MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis von Vallenet, David, Calteau, Alexandra, Dubois, Mathieu, Amours, Paul, Bazin, Adelme, Beuvin, Mylène, Burlot, Laura, Bussell, Xavier, Fouteau, Stéphanie, Gautreau, Guillaume, Lajus, Aurélie, Langlois, Jordan, Planel, Rémi, Roche, David, Rollin, Johan, Rouy, Zoe, Sabatet, Valentin, Médigue, Claudine

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MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomes von Vallenet, David, Calteau, Alexandra, Cruveiller, Stéphane, Gachet, Mathieu, Lajus, Aurélie, Josso, Adrien, Mercier, Jonathan, Renaux, Alexandre, Rollin, Johan, Rouy, Zoe, Roche, David, Scarpelli, Claude, Médigue, Claudine

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PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph von Gautreau, Guillaume, Bazin, Adelme, Gachet, Mathieu, Planel, Rémi, Burlot, Laura, Dubois, Mathieu, Perrin, Amandine, Médigue, Claudine, Calteau, Alexandra, Cruveiller, Stéphane, Matias, Catherine, Ambroise, Christophe, Rocha, Eduardo P C, Vallenet, David

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MicroScope--an integrated microbial resource for the curation and comparative analysis of genomic and metabolic data von Vallenet, David, Belda, Eugeni, Calteau, Alexandra, Cruveiller, Stéphane, Engelen, Stefan, Lajus, Aurélie, Le Fèvre, François, Longin, Cyrille, Mornico, Damien, Roche, David, Rouy, Zoé, Salvignol, Gregory, Scarpelli, Claude, Thil Smith, Adam Alexander, Weiman, Marion, Médigue, Claudine

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Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria von Ficko-Blean, Elizabeth, Préchoux, Aurélie, Thomas, François, Rochat, Tatiana, Larocque, Robert, Zhu, Yongtao, Stam, Mark, Génicot, Sabine, Jam, Murielle, Calteau, Alexandra, Viart, Benjamin, Ropartz, David, Pérez-Pascual, David, Correc, Gaëlle, Matard-Mann, Maria, Stubbs, Keith A., Rogniaux, Hélène, Jeudy, Alexandra, Barbeyron, Tristan, Médigue, Claudine, Czjzek, Mirjam, Vallenet, David, McBride, Mark J., Duchaud, Eric, Michel, Gurvan

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From a consortium sequence to a unified sequence: the Bacillus subtilis 168 reference genome a decade later von Barbe, Valerie, Cruveiller, Stephane, Kunst, Frank, Lenoble, Patricia, Meurice, Guillaume, Sekowska, Agnieszka, Vallenet, David, Wang, Tingzhang, Moszer, Ivan, Medigue, Claudine, Danchin, Antoine

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Construction of a complete set of Neisseria meningitidis mutants and its use for the phenotypic profiling of this human pathogen von Muir, Alastair, Gurung, Ishwori, Cehovin, Ana, Bazin, Adelme, Vallenet, David, Pelicic, Vladimir

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A refined picture of the native amine dehydrogenase family revealed by extensive biodiversity screening von Elisée, Eddy, Ducrot, Laurine, Méheust, Raphaël, Bastard, Karine, Fossey-Jouenne, Aurélie, Grogan, Gideon, Pelletier, Eric, Petit, Jean-Louis, Stam, Mark, de Berardinis, Véronique, Zaparucha, Anne, Vallenet, David, Vergne-Vaxelaire, Carine

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Bacillus subtilis, the model Gram‐positive bacterium: 20 years of annotation refinement von Borriss, Rainer, Danchin, Antoine, Harwood, Colin R., Médigue, Claudine, Rocha, Eduardo P.C., Sekowska, Agnieszka, Vallenet, David

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A novel binary pesticidal protein from Chryseobacterium arthrosphaerae controls western corn rootworm by a different mode of action to existing commercial pesticidal proteins von Jabeur, Rania, Guyon, Virginie, Toth, Szabolcs, Pereira, Adriano E, Huynh, Man P, Selmani, Zakia, Boland, Erin, Bosio, Mickael, Beuf, Laurent, Clark, Pete, Vallenet, David, Achouak, Wafa, Audiffrin, Carine, Torney, François, Paul, Wyatt, Heulin, Thierry, Hibbard, Bruce E, Toepfer, Stefan, Sallaud, Christophe

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GROOLS: reactive graph reasoning for genome annotation through biological processes von Mercier, Jonathan, Josso, Adrien, Médigue, Claudine, Vallenet, David

