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Monteil, Caroline L; Perrière, Guy; Menguy, Nicolas; Ginet, Nicolas; Alonso, Béatrice; Waisbord, Nicolas; Cruveiller, Stéphane; Pignol, David; Lefèvre, Christopher T
Genomic study of a novel magnetotactic Alphaproteobacteria uncovers the multiple ancestry of magnetotaxis Journal Article
In: Environmental microbiology, vol. 20, no. 12, pp. 4415–4430, 2018.
@article{monteil2018genomic,
title = {Genomic study of a novel magnetotactic Alphaproteobacteria uncovers the multiple ancestry of magnetotaxis},
author = {Caroline L Monteil and Guy Perrière and Nicolas Menguy and Nicolas Ginet and Béatrice Alonso and Nicolas Waisbord and Stéphane Cruveiller and David Pignol and Christopher T Lefèvre},
year = {2018},
date = {2018-01-01},
journal = {Environmental microbiology},
volume = {20},
number = {12},
pages = {4415–4430},
publisher = {John Wiley & Sons, Inc. Hoboken, USA},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2017
Tran, Tam TT; Mangenot, Sophie; Magdelenat, Ghislaine; Payen, Emilie; Rouy, Zoe; Belahbib, Hassiba; Grail, Barry M; Johnson, D Barrie; Bonnefoy, Violaine; Talla, Emmanuel
Comparative Genome Analysis Provides Insights into Both the Lifestyle of Acidithiobacillus ferrivorans Strain CF27 and the Chimeric Nature of the Iron-Oxidizing Acidithiobacilli Genomes Journal Article
In: Frontiers in microbiology, vol. 8, pp. 1009, 2017.
@article{tran2017comparative,
title = {Comparative Genome Analysis Provides Insights into Both the Lifestyle of Acidithiobacillus ferrivorans Strain CF27 and the Chimeric Nature of the Iron-Oxidizing Acidithiobacilli Genomes},
author = {Tam TT Tran and Sophie Mangenot and Ghislaine Magdelenat and Emilie Payen and Zoe Rouy and Hassiba Belahbib and Barry M Grail and D Barrie Johnson and Violaine Bonnefoy and Emmanuel Talla},
year = {2017},
date = {2017-01-01},
journal = {Frontiers in microbiology},
volume = {8},
pages = {1009},
publisher = {Frontiers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pancrace, Claire; Gugger, Muriel; Calteau, Alexandra
Genomics of NRPS/PKS Biosynthetic Gene Clusters in Cyanobacteria Journal Article
In: Cyanobacteria: Omics and Manipulation. CAISTER ACADEMIC PRESS, vol. 32, pp. 55–74, 2017.
@article{pancrace2017genomics,
title = {Genomics of NRPS/PKS Biosynthetic Gene Clusters in Cyanobacteria},
author = {Claire Pancrace and Muriel Gugger and Alexandra Calteau},
year = {2017},
date = {2017-01-01},
journal = {Cyanobacteria: Omics and Manipulation. CAISTER ACADEMIC PRESS},
volume = {32},
pages = {55–74},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Rochat, Tatiana; Fujiwara-Nagata, Erina; Calvez, Ségolène; Dalsgaard, Inger; Madsen, Lone; Calteau, Alexandra; Lunazzi, Aurélie; Nicolas, Pierre; Wiklund, Tom; Bernardet, Jean-François; others,
Genomic characterization of Flavobacterium psychrophilum serotypes and development of a multiplex PCR-based serotyping scheme Journal Article
In: Frontiers in Microbiology, vol. 8, pp. 1752, 2017.
@article{rochat2017genomic,
title = {Genomic characterization of Flavobacterium psychrophilum serotypes and development of a multiplex PCR-based serotyping scheme},
author = {Tatiana Rochat and Erina Fujiwara-Nagata and Ségolène Calvez and Inger Dalsgaard and Lone Madsen and Alexandra Calteau and Aurélie Lunazzi and Pierre Nicolas and Tom Wiklund and Jean-François Bernardet and others},
year = {2017},
date = {2017-01-01},
journal = {Frontiers in Microbiology},
volume = {8},
pages = {1752},
publisher = {Frontiers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Capela, Delphine; Marchetti, Marta; Clérissi, Camille; Perrier, Anthony; Guetta, Dorian; Gris, Carine; Valls, Marc; Jauneau, Alain; Cruveiller, Stéphane; Rocha, Eduardo PC; others,
Recruitment of a lineage-specific virulence regulatory pathway promotes intracellular infection by a plant pathogen experimentally evolved into a legume symbiont Journal Article
In: Molecular biology and evolution, vol. 34, no. 10, pp. 2503–2521, 2017.
@article{capela2017recruitment,
title = {Recruitment of a lineage-specific virulence regulatory pathway promotes intracellular infection by a plant pathogen experimentally evolved into a legume symbiont},
author = {Delphine Capela and Marta Marchetti and Camille Clérissi and Anthony Perrier and Dorian Guetta and Carine Gris and Marc Valls and Alain Jauneau and Stéphane Cruveiller and Eduardo PC Rocha and others},
year = {2017},
date = {2017-01-01},
journal = {Molecular biology and evolution},
volume = {34},
number = {10},
pages = {2503–2521},
publisher = {Oxford University Press},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Lassalle, Florent; Planel, Rémi; Penel, Simon; Chapulliot, David; Barbe, Valérie; Dubost, Audrey; Calteau, Alexandra; Vallenet, David; Mornico, Damien; Bigot, Thomas; others,
Ancestral Genome Estimation Reveals the History of Ecological Diversification in Agrobacterium Journal Article
In: Genome biology and evolution, vol. 9, no. 12, pp. 3413–3431, 2017.
