coli Plasmids and Is Associated with High-Level Bacteremia in a Neonatal Rat Meningitis Model

C. Médigue, E. Denamur, V. Barbe, 2009, Infection and Immunity.

MicroScope: a platform for microbial genome annotation and comparative genomics

Stefan Engelen, David Roche, Claudine Médigue, 2009, Database J. Biol. Databases Curation.

Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria

C. Médigue, D. Vallenet, G. Michel, 2017, Nature Communications.

The Entomopathogenic Bacterial Endosymbionts Xenorhabdus and Photorhabdus: Convergent Lifestyles from Divergent Genomes

Roy D. Welch, John M. Chaston, C. Médigue, 2011, PloS one.

Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria

C. Médigue, D. Vallenet, G. Michel, 2017, Nature Communications.

MicroScope—an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data

Stefan Engelen, Eugeni Belda, David Roche, 2012, Nucleic Acids Res..

NetSyn: genomic context exploration of protein families

C. Médigue, K. Bastard, D. Vallenet, 2023, bioRxiv.

MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes

Alexandre Renaux, David Roche, Claudine Médigue, 2016, Nucleic Acids Res..

The Arginine Deiminase Operon Is Responsible for a Fitness Trade-Off in Extended-Spectrum-β-Lactamase-Producing Strains of Escherichia coli

C. Médigue, E. Denamur, V. Barbe, 2019, Antimicrobial Agents and Chemotherapy.

Complete genome sequence of the entomopathogenic and metabolically versatile soil bacterium Pseudomonas entomophila

J. Weissenbach, C. Médigue, C. Jubin, 2006, Nature Biotechnology.

Genome sequence of the beta-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia.

Sébastien Carrère, Bertrand Servin, Claudine Médigue, 2008, Genome research.

Legumes Symbioses: Absence of Nod Genes in Photosynthetic Bradyrhizobia

Gary Stacey, Eric Giraud, Claudine Médigue, 2007, Science.

Parallel Evolution of a Type IV Secretion System in Radiating Lineages of the Host-Restricted Bacterial Pathogen Bartonella

Stephan C. Schuster, Philipp Engel, Christoph Dehio, 2011, PLoS genetics.

Complete Genome Sequence of Bacillus methylotrophicus Strain B25, a Potential Plant Growth-Promoting Rhizobacterium

C. Médigue, A. Lemainque, D. Vallenet, 2016, Genome Announcements.

Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium.

Patrick Wincker, Philippe Marlière, Claudine Médigue, 2004, Nucleic acids research.

Analysis of a Bacillus subtilis genome fragment using a co-operative computer system prototype.

A Danchin, A. Danchin, C. Médigue, 1995, Gene.

Structure, Function, and Evolution of the Thiomonas spp. Genome

Philippe Ortet, Céline Brochier-Armanet, Patricia Siguier, 2010, PLoS genetics.

Attenuated Virulence and Genomic Reductive Evolution in the Entomopathogenic Bacterial Symbiont Species, Xenorhabdus poinarii

C. Médigue, Z. Rouy, H. Chiapello, 2014, Genome biology and evolution.

Candidatus Frankia Datiscae Dg1, the Actinobacterial Microsymbiont of Datisca glomerata, Expresses the Canonical nod Genes nodABC in Symbiosis with Its Host Plant

M. Facciotti, C. Médigue, Elizabeth G. Wilbanks, 2015, PloS one.

Vibrio tapetis Displays an Original Type IV Secretion System in Strains Pathogenic for Bivalve Molluscs

C. Médigue, V. Barbe, L. Orlando, 2018, Front. Microbiol..

Deciphering the evolution and metabolism of an anammox bacterium from a community genome

Dmitrij Frishman, Markus Schmid, Bas E. Dutilh, 2006, Nature.

A new network representation of the metabolism to detect chemical transformation modules

C. Médigue, D. Vallenet, Maria Sorokina, 2015, BMC Bioinformatics.

Genome Sequence of Blastococcus saxobsidens DD2, a Stone-Inhabiting Bacterium

C. Médigue, D. Daffonchio, V. Barbe, 2012, Journal of bacteriology.

Genome Sequence of the Obligate Methanotroph Methylosinus trichosporium Strain OB3b

Lynne A. Goodwin, C. Médigue, S. Lucas, 2010, Journal of bacteriology.

