{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T16:05:28Z","timestamp":1791216328723,"version":"4.1.0"},"reference-count":58,"publisher":"Springer Science and Business Media LLC","issue":"3","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Stand. Genomic Sci."],"DOI":"10.4056\/sigs.4087826","type":"journal-article","created":{"date-parts":[[2013,8,20]],"date-time":"2013-08-20T15:57:43Z","timestamp":1377014263000},"page":"465-479","source":"Crossref","is-referenced-by-count":28,"title":["Non-contiguous finished genome sequence and description of Bacillus massilioanorexius sp. nov."],"prefix":"10.4056","volume":"8","author":[{"given":"Ajay Kumar","family":"Mishra","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anne","family":"Pfleiderer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Christophe","family":"Lagier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Catherine","family":"Robert","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Didier","family":"Raoult","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pierre-Edouard","family":"Fournier","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2013,7,30]]},"reference":[{"key":"key20130823111119682_r1","doi-asserted-by":"crossref","first-page":"1185","DOI":"10.1111\/1469-0691.12023","article-title":"Microbial culturomics: paradigm shift in the human gut microbiome study.","volume":"18","author":"Lagier","year":"2012","journal-title":"Clin Microbiol Infect"},{"key":"key20130823111119682_r2","doi-asserted-by":"crossref","first-page":"637","DOI":"10.1007\/s10096-012-1787-3","article-title":"The gut microbiota of a patient with resistant tuberculosis is more comprehensively studied by culturomics than by metagenomics.","volume":"32","author":"Dubourg","year":"2013","journal-title":"Eur J Clin Microbiol Infect Dis"},{"key":"key20130823111119682_r3","doi-asserted-by":"crossref","DOI":"10.1007\/s10096-013-1900-2","article-title":"Culturomics identified 11 new bacterial species from a single anorexia nervosa stool sample.","author":"Pfleiderer","year":"2013","journal-title":"Eur J Clin Microbiol Infect Dis"},{"key":"key20130823111119682_r4","doi-asserted-by":"crossref","first-page":"249","DOI":"10.1099\/ijs.0.016949-0","article-title":"Notes on the characterization of prokaryote strains for taxonomic purposes.","volume":"60","author":"Tindall","year":"2010","journal-title":"Int J Syst Evol Microbiol"},{"key":"key20130823111119682_r5","unstructured":"Genome Online Database. http:\/\/www.genomesonline.org\/cgi-bin\/GOLD\/index.cgi"},{"key":"key20130823111119682_r6","unstructured":"The Microbial Earth Project. http:\/\/www.microbial-earth.org"},{"key":"key20130823111119682_r7","doi-asserted-by":"crossref","first-page":"346","DOI":"10.4056\/sigs.2776064","article-title":"Non-contiguous finished genome sequence and description of Bacillus timonensis sp. nov.","volume":"6","author":"Kokcha","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r8","doi-asserted-by":"crossref","first-page":"116","DOI":"10.4056\/sigs.2415480","article-title":"Non-contiguous finished genome sequence and description of Anaerococcus senegalensis sp. nov.","volume":"6","author":"Lagier","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r9","doi-asserted-by":"crossref","first-page":"304","DOI":"10.4056\/sigs.2625821","article-title":"Non-contiguous finished genome sequence and description of Alistipes senegalensis sp. nov.","volume":"6","author":"Mishra","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r10","doi-asserted-by":"crossref","first-page":"315","DOI":"10.4056\/sigs.2685971","article-title":"Non-contiguous finished genome sequence and description of Alistipes timonensis sp. nov.","volume":"6","author":"Lagier","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r11","first-page":"386","article-title":"Non-contiguous finished genome sequence and description of Clostridium senegalense sp. nov.","volume":"6","author":"Mishra","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r12","doi-asserted-by":"crossref","first-page":"1","DOI":"10.4056\/sigs.2956294","article-title":"Non-contiguous finished genome sequence and description of Peptoniphilus timonensis sp. nov.","volume":"7","author":"Mishra","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r13","doi-asserted-by":"crossref","first-page":"70","DOI":"10.4056\/sigs.3054650","article-title":"Non-contiguous finished genome sequence and description of Paenibacillus senegalensis