@article{lassalle2017ancestral,
title = {Ancestral Genome Estimation Reveals the History of Ecological Diversification in Agrobacterium},
author = {Florent Lassalle and Rémi Planel and Simon Penel and David Chapulliot and Valérie Barbe and Audrey Dubost and Alexandra Calteau and David Vallenet and Damien Mornico and Thomas Bigot and others},
year = {2017},
date = {2017-01-01},
journal = {Genome biology and evolution},
volume = {9},
number = {12},
pages = {3413–3431},
publisher = {Oxford University Press},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Mouammine, Annabelle; Pages, Sylvie; Lanois, Anne; Gaudriault, Sophie; Jubelin, Gregory; Bonabaud, Maurine; Cruveiller, Stéphane; Dubois, Emeric; Roche, David; Legrand, Ludovic; others,
An antimicrobial peptide-resistant minor subpopulation of Photorhabdus luminescens is responsible for virulence Journal Article
In: Scientific reports, vol. 7, no. 1, pp. 1–13, 2017.
@article{mouammine2017antimicrobial,
title = {An antimicrobial peptide-resistant minor subpopulation of Photorhabdus luminescens is responsible for virulence},
author = {Annabelle Mouammine and Sylvie Pages and Anne Lanois and Sophie Gaudriault and Gregory Jubelin and Maurine Bonabaud and Stéphane Cruveiller and Emeric Dubois and David Roche and Ludovic Legrand and others},
year = {2017},
date = {2017-01-01},
journal = {Scientific reports},
volume = {7},
number = {1},
pages = {1–13},
publisher = {Nature Publishing Group},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gully, Djamel; Teulet, Albin; Busset, Nicolas; Nouwen, Nico; Fardoux, Joël; Rouy, Zoe; Vallenet, David; Cruveiller, Stéphane; Giraud, Eric
Complete Genome Sequence of Bradyrhizobium sp. ORS285, a Photosynthetic Strain Able To Establish Nod Factor-Dependent or Nod Factor-Independent Symbiosis with Aeschynomene Legumes Journal Article
In: Genome announcements, vol. 5, no. 30, pp. e00421–17, 2017.
@article{gully2017complete,
title = {Complete Genome Sequence of Bradyrhizobium sp. ORS285, a Photosynthetic Strain Able To Establish Nod Factor-Dependent or Nod Factor-Independent Symbiosis with Aeschynomene Legumes},
author = {Djamel Gully and Albin Teulet and Nicolas Busset and Nico Nouwen and Joël Fardoux and Zoe Rouy and David Vallenet and Stéphane Cruveiller and Eric Giraud},
year = {2017},
date = {2017-01-01},
journal = {Genome announcements},
volume = {5},
number = {30},
pages = {e00421–17},
publisher = {Am Soc Microbiol},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Galia, Wessam; Leriche, Francoise; Cruveiller, Stéphane; Garnier, Cindy; Navratil, Vincent; Dubost, Audrey; Blanquet-Diot, Stéphanie; Thevenot-Sergentet, Delphine
Strand-specific transcriptomes of Enterohemorrhagic Escherichia coli in response to interactions with ground beef microbiota: interactions between microorganisms in raw meat Journal Article
In: BMC genomics, vol. 18, no. 1, pp. 574, 2017.
@article{galia2017strand,
title = {Strand-specific transcriptomes of Enterohemorrhagic Escherichia coli in response to interactions with ground beef microbiota: interactions between microorganisms in raw meat},
author = {Wessam Galia and Francoise Leriche and Stéphane Cruveiller and Cindy Garnier and Vincent Navratil and Audrey Dubost and Stéphanie Blanquet-Diot and Delphine Thevenot-Sergentet},
year = {2017},
date = {2017-01-01},
journal = {BMC genomics},
volume = {18},
number = {1},
pages = {574},
publisher = {BioMed Central London},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Payelleville, Amaury; Lanois, Anne; Gislard, Marie; Dubois, Emeric; Roche, David; Cruveiller, Stéphane; Givaudan, Alain; Brillard, Julien
DNA Adenine Methyltransferase (Dam) Overexpression Impairs Photorhabdus luminescens Motility and Virulence Journal Article
In: Frontiers in microbiology, vol. 8, pp. 1671, 2017.
@article{payelleville2017dna,
title = {DNA Adenine Methyltransferase (Dam) Overexpression Impairs Photorhabdus luminescens Motility and Virulence},
author = {Amaury Payelleville and Anne Lanois and Marie Gislard and Emeric Dubois and David Roche and Stéphane Cruveiller and Alain Givaudan and Julien Brillard},
year = {2017},
date = {2017-01-01},
journal = {Frontiers in microbiology},
volume = {8},
pages = {1671},
publisher = {Frontiers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Dupont, Hervé; Choinier, Pascaline; Roche, David; Adiba, Sandine; Sookdeb, Megan; Branger, Catherine; Denamur, Erick; Mammeri, Hedi
Structural alteration of OmpR as a source of ertapenem resistance in a CTX-M-15-producing Escherichia coli O25b: H4 sequence type 131 clinical isolate Journal Article
In: Antimicrobial agents and chemotherapy, vol. 61, no. 5, pp. e00014–17, 2017.
@article{dupont2017structural,
title = {Structural alteration of OmpR as a source of ertapenem resistance in a CTX-M-15-producing Escherichia coli O25b: H4 sequence type 131 clinical isolate},
author = {Hervé Dupont and Pascaline Choinier and David Roche and Sandine Adiba and Megan Sookdeb and Catherine Branger and Erick Denamur and Hedi Mammeri},
year = {2017},
date = {2017-01-01},
journal = {Antimicrobial agents and chemotherapy},
volume = {61},
number = {5},
pages = {e00014–17},
publisher = {Am Soc Microbiol},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pérez-Pascual, David; Lunazzi, Aurelie; Magdelenat, Ghislaine; Rouy, Zoe; Roulet, Alain; Lopez-Roques, Celine; Larocque, Robert; Barbeyron, Tristan; Gobet, Angélique; Michel, Gurvan; others,
The Complete Genome Sequence of the Fish Pathogen Tenacibaculum maritimum Provides Insights into Virulence Mechanisms Journal Article
In: Frontiers in Microbiology, vol. 8, pp. 1542, 2017.
