1. Aguileta G., Lengelle J., Chiapello H., Giraud T., Viaud M., Fournier E., Rodolphe F., Marthey S., Ducasse A., Gendrault A., Poulain J., Wincker P., Gout L. « Genes under positive selection in a model plant pathogenic fungus, Botrytis. » Infection Genetics and Evolution, 2012 ; 12(5):987-996.
2. Alcantara R., Axelsen K.B., Morgat A., Belda E., Coudert E., Bridge A., Cao H., de Matos P., Ennis M., Turner S., Owen G., Bougueleret L., Xenarios I., Steinbeck C. « Rhea-a manually curated resource of biochemical reactions. » Nucleic Acids Research, 2012 ; 40(D1) :D754-D760.
3. Aliferis K., Helle S., Gyapay G., Duchatelet S., Stoetzel C., Mandel J.L., Dollfus H. « Differentiating Alstrom from Bardet-Biedl syndrome (BBS) using systematic ciliopathy genes sequencing. » Ophthalmic Genetics, 2012 ; 33(1):18-22.
4. Arabi J., Judson M.L.I., Deharveng L., Lourenco W.R., Cruaud C., Hassanin A. « Nucleotide Composition of CO1 Sequences in Chelicerata (Arthropoda) : Detecting New Mitogenomic Rearrangements. » Journal of Molecular Evolution, 2012 ; 74(1-2):81-95.
5. Arca M., Hinsinger D.D., Cruaud C., Tillier A., Bousquet J., Frascaria-Lacoste N. « Deciduous Trees and the Application of Universal DNA Barcodes : A Case Study on the Circumpolar Fraxinus. » PLoS ONE, 2012 ; 7(3) :e34089.
6. Auger S., Galleron N., Ségurens B., Dossat C., Bolotin A., Wincker P., Sorokin A. « Complete Genome Sequence of the Highly Hemolytic Strain Bacillus cereus F837/76. » Journal of Bacteriology, 2012 ; 194(6):1630-1630.
7. Baraloto C., Hardy O.J., Paine C.E.T., Dexter K.G., Cruaud C., Dunning L.T., Gonzalez M.A., Molino J.F., Sabatier D., Savolainen V., Chave J. « Using functional traits and phylogenetic trees to examine the assembly of tropical tree communities. » Journal of Ecology, 2012 ; 100(3):690-701.
8. Barbier P., Houel A., Loux V., Poulain J., Bernardet J.F., Touchon M., Duchaud E. « Complete Genome Sequence of Flavobacterium indicum GPSTA100-9T, Isolated from Warm Spring Water. » Journal of Bacteriology, 2012 ; 194(11):3024-3025.
9. Bassaglia Y., Bekel T., Da Silva C., Poulain J., Andouche A., Navet S., Bonnaud L. « ESTs library from embryonic stages reveals tubulin and reflectin diversity in Sepia officinalis (Mollusca - Cephalopoda). » Gene, 2012 ; 498(2):203-211.
10. Bernard L., Chapuis-Lardy L., Razafimbelo T., Razafindrakoto M., Pablo A.L., Legname E., Poulain J., Brüls T., O’Donohue M., Brauman A., Chotte J.L., Blanchart E. « Endogeic earthworms shape bacterial functional communities and affect organic matter mineralization in a tropical soil. » Isme Journal, 2012 ; 6(1):213-222.
11. Billot C., Rivallan R., Sall M.N., Fonceka D., Deu M., Glaszmann J.-C., Noyer J.-L., Rami J.-F., Risterucci A.-M., Wincker P., Ramu P., Hash C.T. « A REFERENCE MICROSATELLITE KIT TO ASSESS FOR GENETIC DIVERSITY OF SORGHUM BICOLOR (POACEAE). » American Journal of Botany, 2012 ; 99(6) :E245-E250.
12. Bon C., Berthonaud V., Maksud F., Labadie K., Poulain J., Artiguenave F., Wincker P., Aury J.-M., Elalouf J.-M. « Coprolites as a source of information on the genome and diet of the cave hyena. » Proceedings of the Royal Society B-Biological Sciences, 2012 ; 279(1739):2825-2830.
13. Buresi A., Baratte S., Da Silva C., Bonnaud L. « orthodenticle/otx ortholog expression in the anterior brain and eyes of Sepia officinalis (Mollusca, Cephalopoda). » Gene Expression Patterns, 2012 ; 12(3-4):109-116.