Core and Panmetabolism in Escherichia coli

Maxime Durot, David Vallenet, Gilles Vieira, 2011, Journal of bacteriology.

panRGP: a pangenome-based method to predict genomic islands and explore their diversity

Claudine Médigue, Guillaume Gautreau, Adelme Bazin, 2020, bioRxiv.

PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph

Christophe Ambroise, Catherine Matias, Eduardo P. C. Rocha, 2019, bioRxiv.

A Tribute to Disorder in the Genome of the Bloom-Forming Freshwater Cyanobacterium Microcystis aeruginosa

Alexandra Calteau, Claudine Medigue, Aurélie Lajus, 2013, PloS one.

Bacillus subtilis, the model Gram‐positive bacterium: 20 years of annotation refinement

Antoine Danchin, Colin R. Harwood, Claudine Médigue, 2017, Microbial biotechnology.

Genomic, proteomic, and transcriptomic analysis of virulent and avirulent Rickettsia prowazekii reveals its adaptive mutation capabilities.

C. Médigue, C. Robert, D. Raoult, 2010, Genome research.

Tempo and mode of genome evolution in a 50,000-generation experiment

Richard E. Lenski, Dominique Schneider, Claudine Médigue, 2016, Nature.

Genome Sequence of the Haloalkaliphilic Methanotrophic Bacterium Methylomicrobium alcaliphilum 20Z

C. Médigue, V. Barbe, S. Vuilleumier, 2012, Journal of bacteriology.

Methylobacterium Genome Sequences: A Reference Blueprint to Investigate Microbial Metabolism of C1 Compounds from Natural and Industrial Sources

Eric Haugen, Marco Pagni, Claudine Médigue, 2009, PloS one.

Evolutionary history and genetic parallelism affect correlated responses to evolution

D. Schneider, C. Médigue, T. Cooper, 2013, Molecular ecology.

AMIGene: Annotation of MIcrobial Genes

Grégory Nuel, Claudine Médigue, Stéphanie Bocs, 2003, Nucleic Acids Res..

Experimental evolution of nodule intracellular infection in legume symbionts

C. Médigue, S. Cruveiller, D. Capela, 2013, The ISME Journal.

Experimental Evolution of a Plant Pathogen into a Legume Symbiont

C. Médigue, S. Cruveiller, D. Capela, 2010, PLoS biology.

MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes

Claudine Médigue, Stéphanie Bocs, David Vallenet, 2005, Nucleic Acids Res..

RNase J depletion leads to massive changes in mRNA abundance in Helicobacter pylori

C. Médigue, J. Coppee, S. Cruveiller, 2016, RNA biology.

Complete genome sequence of Crohn ’ s disease-associated adherent-invasive E . coli strain LF 82 .

C. Médigue, V. Barbe, C. Dossat, 2019 .

Annotation, comparison and databases for hundreds of bacterial genomes.

Claudine Médigue, C. Médigue, I. Moszer, 2007, Research in microbiology.

A complete collection of single-gene deletion mutants of Acinetobacter baylyi ADP1

Vincent Schächter, Maxime Durot, Philippe Marlière, 2008, Molecular systems biology.

Re-annotation of genome microbial CoDing-Sequences: finding new genes and inaccurately annotated genes

Antoine Danchin, Claudine Médigue, Stéphanie Bocs, 2002, BMC Bioinformatics.

Mapping of sequenced genes (700 kbp) in the restriction map of the Escherichia coli chromosome

A. Danchin, C. Médigue, A. Hénaut, 1990, Molecular microbiology.

Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC

A. Danchin, C. Médigue, D. Vallenet, 2012, BMC Genomics.

Colibri: a functional data base for the Escherichia coli genome.

A Danchin, A. Danchin, C. Médigue, 1993, Microbiological reviews.

Cooperative Computer System For Genome Sequence Analysis

Gilles Bisson, Alain Viari, Antoine Danchin, 1995, ISMB.

Imagene: an integrated computer environment for sequence annotation and analysis

Alain Viari, Antoine Danchin, François Rechenmann, 1999, Bioinform..