@article{perez2017complete,
title = {The Complete Genome Sequence of the Fish Pathogen Tenacibaculum maritimum Provides Insights into Virulence Mechanisms},
author = {David Pérez-Pascual and Aurelie Lunazzi and Ghislaine Magdelenat and Zoe Rouy and Alain Roulet and Celine Lopez-Roques and Robert Larocque and Tristan Barbeyron and Angélique Gobet and Gurvan Michel and others},
year = {2017},
date = {2017-01-01},
journal = {Frontiers in Microbiology},
volume = {8},
pages = {1542},
publisher = {Frontiers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Blanchard, Laurence; Guérin, Philippe; Roche, David; Cruveiller, Stéphane; Pignol, David; Vallenet, David; Armengaud, Jean; Groot, Arjan De
Conservation and diversity of the IrrE/DdrO-controlled radiation response in radiation-resistant Deinococcus bacteria Journal Article
In: MicrobiologyOpen, vol. 6, no. 4, pp. e00477, 2017.
@article{blanchard2017conservation,
title = {Conservation and diversity of the IrrE/DdrO-controlled radiation response in radiation-resistant Deinococcus bacteria},
author = {Laurence Blanchard and Philippe Guérin and David Roche and Stéphane Cruveiller and David Pignol and David Vallenet and Jean Armengaud and Arjan De Groot},
year = {2017},
date = {2017-01-01},
journal = {MicrobiologyOpen},
volume = {6},
number = {4},
pages = {e00477},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Marchetti, Marta; Clerissi, Camille; Yousfi, Yasmine; Gris, Carine; Bouchez, Olivier; Rocha, Eduardo; Cruveiller, Stéphane; Jauneau, Alain; Capela, Delphine; Masson-Boivin, Catherine
Experimental evolution of rhizobia may lead to either extra-or intracellular symbiotic adaptation depending on the selection regime Journal Article
In: Molecular ecology, vol. 26, no. 7, pp. 1818–1831, 2017.
@article{marchetti2017experimental,
title = {Experimental evolution of rhizobia may lead to either extra-or intracellular symbiotic adaptation depending on the selection regime},
author = {Marta Marchetti and Camille Clerissi and Yasmine Yousfi and Carine Gris and Olivier Bouchez and Eduardo Rocha and Stéphane Cruveiller and Alain Jauneau and Delphine Capela and Catherine Masson-Boivin},
year = {2017},
date = {2017-01-01},
journal = {Molecular ecology},
volume = {26},
number = {7},
pages = {1818–1831},
publisher = {Wiley Online Library},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pancrace, Claire; Barny, Marie-Anne; Ueoka, Reiko; Calteau, Alexandra; Scalvenzi, Thibault; Pédron, Jacques; Barbe, Valérie; Piel, Joern; Humbert, Jean-François; Gugger, Muriel
Insights into the Planktothrix genus: Genomic and metabolic comparison of benthic and planktic strains Journal Article
In: Scientific reports, vol. 7, no. 1, pp. 41181, 2017.
@article{pancrace2017insights,
title = {Insights into the Planktothrix genus: Genomic and metabolic comparison of benthic and planktic strains},
author = {Claire Pancrace and Marie-Anne Barny and Reiko Ueoka and Alexandra Calteau and Thibault Scalvenzi and Jacques Pédron and Valérie Barbe and Joern Piel and Jean-François Humbert and Muriel Gugger},
year = {2017},
date = {2017-01-01},
journal = {Scientific reports},
volume = {7},
number = {1},
pages = {41181},
publisher = {Nature Publishing Group UK London},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bastard, Karine; Perret, Alain; Mariage, Aline; Bessonnet, Thomas; Pinet-Turpault, Agnes; Petit, Jean-Louis; Darii, Ekaterina; Bazire, Pascal; Vergne-Vaxelaire, Carine; Brewee, Clémence; others,
Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis Journal Article
In: Nature chemical biology, vol. 13, no. 8, pp. 858–866, 2017.
@article{bastard2017parallel,
title = {Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis},
author = {Karine Bastard and Alain Perret and Aline Mariage and Thomas Bessonnet and Agnes Pinet-Turpault and Jean-Louis Petit and Ekaterina Darii and Pascal Bazire and Carine Vergne-Vaxelaire and Clémence Brewee and others},
year = {2017},
date = {2017-01-01},
journal = {Nature chemical biology},
volume = {13},
number = {8},
pages = {858–866},
publisher = {Nature Publishing Group},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pancrace, Claire; Jokela, Jouni; Sassoon, Nathalie; Ganneau, Christelle; Desnos-Ollivier, Marie; Wahlsten, Matti; Humisto, Anu; Calteau, Alexandra; Bay, Sylvie; Fewer, David P; others,
Rearranged biosynthetic gene cluster and synthesis of hassallidin E in Planktothrix serta PCC 8927 Journal Article
In: ACS chemical biology, vol. 12, no. 7, pp. 1796–1804, 2017.
@article{pancrace2017rearranged,
title = {Rearranged biosynthetic gene cluster and synthesis of hassallidin E in Planktothrix serta PCC 8927},
author = {Claire Pancrace and Jouni Jokela and Nathalie Sassoon and Christelle Ganneau and Marie Desnos-Ollivier and Matti Wahlsten and Anu Humisto and Alexandra Calteau and Sylvie Bay and David P Fewer and others},
year = {2017},
date = {2017-01-01},
journal = {ACS chemical biology},
volume = {12},
number = {7},
pages = {1796–1804},
publisher = {ACS Publications},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Bringel, Françoise; Postema, Christiaan P; Mangenot, Sophie; Bibi-Triki, Sabrina; Chaignaud, Pauline; Haque, Muhammad Farhan Ul; Gruffaz, Christelle; Hermon, Louis; Louhichi, Yousra; Maucourt, Bruno; others,
Genome Sequence of the Dichloromethane-Degrading Bacterium Hyphomicrobium sp. Strain GJ21 Journal Article
In: Genome announcements, vol. 5, no. 30, pp. e00622–17, 2017.