14. Castelin M., Puillandre N., Kantor Y.I., Modica M.V., Terryn Y., Cruaud C., Bouchet P., Holford M. « Macroevolution of venom apparatus innovations in auger snails (Gastropoda ; Conoidea ; Terebridae). » Molecular Phylogenetics and Evolution, 2012 ; 64(1):21-44.
15. Chevalier F., Herbiniere-Gaboreau J., Charif D., Mitta G., Gavory F., Wincker P., Greve P., Braquart-Varnier C., Bouchon D. « Feminizing Wolbachia : a transcriptomics approach with insights on the immune response genes in Armadillidium vulgare. » Bmc Microbiology, 2012 ; 12(Suppl 1) :S1.
16. Chouaia B., Crotti E., Brusetti L., Daffonchio D., Essoussi I., Nouioui I., Sbissi I., Ghodhbane-Gtari F., Gtari M., Vacherie B., Barbe V., Médigue C., Gury J., Pujic P., Normand P. « Genome Sequence of Blastococcus saxobsidens DD2, a Stone-Inhabiting Bacterium. » Journal of Bacteriology, 2012 ; 194(10):2752-2753.
17. Derocles S.A.P., Le Ralec A., Plantegenest M., Chaubet B., Cruaud C., Cruaud A., Rasplus J.Y. « Identification of molecular markers for DNA barcoding in the Aphidiinae (Hym. Braconidae). » Molecular Ecology Resources, 2012 ; 12(2):197-208.
18. Dinkel H., Michael S., Weatheritt R.J., Davey N.E., Van Roey K., Altenberg B., Toedt G., Uyar B., Seiler M., Budd A., Jodicke L., Dammert M.A., Schroeter C., Hammer M., Schmidt T., Jehl P., McGuigan C., Dymecka M., Chica C., Luck K., Via A., Chatr-Aryamontri A., Haslam N., Grebnev G., Edwards R.J., Steinmetz M.O., Meiselbach H., Diella F., Gibson T.J. « ELM-the database of eukaryotic linear motifs. » Nucleic Acids Research, 2012 ; 40(D1) :D242-D251.
19. Dong X., El Karkouri K., Robert C., Gavory F., Raoult D., Fournier P.E. « Genomic Comparison of Rickettsia helvetica and Other Rickettsia Species. » Journal of Bacteriology, 2012 ; 194(10):2751-2751.
20. Duquesne K., Prima V., Ji B., Rouy Z., Médigue C., Talla E., Sturgis J.N. « Draft Genome Sequence of the Purple Photosynthetic Bacterium Phaeospirillum molischianum DSM120, a Particularly Versatile Bacterium. » Journal of Bacteriology, 2012 ; 194(13):3559-3560.
21. Engelen S., Vallenet D., Médigue C., Danchin A. « Distinct co-evolution patterns of genes associated to DNA polymerase III DnaE and PolC. » Bmc Genomics, 2012 ; 13.
22. Fernandez D., Tisserant E., Talhinhas P., Azinheira H., Vieira A., Petitot A.S., Loureiro A., Poulain J., Da Silva C., Silva M.D.C., Duplessis S. « 454-pyrosequencing of Coffea arabica leaves infected by the rust fungus Hemileia vastatrix reveals in planta-expressed pathogen-secreted proteins and plant functions in a late compatible plant-rust interaction. » Molecular Plant Pathology, 2012 ; 13(1):17-37.
23. Fournier P.E., El Karkouri K., Robert C., Médigue C., Raoult D. « Complete Genome Sequence of Rickettsia slovaca, the Agent of Tick-Borne Lymphadenitis. » Journal of Bacteriology, 2012 ; 194(6):1612-1612.
24. Fuchs J., Irestedt M., Fjeldsa J., Couloux A., Pasquet E., Bowie R.C.K. « Molecular phylogeny of African bush-shrikes and allies : Tracing the biogeographic history of an explosive radiation of corvoid birds. » Molecular Phylogenetics and Evolution, 2012 ; 64(1):93-105.
25. Gangloff B., Shirihai H., Watling D., Cruaud C., Couloux A., Tillier A., Pasquet E., Bretagnolle V. « The complete phylogeny of Pseudobulweria, the most endangered seabird genus : systematics, species status and conservation implications. » Conservation Genetics, 2012 ; 13(1):39-52.
26. Ghignone S., Salvioli A., Anca I., Lumini E., Ortu G., Petiti L., Cruveiller S., Bianciotto V., Piffanelli P., Lanfranco L., Bonfante P. « The genome of the obligate endobacterium of an AM fungus reveals an interphylum network of nutritional interactions. » Isme Journal, 2012 ; 6(1):136-145.