Complete genome of the cellyloytic thermophile Acidothermus cellulolyticus 11B provides insights into its ecophysiological and evloutionary adaptations

C. Médigue, C. Detter, A. Lapidus, 2009 .

Complete Genome Sequence of the Chloromethane-Degrading Hyphomicrobium sp. Strain MC1

C. Médigue, V. Barbe, S. Vuilleumier, 2011, Journal of bacteriology.

Draft Genome Sequence of Carnobacterium divergens V41, a Bacteriocin-Producing Strain

C. Médigue, Aurélie Lajus, M. Zagorec, 2016, Genome Announcements.

Exploring the genomes of Frankia

C. Médigue, L. Tisa, S. Cruveiller, 2007 .

From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma

F. Mégraud, C. Médigue, J. Coppee, 2010, BMC Genomics.

panModule: detecting conserved modules in the variable regions of a pangenome graph

C. Médigue, D. Vallenet, Alexandra Calteau, 2021, bioRxiv.

Genome Features of the Endophytic Actinobacterium Micromonospora lupini Strain Lupac 08: On the Process of Adaptation to an Endophytic Life Style?

C. Médigue, P. Normand, Rodrigo Bacigalupe, 2014, PloS one.

Characterization of a P1-Like Bacteriophage Carrying an SHV-2 Extended-Spectrum β-Lactamase from an Escherichia coli Strain

C. Médigue, E. Denamur, V. Barbe, 2014, Antimicrobial Agents and Chemotherapy.

Small variable segments constitute a major type of diversity of bacterial genomes at the species level

Claudine Médigue, Marie-Agnès Petit, Meriem El Karoui, 2010, Genome Biology.

ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis

Y. Hérault, T. Sorg, C. Médigue, 2021, Scientific Data.

Comparative genomic analysis provides insights into the evolution and niche adaptation of marine Magnetospira sp. QH-2 strain.

C. Médigue, Y. Li, B. Henrissat, 2014, Environmental microbiology.

MicroScope—an integrated resource for community expertise of gene functions and comparative analysis of microbial genomic and metabolic data

David Roche, Claudine Médigue, Guillaume Gautreau, 2017, Briefings Bioinform..

GROOLS: reactive graph reasoning for genome annotation through biological processes

Claudine Médigue, David Vallenet, Jonathan Mercier, 2018, BMC Bioinformatics.

Draft Genome Sequence of the Volcano-Inhabiting Thermoacidophilic Methanotroph Methylacidiphilum fumariolicum Strain SolV

C. Médigue, H. Stunnenberg, S. Vuilleumier, 2012, Journal of bacteriology.

TbD1 deletion as a driver of the evolutionary success of modern epidemic Mycobacterium tuberculosis lineages

C. Médigue, V. Barbe, S. Mangenot, 2020, Nature Communications.

Building Large Knowledge Bases in Molecular Biology

Guy Perrière, Olivier Schmeltzer, François Rechenmann, 1993, ISMB.

A model industrial workhorse: Bacillus subtilis strain 168 and its genome after a quarter of a century

A. Danchin, C. Médigue, C. Harwood, 2023, Microbial biotechnology.

Genome Sequence of Radiation-Resistant Modestobacter marinus Strain BC501, a Representative Actinobacterium That Thrives on Calcareous Stone Surfaces

Claudine Médigue, Philippe Normand, Alexandra Calteau, 2012, Journal of bacteriology.

Comparative genomics of pathogenic lineages of Vibrio nigripulchritudo identifies virulence-associated traits

C. Médigue, E. Krin, S. Mangenot, 2013, The ISME Journal.

Life in an Arsenic-Containing Gold Mine: Genome and Physiology of the Autotrophic Arsenite-Oxidizing Bacterium Rhizobium sp. NT-26

C. Médigue, F. Plewniak, J. Coppee, 2013, Genome biology and evolution.

Metabolic diversity among main microorganisms inside an arsenic-rich ecosystem revealed by meta- and proteo-genomics

D. Paslier, J. Weissenbach, C. Médigue, 2011, The ISME Journal.

Complete Genome Sequences of Six Strains of the Genus Methylobacterium

Matt Nolan, Miriam L. Land, Nikos Kyrpides, 2012, Journal of bacteriology.

Growth of Yersinia pseudotuberculosis in human plasma: impacts on virulence and metabolic gene expression

C. Médigue, J. Coppee, C. Lacroix, 2008, BMC Microbiology.

From data banks to data bases.