@article{bringel2017genome,
title = {Genome Sequence of the Dichloromethane-Degrading Bacterium Hyphomicrobium sp. Strain GJ21},
author = {Françoise Bringel and Christiaan P Postema and Sophie Mangenot and Sabrina Bibi-Triki and Pauline Chaignaud and Muhammad Farhan Ul Haque and Christelle Gruffaz and Louis Hermon and Yousra Louhichi and Bruno Maucourt and others},
year = {2017},
date = {2017-01-01},
journal = {Genome announcements},
volume = {5},
number = {30},
pages = {e00622–17},
publisher = {Am Soc Microbiol},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Chaignaud, Pauline; Maucourt, Bruno; Weiman, Marion; Alberti, Adriana; Kolb, Steffen; Cruveiller, Stéphane; Vuilleumier, Stéphane; Bringel, Françoise
Genomic and Transcriptomic Analysis of Growth-Supporting Dehalogenation of Chlorinated Methanes in Methylobacterium Journal Article
In: Frontiers in microbiology, vol. 8, pp. 1600, 2017.
@article{chaignaud2017genomic,
title = {Genomic and Transcriptomic Analysis of Growth-Supporting Dehalogenation of Chlorinated Methanes in Methylobacterium},
author = {Pauline Chaignaud and Bruno Maucourt and Marion Weiman and Adriana Alberti and Steffen Kolb and Stéphane Cruveiller and Stéphane Vuilleumier and Françoise Bringel},
year = {2017},
date = {2017-01-01},
journal = {Frontiers in microbiology},
volume = {8},
pages = {1600},
publisher = {Frontiers},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ji, Boyang; Zhang, Sheng-Da; Zhang, Wei-Jia; Rouy, Zoe; Alberto, François; Santini, Claire-Lise; Mangenot, Sophie; Gagnot, Séverine; Philippe, Nadège; Pradel, Nathalie; others,
The chimeric nature of the genomes of marine magnetotactic coccoid-ovoid bacteria defines a novel group of Proteobacteria Journal Article
In: Environmental microbiology, vol. 19, no. 3, pp. 1103–1119, 2017.
@article{ji2017chimeric,
title = {The chimeric nature of the genomes of marine magnetotactic coccoid-ovoid bacteria defines a novel group of Proteobacteria},
author = {Boyang Ji and Sheng-Da Zhang and Wei-Jia Zhang and Zoe Rouy and François Alberto and Claire-Lise Santini and Sophie Mangenot and Séverine Gagnot and Nadège Philippe and Nathalie Pradel and others},
year = {2017},
date = {2017-01-01},
journal = {Environmental microbiology},
volume = {19},
number = {3},
pages = {1103–1119},
publisher = {Wiley Online Library},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Ficko-Blean, Elizabeth; Préchoux, Aurélie; Thomas, François; Rochat, Tatiana; Larocque, Robert; Zhu, Yongtao; Stam, Mark; Génicot, Sabine; Jam, Murielle; Calteau, Alexandra; others,
Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria Journal Article
In: Nature communications, vol. 8, no. 1, pp. 1685, 2017.
@article{ficko2017carrageenan,
title = {Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria},
author = {Elizabeth Ficko-Blean and Aurélie Préchoux and François Thomas and Tatiana Rochat and Robert Larocque and Yongtao Zhu and Mark Stam and Sabine Génicot and Murielle Jam and Alexandra Calteau and others},
year = {2017},
date = {2017-01-01},
journal = {Nature communications},
volume = {8},
number = {1},
pages = {1685},
publisher = {Nature Publishing Group UK London},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Berardinis, Véronique De; Guérard-Hélaine, Christine; Darii, Ekaterina; Bastard, Karine; Hélaine, Virgil; Mariage, Aline; Petit, Jean-Louis; Poupard, Nicolas; Sánchez-Moreno, Israel; Stam, Mark; others,
Expanding the reaction space of aldolases using hydroxypyruvate as a nucleophilic substrate Journal Article
In: Green Chemistry, vol. 19, no. 2, pp. 519–526, 2017.
@article{de2017expanding,
title = {Expanding the reaction space of aldolases using hydroxypyruvate as a nucleophilic substrate},
author = {Véronique De Berardinis and Christine Guérard-Hélaine and Ekaterina Darii and Karine Bastard and Virgil Hélaine and Aline Mariage and Jean-Louis Petit and Nicolas Poupard and Israel Sánchez-Moreno and Mark Stam and others},
year = {2017},
date = {2017-01-01},
journal = {Green Chemistry},
volume = {19},
number = {2},
pages = {519–526},
publisher = {Royal Society of Chemistry},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
2016
Bisch, Gaelle; Ogier, Jean-Claude; Medigue, Claudine; Rouy, Zoe; Vincent, Stephanie; Tailliez, Patrick; Givaudan, Alain; Gaudriault, Sophie
Comparative genomics between two Xenorhabdus bovienii strains highlights differential evolutionary scenarios within an entomopathogenic bacterial species Journal Article
In: Genome biology and evolution, vol. 8, no. 1, pp. 148–160, 2016.
@article{bisch2016comparative,
title = {Comparative genomics between two Xenorhabdus bovienii strains highlights differential evolutionary scenarios within an entomopathogenic bacterial species},
author = {Gaelle Bisch and Jean-Claude Ogier and Claudine Medigue and Zoe Rouy and Stephanie Vincent and Patrick Tailliez and Alain Givaudan and Sophie Gaudriault},
year = {2016},
date = {2016-01-01},
journal = {Genome biology and evolution},
volume = {8},
number = {1},
pages = {148–160},
publisher = {Oxford University Press},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gerbore, Jonathan; Brutel, Aline; Lemainque, Arnaud; Mairey, Barbara; Médigue, Claudine; Vallenet, David; Lefort, Francois; Grizard, Damien
Complete genome sequence of Bacillus methylotrophicus strain B25, a potential plant growth-promoting rhizobacterium Journal Article
In: Genome announcements, vol. 4, no. 2, pp. e00058–16, 2016.