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Comparative genomics of multidrug resistance in Acinetobacter baumannii von Fournier, Pierre-Edouard, Vallenet, David, Barbe, Valérie, Audic, Stéphane, Ogata, Hiroyuki, Poirel, Laurent, Richet, Hervé, Robert, Catherine, Mangenot, Sophie, Abergel, Chantal, Nordmann, Patrice, Weissenbach, Jean, Raoult, Didier, Claverie, Jean-Michel

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Comparative genomics of the core and accessory genomes of 48 Sinorhizobium strains comprising five genospecies von Sugawara, Masayuki, Epstein, Brendan, Badgley, Brian D, Unno, Tatsuya, Xu, Lei, Reese, Jennifer, Gyaneshwar, Prasad, Denny, Roxanne, Mudge, Joann, Bharti, Arvind K, Farmer, Andrew D, May, Gregory D, Woodward, Jimmy E, Médigue, Claudine, Vallenet, David, Lajus, Aurélie, Rouy, Zoé, Martinez-Vaz, Betsy, Tiffin, Peter, Young, Nevin D, Sadowsky, Michael J

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Ralstonia syzygii, the Blood Disease Bacterium and some Asian R. solanacearum strains form a single genomic species despite divergent lifestyles von Remenant, Benoît, de Cambiaire, Jean-Charles, Cellier, Gilles, Jacobs, Jonathan M, Mangenot, Sophie, Barbe, Valérie, Lajus, Aurélie, Vallenet, David, Medigue, Claudine, Fegan, Mark, Allen, Caitilyn, Prior, Philippe

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A new network representation of the metabolism to detect chemical transformation modules von Sorokina, Maria, Medigue, Claudine, Vallenet, David

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Comparative analysis of Acinetobacters: three genomes for three lifestyles von Vallenet, David, Nordmann, Patrice, Barbe, Valérie, Poirel, Laurent, Mangenot, Sophie, Bataille, Elodie, Dossat, Carole, Gas, Shahinaz, Kreimeyer, Annett, Lenoble, Patricia, Oztas, Sophie, Poulain, Julie, Segurens, Béatrice, Robert, Catherine, Abergel, Chantal, Claverie, Jean-Michel, Raoult, Didier, Médigue, Claudine, Weissenbach, Jean, Cruveiller, Stéphane

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Phylogroup stability contrasts with high within sequence type complex dynamics of Escherichia coli bloodstream infection isolates over a 12-year period von Royer, Guilhem, Darty, Mélanie Mercier, Clermont, Olivier, Condamine, Bénédicte, Laouenan, Cédric, Decousser, Jean-Winoc, Vallenet, David, Lefort, Agnès, de Lastours, Victoire, Denamur, Erick

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Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis von Bastard, Karine, Perret, Alain, Mariage, Aline, Bessonnet, Thomas, Pinet-Turpault, Agnès, Petit, Jean-Louis, Darii, Ekaterina, Bazire, Pascal, Vergne-Vaxelaire, Carine, Brewee, Clémence, Debard, Adrien, Pellouin, Virginie, Besnard-Gonnet, Marielle, Artiguenave, François, Médigue, Claudine, Vallenet, David, Danchin, Antoine, Zaparucha, Anne, Weissenbach, Jean, Salanoubat, Marcel, de Berardinis, Véronique

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Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources von Vuilleumier, Stéphane, Chistoserdova, Ludmila, Lee, Ming-Chun, Bringel, Françoise, Lajus, Aurélie, Zhou, Yang, Gourion, Benjamin, Barbe, Valérie, Chang, Jean, Cruveiller, Stéphane, Dossat, Carole, Gillett, Will, Gruffaz, Christelle, Haugen, Eric, Hourcade, Edith, Levy, Ruth, Mangenot, Sophie, Muller, Emilie, Nadalig, Thierry, Pagni, Marco, Penny, Christian, Peyraud, Rémi, Robinson, David G, Roche, David, Rouy, Zoé, Saenampechek, Channakhone, Salvignol, Grégory, Vallenet, David, Wu, Zaining, Marx, Christopher J, Vorholt, Julia A, Olson, Maynard V, Kaul, Rajinder, Weissenbach, Jean, Médigue, Claudine, Lidstrom, Mary E

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Correction: PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph von Gautreau, Guillaume, Bazin, Adelme, Gachet, Mathieu, Planel, Rémi, Burlot, Laura, Dubois, Mathieu, Perrin, Amandine, Médigue, Claudine, Calteau, Alexandra, Cruveiller, Stéphane, Matias, Catherine, Ambroise, Christophe, Rocha, Eduardo P C, Vallenet, David

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