27. Gomez-Pereira P.R., Schuler M., Fuchs B.M., Bennke C., Teeling H., Waldmann J., Richter M., Barbe V., Bataille E., Glockner F.O., Amann R. « Genomic content of uncultured Bacteroidetes from contrasting oceanic provinces in the North Atlantic Ocean. » Environmental Microbiology, 2012 ; 14(1):52-66.
28. Goubet P.M., Berges H., Bellec A., Prat E., Helmstetter N., Mangenot S., Gallina S., Holl A.C., Fobis-Loisy I., Vekemans X., Castric V. « Contrasted Patterns of Molecular Evolution in Dominant and Recessive Self-Incompatibility Haplotypes in Arabidopsis. » Plos Genetics, 2012 ; 8(3) :e1002495.
29. Grimaud R., Ghiglione J.-F., Cagnon C., Lauga B., Vaysse P.-J., Rodriguez-Blanco A., Mangenot S., Cruveiller S., Barbe V., Duran R., Wu L.-F., Talla E., Bonin P., Michotey V. « Genome Sequence of the Marine Bacterium Marinobacter hydrocarbonoclasticus SP17, Which Forms Biofilms on Hydrophobic Organic Compounds. » Journal of Bacteriology, 2012 ; 194(13):3539-3540.
30. Hemery L.G., Eleaume M., Roussel V., Ameziane N., Gallut C., Steinke D., Cruaud C., Couloux A., Wilson N.G. « Comprehensive sampling reveals circumpolarity and sympatry in seven mitochondrial lineages of the Southern Ocean crinoid species Promachocrinus kerguelensis (Echinodermata). » Molecular Ecology, 2012 ; 21(10):2502-2518.
31. Hofstetter V., Buyck B., Croll D., Viret O., Couloux A., Gindro K. « What if esca disease of grapevine were not a fungal disease ? » Fungal Diversity, 2012 ; 54(1):51-67.
32. Jaiswara R., Balakrishnan R., Robillard T., Rao K., Cruaud C., Desutter-Grandcolas L. « Testing concordance in species boundaries using acoustic, morphological, and molecular data in the field cricket genus Itaropsis (Orthoptera : Grylloidea, Gryllidae : Gryllinae). » Zoological Journal of the Linnean Society, 2012 ; 164(2):285-303.
33. Jollivet D., Mary J., Gagniere N., Tanguy A., Fontanillas E., Boutet I., Hourdez S., Ségurens B., Weissenbach J., Poch O., Lecompte O. « Proteome Adaptation to High Temperatures in the Ectothermic Hydrothermal Vent Pompeii Worm. » PLoS ONE, 2012 ; 7(2):13.
34. Khadem A.F., Wieczorek A.S., Pol A., Vuilleumier S., Harhangi H.R., Dunfield P.F., Kalyuzhnaya M.G., Murrell J.C., Francoijs K.-J., Stunnenberg H.G., Stein L.Y., DiSpirito A.A., Semrau J.D., Lajus A., Médigue C., Klotz M.G., Jetten M.S.M., Op den Camp H.J.M. « Draft Genome Sequence of the Volcano-Inhabiting Thermoacidophilic Methanotroph Methylacidiphilum fumariolicum Strain SolV. » Journal of Bacteriology, 2012 ; 194(14):3729-3730.
35. Klebe S., Lossos A., Azzedine H., Mundwiller E., Sheffer R., Gaussen M., Marelli C., Nawara M., Carpentier W., Meyer V., Rastetter A., Martin E., Bouteiller D., Orlando L., Gyapay G., El-Hachimi K.H., Zimmerman B., Gamliel M., Misk A., Lerer I., Brice A., Durr A., Stevanin G. « KIF1A missense mutations in SPG30, an autosomal recessive spastic paraplegia : distinct phenotypes according to the nature of the mutations. » European Journal of Human Genetics, 2012 ; 20(6):645-649.
36. Kremer N., Charif D., Henri H., Gavory F., Wincker P., Mavingui P., Vavre F. « Influence of Wolbachia on host gene expression in an obligatory symbiosis. » Bmc Microbiology, 2012 ; 12(suppl 1) :S7.
37. Lord C., Lorion J., Dettai A., Watanabe S., Tsukamoto K., Cruaud C., Keith P. « From endemism to widespread distribution : phylogeography of three amphidromous Sicyopterus species (Teleostei : Gobioidei : Sicydiinae). » Marine Ecology-Progress Series, 2012 ; 455:269-285.