@article{gerbore2016complete,
title = {Complete genome sequence of Bacillus methylotrophicus strain B25, a potential plant growth-promoting rhizobacterium},
author = {Jonathan Gerbore and Aline Brutel and Arnaud Lemainque and Barbara Mairey and Claudine Médigue and David Vallenet and Francois Lefort and Damien Grizard},
year = {2016},
date = {2016-01-01},
journal = {Genome announcements},
volume = {4},
number = {2},
pages = {e00058–16},
publisher = {Am Soc Microbiol},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Redko, Yulia; Galtier, Eloïse; Arnion, Hélène; Darfeuille, Fabien; Sismeiro, Odile; Coppée, Jean-Yves; Médigue, Claudine; Weiman, Marion; Cruveiller, Stéphane; Reuse, Hilde De
RNase J depletion leads to massive changes in mRNA abundance in Helicobacter pylori Journal Article
In: RNA biology, vol. 13, no. 2, pp. 243–253, 2016.
@article{redko2016rnase,
title = {RNase J depletion leads to massive changes in mRNA abundance in Helicobacter pylori},
author = {Yulia Redko and Eloïse Galtier and Hélène Arnion and Fabien Darfeuille and Odile Sismeiro and Jean-Yves Coppée and Claudine Médigue and Marion Weiman and Stéphane Cruveiller and Hilde De Reuse},
year = {2016},
date = {2016-01-01},
journal = {RNA biology},
volume = {13},
number = {2},
pages = {243–253},
publisher = {Taylor & Francis},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vallenet, David; Calteau, Alexandra; Cruveiller, Stéphane; Gachet, Mathieu; Lajus, Aurélie; Josso, Adrien; Mercier, Jonathan; Renaux, Alexandre; Rollin, Johan; Rouy, Zoe; others,
MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes Journal Article
In: Nucleic acids research, vol. 45, no. D1, pp. D517–D528, 2016.
@article{vallenet2016microscope,
title = {MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes},
author = {David Vallenet and Alexandra Calteau and Stéphane Cruveiller and Mathieu Gachet and Aurélie Lajus and Adrien Josso and Jonathan Mercier and Alexandre Renaux and Johan Rollin and Zoe Rouy and others},
year = {2016},
date = {2016-01-01},
journal = {Nucleic acids research},
volume = {45},
number = {D1},
pages = {D517–D528},
publisher = {Oxford University Press},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Vanhove, Audrey S; Rubio, Tristan P; Nguyen, An N; Lemire, Astrid; Roche, David; Nicod, Julie; Vergnes, Agnès; Poirier, Aurore C; Disconzi, Elena; Bachère, Evelyne; others,
Copper homeostasis at the host vibrio interface: lessons from intracellular vibrio transcriptomics Journal Article
In: Environmental microbiology, vol. 18, no. 3, pp. 875–888, 2016.
@article{vanhove2016copper,
title = {Copper homeostasis at the host vibrio interface: lessons from intracellular vibrio transcriptomics},
author = {Audrey S Vanhove and Tristan P Rubio and An N Nguyen and Astrid Lemire and David Roche and Julie Nicod and Agnès Vergnes and Aurore C Poirier and Elena Disconzi and Evelyne Bachère and others},
year = {2016},
date = {2016-01-01},
journal = {Environmental microbiology},
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number = {3},
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Bronnec, Vicky; Haddad, Nabila; Cruveiller, Stéphane; Hernould, Mathieu; Tresse, Odile; Zagorec, Monique
Draft genome sequence of Campylobacter jejuni Bf, an atypical strain able to grow under aerobiosis Journal Article
In: Genome announcements, vol. 4, no. 2, pp. e00120–16, 2016.
@article{bronnec2016draft,
title = {Draft genome sequence of Campylobacter jejuni Bf, an atypical strain able to grow under aerobiosis},
author = {Vicky Bronnec and Nabila Haddad and Stéphane Cruveiller and Mathieu Hernould and Odile Tresse and Monique Zagorec},
year = {2016},
date = {2016-01-01},
journal = {Genome announcements},
volume = {4},
number = {2},
pages = {e00120–16},
publisher = {Am Soc Microbiol},
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Remenant, Beno^ıt; Borges, Frédéric; Cailliez-Grimal, Catherine; Revol-Junelles, Anne-Marie; Marché, Laurent; Lajus, Aurélie; Médigue, Claudine; Pilet, Marie-France; Prévost, Hervé; Zagorec, Monique
Draft genome sequence of Carnobacterium divergens V41, a bacteriocin-producing strain Journal Article
In: Genome announcements, vol. 4, no. 5, pp. e01109–16, 2016.
@article{remenant2016draft,
title = {Draft genome sequence of Carnobacterium divergens V41, a bacteriocin-producing strain},
author = {Beno^ıt Remenant and Frédéric Borges and Catherine Cailliez-Grimal and Anne-Marie Revol-Junelles and Laurent Marché and Aurélie Lajus and Claudine Médigue and Marie-France Pilet and Hervé Prévost and Monique Zagorec},
year = {2016},
date = {2016-01-01},
journal = {Genome announcements},
volume = {4},
number = {5},
pages = {e01109–16},
publisher = {Am Soc Microbiol},
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Plucain, Jessica; Suau, Antonia; Cruveiller, Stéphane; Médigue, Claudine; Schneider, Dominique; Gac, Mickaël Le
Contrasting effects of historical contingency on phenotypic and genomic trajectories during a two-step evolution experiment with bacteria Journal Article
In: BMC evolutionary biology, vol. 16, no. 1, pp. 1–11, 2016.
@article{plucain2016contrasting,
title = {Contrasting effects of historical contingency on phenotypic and genomic trajectories during a two-step evolution experiment with bacteria},
author = {Jessica Plucain and Antonia Suau and Stéphane Cruveiller and Claudine Médigue and Dominique Schneider and Mickaël Le Gac},
year = {2016},
date = {2016-01-01},
journal = {BMC evolutionary biology},
volume = {16},
number = {1},
pages = {1–11},
publisher = {BioMed Central},
keywords = {},
pubstate = {published},
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Ailloud, Florent; Lowe, Tiffany M; Robène, Isabelle; Cruveiller, Stéphane; Allen, Caitilyn; Prior, Philippe
In planta comparative transcriptomics of host-adapted strains of Ralstonia solanacearum Journal Article
In: PeerJ, vol. 4, pp. e1549, 2016.