A. Danchin, O. Gascuel, C. Médigue, 1991, Research in microbiology.

Genome Sequence of the Arctic Methanotroph Methylobacter tundripaludum SV96

Natalia N. Ivanova, A. Spang, C. Médigue, 2011, Journal of bacteriology.

Expansion of the SOS regulon of Vibrio cholerae through extensive transcriptome analysis and experimental validation

C. Médigue, E. Krin, J. Coppee, 2018, BMC Genomics.

Genome Sequence of the Methanotrophic Alphaproteobacterium Methylocystis sp. Strain Rockwell (ATCC 49242)

C. Médigue, S. Lucas, A. Lapidus, 2011, Journal of bacteriology.

Genomic and physiological analysis reveals versatile metabolic capacity of deep-sea Photobacterium phosphoreum ANT-2200

C. Médigue, V. Barbe, S. Mangenot, 2016, Extremophiles.

The CanOE Strategy: Integrating Genomic and Metabolic Contexts across Multiple Prokaryote Genomes to Find Candidate Genes for Orphan Enzymes

Alain Viari, Eugeni Belda, Claudine Médigue, 2012, PLoS Comput. Biol..

Complete Nucleotide Sequence of Plasmid pTN48, Encoding the CTX-M-14 Extended-Spectrum β-Lactamase from an Escherichia coli O102-ST405 Strain

C. Médigue, O. Tenaillon, E. Denamur, 2010, Antimicrobial Agents and Chemotherapy.

Genome Sequence of Methyloversatilis universalisFAM5T, a Methylotrophic Representative of the Order Rhodocyclales

Roger E Bumgarner, C. Médigue, S. Vuilleumier, 2011, Journal of bacteriology.

panRGP: a pangenome-based method to predict genomic islands and explore their diversity.

C. Médigue, D. Vallenet, Alexandra Calteau, 2020, Bioinformatics.

GROOLS: reactive graph reasoning for genome annotation through biological processes

C. Médigue, D. Vallenet, Jonathan Mercier, 2017, bioRxiv.

Extended-spectrum β-lactamase-encoding genes are spreading on a wide range of Escherichia coli plasmids existing prior to the use of third-generation cephalosporins

C. Médigue, O. Tenaillon, E. Denamur, 2018, Microbial genomics.

Escherichia coli molecular genetic map (1500 kbp): update II

A. Danchin, C. Médigue, A. Hénaut, 1990, Molecular microbiology.

Genome sequence of the beta-rhizobium Cupriavidus taiwanensis and comparative genomics of rhizobia.

C. Médigue, B. Servin, V. Barbe, 2008, Genome research.

Genomes of three facultatively symbiotic Frankia sp. strains reflect host plant biogeography

C. Médigue, D. Bickhart, L. Tisa, 2006 .

Complete Nucleotide Sequence of Plasmid pTN48, Encoding the CTX-M-14 Extended-Spectrum (cid:1) -Lactamase from an Escherichia coli O102-ST405 Strain (cid:1)

Hervé Le Nagard, C. Médigue, O. Tenaillon, 2011 .

strains reflect host range and host plant biogeography sp. Frankia Genome characteristics of facultatively symbiotic

C. Médigue, D. Bickhart, L. Tisa, 2007 .

The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis.

Ruben G. A. van Heck, A. Danchin, V. de Lorenzo, 2016, Environmental microbiology.

Escherichia coli molecular genetic map (1000 kbp): update I.

A. Danchin, C. Médigue, A. Hénaut, 1990, Molecular microbiology.

Complete Genome Sequence of Rickettsia slovaca, the Agent of Tick-Borne Lymphadenitis

C. Médigue, C. Robert, P. Fournier, 2012, Journal of Bacteriology.

A new network representation of the metabolism to detect chemical transformation modules

Claudine Médigue, David Vallenet, Maria Sorokina, 2015, BMC Bioinformatics.

Sequencing of K60, Type Strain of the Major Plant Pathogen Ralstonia solanacearum

C. Médigue, C. Allen, Aurélie Lajus, 2012, Journal of bacteriology.

Genomes of three tomato pathogens within the Ralstonia solanacearum species complex reveal significant evolutionary divergence

C. Médigue, V. Barbe, S. Mangenot, 2010, BMC Genomics.