38. Lorion J., Halary S., Nascimento J.D., Samadi S., Couloux A., Duperron S. « Evolutionary history of Idas sp Med (Bivalvia : Mytilidae), a cold seep mussel bearing multiple symbionts. » Cahiers De Biologie Marine, 2012 ; 53(1):77-87.
39. Louis V.L., Despons L., Friedrich A., Martin T., Durrens P., Casarégola S., Neuvéglise C., Fairhead C., Marck C., Cruz J.A., Straub M.-L., Kugler V., Sacerdot C., Uzunov Z., Thierry A., Weiss S., Bleykasten C., De Montigny J., Jacques N., Jung P., Lemaire M., Mallet S., Morel G., Richard G.-F., Sarkar A., Savel G., Schacherer J., Seret M.-L., Talla E., Samson G., Jubin C., Poulain J., Vacherie B., Barbe V., Pelletier E., Sherman D.J., Westhof E., Weissenbach J., Baret P.V., Wincker P., Gaillardin C., Dujon B., Souciet J.-L. « Pichia sorbitophila, an Interspecies Yeast Hybrid, Reveals Early Steps of Genome Resolution After Polyploidization. » G3 : Genes|Genomes|Genetics, 2012 ; 2(2):299-311.
40. Martin F., Torelli S., Le Paslier D., Barbance A., Martin-Laurent F., Bru D., Geremia R., Blake G., Jouanneau Y. « Betaproteobacteria dominance and diversity shifts in the bacterial community of a PAH-contaminated soil exposed to phenanthrene. » Environmental Pollution, 2012 ; 162:345-353.
41. Mavingui P., Moro C.V., Van T.V., Wisniewski-Dye F., Raquin V., Minard G., Tran F.H., Voronin D., Rouy Z., Bustos P., Lozano L., Barbe V., Gonzalez V. « Whole-Genome Sequence of Wolbachia Strain wAlbB, an Endosymbiont of Tiger Mosquito Vector Aedes albopictus. » Journal of Bacteriology, 2012 ; 194(7):1840-1840.
42. Missoup A.D., Nicolas V., Wendelen W., Keming E., Bilong C.F.B., Couloux A., Atanga E., Hutterer R., Denys C. « Systematics and diversification of Praomys species (Rodentia : Muridae) endemic to the Cameroon Volcanic Line (West Central Africa). » Zoologica Scripta, 2012 ; 41(4):327-345.
43. Mornico D., Miché L., Béna G., Nouwen N., Verméglio A., Vallenet D., Smith A.A.T., Giraud E., Médigue C., Moulin L. « Comparative Genomics of Aeschynomene Symbionts : Insights into the Ecological Lifestyle of Nod-Independent Photosynthetic Bradyrhizobia. » Genes, 2012 ; 3(1):35-61.
44. Nicolas V., Schaeffer B., Missoup A.D., Kennis J., Colyn M., Denys C., Tatard C., Cruaud C., Laredo C. « Assessment of Three Mitochondrial Genes (16S, Cytb, CO1) for Identifying Species in the Praomyini Tribe (Rodentia : Muridae). » PLoS ONE, 2012 ; 7(5) :e36586.
45. Ollivier M., Gabaldon T., Poulain J., Gavory F., Leterme N., Gauthier J.P., Legeai F., Tagu D., Simon J.C., Rispe C. « Comparison of Gene Repertoires and Patterns of Evolutionary Rates in Eight Aphid Species That Differ by Reproductive Mode. » Genome Biology and Evolution, 2012 ; 4(2):155-167.
46. Pante E., France S.C., Couloux A., Cruaud C., McFadden C.S., Samadi S., Watling L. « Deep-Sea Origin and In-Situ Diversification of Chrysogorgiid Octocorals. » PLoS ONE, 2012 ; 7(6) :e38357.
47. Puillandre N., Modica M.V., Zhang Y., Sirovich L., Boisselier M.C., Cruaud C., Holford M., Samadi S. « Large-scale species delimitation method for hyperdiverse groups. » Molecular Ecology, 2012 ; 21(11):2671-2691.
48. Remenant B., Babujee L., Lajus A., Médigue C., Prior P., Allen C. « Sequencing of K60, Type Strain of the Major Plant Pathogen Ralstonia solanacearum. » Journal of Bacteriology, 2012 ; 194(10):2742-2743.
49. Ropars J., Cruaud C., Lacoste S., Dupont J. « A taxonomic and ecological overview of cheese fungi. » International Journal of Food Microbiology, 2012 ; 155(3):199-210.