@article{ailloud2016planta,
title = {In planta comparative transcriptomics of host-adapted strains of Ralstonia solanacearum},
author = {Florent Ailloud and Tiffany M Lowe and Isabelle Robène and Stéphane Cruveiller and Caitilyn Allen and Philippe Prior},
year = {2016},
date = {2016-01-01},
journal = {PeerJ},
volume = {4},
pages = {e1549},
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Bronnec, Vicky; Turoňová, Hana; Bouju, Agnès; Cruveiller, Stéphane; Rodrigues, Ramila; Demnerova, Katerina; Tresse, Odile; Haddad, Nabila; Zagorec, Monique
Adhesion, biofilm formation, and genomic features of Campylobacter jejuni Bf, an atypical strain able to grow under aerobic conditions Journal Article
In: Frontiers in microbiology, vol. 7, pp. 1002, 2016.
@article{bronnec2016adhesion,
title = {Adhesion, biofilm formation, and genomic features of Campylobacter jejuni Bf, an atypical strain able to grow under aerobic conditions},
author = {Vicky Bronnec and Hana Turoňová and Agnès Bouju and Stéphane Cruveiller and Ramila Rodrigues and Katerina Demnerova and Odile Tresse and Nabila Haddad and Monique Zagorec},
year = {2016},
date = {2016-01-01},
journal = {Frontiers in microbiology},
volume = {7},
pages = {1002},
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Belda, Eugeni; Heck, Ruben GA Van; Lopez-Sanchez, Maria José; Cruveiller, Stéphane; Barbe, Valérie; Fraser, Claire; Klenk, Hans-Peter; Petersen, Jörn; Morgat, Anne; Nikel, Pablo I; others,
The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis Journal Article
In: Environmental microbiology, vol. 18, no. 10, pp. 3403–3424, 2016.
@article{belda2016revisited,
title = {The revisited genome of Pseudomonas putida KT2440 enlightens its value as a robust metabolic chassis},
author = {Eugeni Belda and Ruben GA Van Heck and Maria José Lopez-Sanchez and Stéphane Cruveiller and Valérie Barbe and Claire Fraser and Hans-Peter Klenk and Jörn Petersen and Anne Morgat and Pablo I Nikel and others},
year = {2016},
date = {2016-01-01},
journal = {Environmental microbiology},
volume = {18},
number = {10},
pages = {3403–3424},
publisher = {Wiley Online Library},
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tppubtype = {article}
}
Zhang, Sheng-Da; Santini, Claire-Lise; Zhang, Wei-Jia; Barbe, Valérie; Mangenot, Sophie; Guyomar, Charlotte; Garel, Marc; Chen, Hai-Tao; Li, Xue-Gong; Yin, Qun-Jian; others,
Genomic and physiological analysis reveals versatile metabolic capacity of deep-sea Photobacterium phosphoreum ANT-2200 Journal Article
In: Extremophiles, vol. 20, no. 3, pp. 301–310, 2016.
@article{zhang2016genomic,
title = {Genomic and physiological analysis reveals versatile metabolic capacity of deep-sea Photobacterium phosphoreum ANT-2200},
author = {Sheng-Da Zhang and Claire-Lise Santini and Wei-Jia Zhang and Valérie Barbe and Sophie Mangenot and Charlotte Guyomar and Marc Garel and Hai-Tao Chen and Xue-Gong Li and Qun-Jian Yin and others},
year = {2016},
date = {2016-01-01},
journal = {Extremophiles},
volume = {20},
number = {3},
pages = {301–310},
publisher = {Springer},
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Tenaillon, Olivier; Barrick, Jeffrey E; Ribeck, Noah; Deatherage, Daniel E; Blanchard, Jeffrey L; Dasgupta, Aurko; Wu, Gabriel C; Wielgoss, Sébastien; Cruveiller, Stéphane; Médigue, Claudine; others,
Tempo and mode of genome evolution in a 50,000-generation experiment Journal Article
In: Nature, vol. 536, no. 7615, pp. 165, 2016.
@article{tenaillon2016tempo,
title = {Tempo and mode of genome evolution in a 50,000-generation experiment},
author = {Olivier Tenaillon and Jeffrey E Barrick and Noah Ribeck and Daniel E Deatherage and Jeffrey L Blanchard and Aurko Dasgupta and Gabriel C Wu and Sébastien Wielgoss and Stéphane Cruveiller and Claudine Médigue and others},
year = {2016},
date = {2016-01-01},
journal = {Nature},
volume = {536},
number = {7615},
pages = {165},
publisher = {Nature Publishing Group},
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2015
Goudenège, David; Travers, Marie Agnès; Lemire, Astrid; Petton, Bruno; Haffner, Philippe; Labreuche, Yannick; Tourbiez, Delphine; Mangenot, Sophie; Calteau, Alexandra; Mazel, Didier; others,
A single regulatory gene is sufficient to alter Vibrio aestuarianus pathogenicity in oysters Journal Article
In: Environmental microbiology, vol. 17, no. 11, pp. 4189–4199, 2015.
@article{goudenege2015single,
title = {A single regulatory gene is sufficient to alter Vibrio aestuarianus pathogenicity in oysters},
author = {David Goudenège and Marie Agnès Travers and Astrid Lemire and Bruno Petton and Philippe Haffner and Yannick Labreuche and Delphine Tourbiez and Sophie Mangenot and Alexandra Calteau and Didier Mazel and others},
year = {2015},
date = {2015-01-01},
journal = {Environmental microbiology},
volume = {17},
number = {11},
pages = {4189–4199},
publisher = {Wiley Online Library},
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Fahy, Anne; Giloteaux, Ludovic; Bertin, Philippe; Paslier, Denis Le; Médigue, Claudine; Weissenbach, Jean; Duran, Robert; Lauga, Béatrice
16S rRNA and As-related functional diversity: contrasting fingerprints in arsenic-rich sediments from an acid mine drainage Journal Article
In: Microbial ecology, vol. 70, no. 1, pp. 154–167, 2015.