50. Schoelinck C., Cruaud C., Justine J.L. « Are all species of Pseudorhabdosynochus strictly host specific ? - A molecular study. » Parasitology International, 2012 ; 61(2):356-359.
51. Smith A.A.T., Belda E., Viari A., Médigue C., Vallenet D. « The CanOE Strategy : Integrating Genomic and Metabolic Contexts across Multiple Prokaryote Genomes to Find Candidate Genes for Orphan Enzymes. » Plos Computational Biology, 2012 ; 8(5) :e1002540.
52. Terrat S., Christen R., Dequiedt S., Lelievre M., Nowak V., Regnier T., Bachar D., Plassart P., Wincker P., Jolivet C., Bispo A., Lemanceau P., Maron P.A., Mougel C., Ranjard L. « Molecular biomass and MetaTaxogenomic assessment of soil microbial communities as influenced by soil DNA extraction procedure. » Microbial Biotechnology, 2012 ; 5(1):135-141.
53. Tisserant E., Kohler A., Dozolme-Seddas P., Balestrini R., Benabdellah K., Colard A., Croll D., Da Silva C., Gomez S.K., Koul R., Ferrol N., Fiorilli V., Formey D., Franken P., Helber N., Hijri M., Lanfranco L., Lindquist E., Liu Y., Malbreil M., Morin E., Poulain J., Shapiro H., van Tuinen D., Waschke A., Azcon-Aguilar C., Becard G., Bonfante P., Harrison M.J., Kuster H., Lammers P., Paszkowski U., Requena N., Rensing S.A., Roux C., Sanders I.R., Shachar-Hill Y., Tuskan G., Young J.P.W., Gianinazzi-Pearson V., Martin F. « The transcriptome of the arbuscular mycorrhizal fungus Glomus intraradices (DAOM 197198) reveals functional tradeoffs in an obligate symbiont. » New Phytologist, 2012 ; 193(3):755-769.
54. Vaulot D., Lepere C., Toulza E., De la Iglesia R., Poulain J., Gaboyer F., Moreau H., Vandepoele K., Ulloa O., Gavory F., Piganeau G. « Metagenomes of the Picoalga Bathycoccus from the Chile Coastal Upwelling. » PLoS ONE, 2012 ; 7(6) :e39648.
55. Vigneron A., Charif D., Vincent-Monegat C., Vallier A., Gavory F., Wincker P., Heddi A. « Host gene response to endosymbiont and pathogen in the cereal weevil Sitophilus oryzae. » Bmc Microbiology, 2012 ; 12(Suppl 1) :S14.
56. Vuilleumier S., Khmelenina V.N., Bringel F., Reshetnikov A.S., Lajus A., Mangenot S., Rouy Z., Op den Camp H.J.M., Jetten M.S.M., Dispirito A.A., Dunfield P., Klotz M.G., Semrau J.D., Stein L.Y., Barbe V., Médigue C., Trotsenko Y.A., Kalyuzhnaya M.G. « Genome Sequence of the Haloalkaliphilic Methanotrophic Bacterium Methylomicrobium alcaliphilum 20Z. » Journal of Bacteriology, 2012 ; 194(2):551-552.
57. Yadetie F., Butcher S., Forde H.E., Campsteijn C., Bouquet J.M., Karlsen O.A., Denoeud F., Metpally R., Thompson E.M., Manak J.R., Goksoyr A., Chourrout D. « Conservation and divergence of chemical defense system in the tunicate Oikopleura dioica revealed by genome wide response to two xenobiotics. » Bmc Genomics, 2012 ; 13:55.
58. Yamada T., Waller A.S., Raes J., Zelezniak A., Perchat N., Perret A., Salanoubat M., Patil K.R., Weissenbach J., Bork P. « Prediction and identification of sequences coding for orphan enzymes using genomic and metagenomic neighbours. » Molecular Systems Biology, 2012 ; 8:581.
59. Zinger L., Gobet A., Pommier T. « Two decades of describing the unseen majority of aquatic microbial diversity. » Molecular Ecology, 2012 ; 21(8):1878-1896.
60. Zoropogui A., Pujic P., Normand P., Barbe V., Beaman B., Beaman L., Boiron P., Colinon C., Deredjian A., Graindorge A., Mangenot S., Nazaret S., Neto M., Petit S., Roche D., Vallenet D., Rodriguez-Nava V., Richard Y., Cournoyer B., Blaha D. « Genome Sequence of the Human- and Animal-Pathogenic Strain Nocardia cyriacigeorgica GUH-2. » Journal of Bacteriology, 2012 ; 194(8):2098-2099.
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