@article{fahy201516s,
title = {16S rRNA and As-related functional diversity: contrasting fingerprints in arsenic-rich sediments from an acid mine drainage},
author = {Anne Fahy and Ludovic Giloteaux and Philippe Bertin and Denis Le Paslier and Claudine Médigue and Jean Weissenbach and Robert Duran and Béatrice Lauga},
year = {2015},
date = {2015-01-01},
journal = {Microbial ecology},
volume = {70},
number = {1},
pages = {154–167},
publisher = {Springer},
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}
Sorokina, Maria; Medigue, Claudine; Vallenet, David
A new network representation of the metabolism to detect chemical transformation modules Journal Article
In: BMC bioinformatics, vol. 16, no. 1, pp. 385, 2015.
@article{sorokina2015new,
title = {A new network representation of the metabolism to detect chemical transformation modules},
author = {Maria Sorokina and Claudine Medigue and David Vallenet},
year = {2015},
date = {2015-01-01},
journal = {BMC bioinformatics},
volume = {16},
number = {1},
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Gordon, Jonathan L; Lefeuvre, Pierre; Escalon, Aline; Barbe, Valérie; Cruveiller, Stéphane; Gagnevin, Lionel; Pruvost, Olivier
Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges Journal Article
In: BMC genomics, vol. 16, no. 1, pp. 1098, 2015.
@article{gordon2015comparative,
title = {Comparative genomics of 43 strains of Xanthomonas citri pv. citri reveals the evolutionary events giving rise to pathotypes with different host ranges},
author = {Jonathan L Gordon and Pierre Lefeuvre and Aline Escalon and Valérie Barbe and Stéphane Cruveiller and Lionel Gagnevin and Olivier Pruvost},
year = {2015},
date = {2015-01-01},
journal = {BMC genomics},
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pages = {1098},
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Ailloud, Florent; Lowe, Tiffany; Cellier, Gilles; Roche, David; Allen, Caitilyn; Prior, Philippe
Comparative genomic analysis of Ralstonia solanacearum reveals candidate genes for host specificity Journal Article
In: BMC genomics, vol. 16, no. 1, pp. 1–11, 2015.
@article{ailloud2015comparative,
title = {Comparative genomic analysis of Ralstonia solanacearum reveals candidate genes for host specificity},
author = {Florent Ailloud and Tiffany Lowe and Gilles Cellier and David Roche and Caitilyn Allen and Philippe Prior},
year = {2015},
date = {2015-01-01},
journal = {BMC genomics},
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Maddamsetti, Rohan; Hatcher, Philip J; Cruveiller, Stéphane; Médigue, Claudine; Barrick, Jeffrey E; Lenski, Richard E
Synonymous genetic variation in natural isolates of Escherichia coli does not predict where synonymous substitutions occur in a long-term experiment Journal Article
In: Molecular biology and evolution, vol. 32, no. 11, pp. 2897–2904, 2015.
@article{maddamsetti2015synonymous,
title = {Synonymous genetic variation in natural isolates of Escherichia coli does not predict where synonymous substitutions occur in a long-term experiment},
author = {Rohan Maddamsetti and Philip J Hatcher and Stéphane Cruveiller and Claudine Médigue and Jeffrey E Barrick and Richard E Lenski},
year = {2015},
date = {2015-01-01},
journal = {Molecular biology and evolution},
volume = {32},
number = {11},
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Belda, Eugeni; Vallenet, David; Médigue, Claudine
Accurate microbial genome annotation using an integrated and user-friendly environment for community expertise of gene functions: the microscope platform Book Section
In: Hydrocarbon and Lipid Microbiology Protocols: Genetic, Genomic and System Analyses of Pure Cultures, pp. 141–169, Springer Berlin Heidelberg Berlin, Heidelberg, 2015.
@incollection{belda2015accurate,
title = {Accurate microbial genome annotation using an integrated and user-friendly environment for community expertise of gene functions: the microscope platform},
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date = {2015-01-01},
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Persson, Tomas; Battenberg, Kai; Demina, Irina V; Vigil-Stenman, Theoden; Heuvel, Brian Vanden; Pujic, Petar; Facciotti, Marc T; Wilbanks, Elizabeth G; O'Brien, Anna; Fournier, Pascale; others,
Candidatus Frankia datiscae Dg1, the actinobacterial microsymbiont of Datisca glomerata, expresses the canonical nod genes nodABC in symbiosis with its host plant Journal Article
In: PLoS One, vol. 10, no. 5, pp. e0127630, 2015.
@article{persson2015candidatus,
title = {Candidatus Frankia datiscae Dg1, the actinobacterial microsymbiont of Datisca glomerata, expresses the canonical nod genes nodABC in symbiosis with its host plant},
author = {Tomas Persson and Kai Battenberg and Irina V Demina and Theoden Vigil-Stenman and Brian Vanden Heuvel and Petar Pujic and Marc T Facciotti and Elizabeth G Wilbanks and Anna O'Brien and Pascale Fournier and others},
year = {2015},
date = {2015-01-01},
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volume = {10},
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Lemire, Astrid; Goudenege, David; Versigny, Typhaine; Petton, Bruno; Calteau, Alexandra; Labreuche, Yannick; Roux, Frédérique Le
Populations, not clones, are the unit of vibrio pathogenesis in naturally infected oysters Journal Article
In: The ISME journal, vol. 9, no. 7, pp. 1523–1531, 2015.
@article{lemire2015populations,
title = {Populations, not clones, are the unit of vibrio pathogenesis in naturally infected oysters},
author = {Astrid Lemire and David Goudenege and Typhaine Versigny and Bruno Petton and Alexandra Calteau and Yannick Labreuche and Frédérique Le Roux},
year = {2015},
date = {2015-01-01},
journal = {The ISME journal},
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2014
Groot, Arjan; Roche, David; Fernandez, Bernard; Ludanyi, Monika; Cruveiller, Stephane; Pignol, David; Vallenet, David; Armengaud, Jean; Blanchard, Laurence
RNA sequencing and proteogenomics reveal the importance of leaderless mRNAs in the radiation-tolerant bacterium Deinococcus deserti Journal Article
In: Genome biology and evolution, vol. 6, no. 4, pp. 932–948, 2014.
@article{de2014rna,
title = {RNA sequencing and proteogenomics reveal the importance of leaderless mRNAs in the radiation-tolerant bacterium Deinococcus deserti},
author = {Arjan Groot and David Roche and Bernard Fernandez and Monika Ludanyi and Stephane Cruveiller and David Pignol and David Vallenet and Jean Armengaud and Laurence Blanchard},
year = {2014},
date = {2014-01-01},
journal = {Genome biology and evolution},
volume = {6},
number = {4},
pages = {932–948},
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Lescat, Mathilde; Reibel, Florence; Pintard, Coralie; Dion, Sara; Glodt, Jeremy; Gateau, Cecile; Launay, Adrien; Ledda, Alice; Cruvellier, Stephane; Tourret, Jérôme; others,
The conserved nhaAR operon is drastically divergent between B2 and non-B2 Escherichia coli and is involved in extra-intestinal virulence Journal Article
In: PLoS One, vol. 9, no. 9, pp. e108738, 2014.
@article{lescat2014conserved,
title = {The conserved nhaAR operon is drastically divergent between B2 and non-B2 Escherichia coli and is involved in extra-intestinal virulence},
author = {Mathilde Lescat and Florence Reibel and Coralie Pintard and Sara Dion and Jeremy Glodt and Cecile Gateau and Adrien Launay and Alice Ledda and Stephane Cruvellier and Jérôme Tourret and others},
year = {2014},
date = {2014-01-01},
journal = {PLoS One},
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number = {9},
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Plucain, Jessica; Hindré, Thomas; Gac, Mickaël Le; Tenaillon, Olivier; Cruveiller, Stéphane; Médigue, Claudine; Leiby, Nicholas; Harcombe, William R; Marx, Christopher J; Lenski, Richard E; others,
Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli Journal Article
In: Science, vol. 343, no. 6177, pp. 1366–1369, 2014.
@article{plucain2014epistasis,
title = {Epistasis and allele specificity in the emergence of a stable polymorphism in Escherichia coli},
author = {Jessica Plucain and Thomas Hindré and Mickaël Le Gac and Olivier Tenaillon and Stéphane Cruveiller and Claudine Médigue and Nicholas Leiby and William R Harcombe and Christopher J Marx and Richard E Lenski and others},
year = {2014},
date = {2014-01-01},
journal = {Science},
volume = {343},
number = {6177},
pages = {1366–1369},
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Ogier, Jean-Claude; Pagès, Sylvie; Bisch, Gaëlle; Chiapello, Hélène; Médigue, Claudine; Rouy, Zoé; Teyssier, Corinne; Vincent, Stéphanie; Tailliez, Patrick; Givaudan, Alain; others,
Attenuated virulence and genomic reductive evolution in the entomopathogenic bacterial symbiont species, Xenorhabdus poinarii Journal Article
In: Genome biology and evolution, vol. 6, no. 6, pp. 1495–1513, 2014.
@article{ogier2014attenuated,
title = {Attenuated virulence and genomic reductive evolution in the entomopathogenic bacterial symbiont species, Xenorhabdus poinarii},
author = {Jean-Claude Ogier and Sylvie Pagès and Gaëlle Bisch and Hélène Chiapello and Claudine Médigue and Zoé Rouy and Corinne Teyssier and Stéphanie Vincent and Patrick Tailliez and Alain Givaudan and others},
year = {2014},
date = {2014-01-01},
journal = {Genome biology and evolution},
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Raeside, Colin; Gaffé, Joël; Deatherage, Daniel E; Tenaillon, Olivier; Briska, Adam M; Ptashkin, Ryan N; Cruveiller, Stéphane; Médigue, Claudine; Lenski, Richard E; Barrick, Jeffrey E; others,
Large chromosomal rearrangements during a long-term evolution experiment with Escherichia coli Journal Article
In: MBio, vol. 5, no. 5, pp. e01377–14, 2014.
@article{raeside2014large,
title = {Large chromosomal rearrangements during a long-term evolution experiment with Escherichia coli},
author = {Colin Raeside and Joël Gaffé and Daniel E Deatherage and Olivier Tenaillon and Adam M Briska and Ryan N Ptashkin and Stéphane Cruveiller and Claudine Médigue and Richard E Lenski and Jeffrey E Barrick and others},
year = {2014},
date = {2014-01-01},
journal = {MBio},
volume = {5},
number = {5},
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Ji, Boyang; Zhang, Sheng-Da; Arnoux, Pascal; Rouy, Zoe; Alberto, François; Philippe, Nadège; Murat, Dorothée; Zhang, Wei-Jia; Rioux, Jean-Baptiste; Ginet, Nicolas; others,
Comparative genomic analysis provides insights into the evolution and niche adaptation of marine Magnetospira sp. QH-2 strain Journal Article
In: Environmental microbiology, vol. 16, no. 2, pp. 525–544, 2014.
@article{ji2014comparative,
title = {Comparative genomic analysis provides insights into the evolution and niche adaptation of marine Magnetospira sp. QH-2 strain},
author = {Boyang Ji and Sheng-Da Zhang and Pascal Arnoux and Zoe Rouy and François Alberto and Nadège Philippe and Dorothée Murat and Wei-Jia Zhang and Jean-Baptiste Rioux and Nicolas Ginet and others},
year = {2014},
date = {2014-01-01},
journal = {Environmental microbiology},
volume = {16},
number = {2},
pages = {525–544},
publisher = {Wiley Online Library},
keywords = {},
pubstate = {published},
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