sp. nov.","volume":"7","author":"Mishra","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r14","doi-asserted-by":"crossref","first-page":"200","DOI":"10.4056\/sigs.3086474","article-title":"Non-contiguous finished genome sequence and description of Herbaspirillum massiliense sp. nov.","volume":"7","author":"Lagier","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r15","doi-asserted-by":"crossref","first-page":"221","DOI":"10.4056\/sigs.3206554","article-title":"Non-contiguous finished genome sequence and description of Kurthia massiliensis sp. nov.","volume":"7","author":"Roux","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r16","doi-asserted-by":"crossref","first-page":"233","DOI":"10.4056\/sigs.3256677","article-title":"Non-contiguous finished genome sequence and description of Brevibacterium senegalense sp. nov.","volume":"7","author":"Kokcha","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r17","doi-asserted-by":"crossref","first-page":"246","DOI":"10.4056\/sigs.3306717","article-title":"Non-contiguous finished genome sequence and description of Aeromicrobium massilense sp. nov.","volume":"7","author":"Ramasamy","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r18","doi-asserted-by":"crossref","first-page":"258","DOI":"10.4056\/sigs.3316719","article-title":"Non-contiguous finished genome sequence and description of Cellulomonas massiliensis sp. nov.","volume":"7","author":"Lagier","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r19","doi-asserted-by":"crossref","first-page":"343","DOI":"10.4056\/sigs.3246665","article-title":"Non-contiguous finished genome sequence and description of Senegalemassilia anaerobia sp. nov.","volume":"7","author":"Lagier","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r20","doi-asserted-by":"crossref","first-page":"357","DOI":"10.4056\/sigs.32766871","article-title":"Non-contiguous finished genome sequence and description of Peptoniphilus obesi sp. nov.","volume":"7","author":"Mishra","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r21","doi-asserted-by":"crossref","first-page":"370","DOI":"10.4056\/sigs.3366764","article-title":"Non-contiguous finished genome sequence and description of Peptoniphilus senegalensis sp. nov.","volume":"7","author":"Mishra","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r22","doi-asserted-by":"crossref","first-page":"399","DOI":"10.4056\/sigs.3396830","article-title":"Non-contiguous finished genome sequence and description of Enterobacter massiliensis sp. nov.","volume":"7","author":"Lagier","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r23","doi-asserted-by":"crossref","first-page":"427","DOI":"10.4056\/sigs.3336746","article-title":"Non-contiguous finished genome sequence and description of Alistipes obesi sp. nov.","volume":"7","author":"Hugon","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r24","doi-asserted-by":"crossref","first-page":"320","DOI":"10.4056\/sigs.3054650","article-title":"Non-contiguous finished genome sequence and description of Peptoniphilus grossensis sp. nov.","volume":"7","author":"Mishra","year":"2012","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r25","doi-asserted-by":"crossref","first-page":"290","DOI":"10.4056\/sigs.3426906","article-title":"Non contiguous-finished genome sequence and description of Enorma massiliensis gen. nov., sp. nov., a new member of the Family Coriobacteriaceae.","volume":"8","author":"Mishra","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r26","doi-asserted-by":"crossref","first-page":"336","DOI":"10.4056\/sigs.3567059","article-title":"Non contiguous-finished genome sequence and description of Bacillus massiliosenegalensis sp. nov.","volume":"8","author":"Ramasamy","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r27","doi-asserted-by":"crossref","first-page":"336","DOI":"10.4056\/sigs.3567059","article-title":"Non contiguous-finished genome sequence and description of of Dielma fastidiosa gen. nov., sp. nov., a new member of the Family Erysipelotrichaceae.","volume":"8","author":"Ramasamy","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r28","doi-asserted-by":"crossref","first-page":"318","DOI":"10.4056\/sigs.3476977","article-title":"Genome sequence and description of Timonella senegalensis gen. nov., sp. nov., a new member of the suborder Micrococcinae.","volume":"8","author":"Mishra","year":"2013","journal-title":"Stand Genomic Sci"},{"key":"key20130823111119682_r29","first-page":"127","article-title":"Untersuchungen \u00fcber Bakterien.","volume":"1","author":"Cohn","year":"1872","journal-title":"Beitrage zur Biologie der Pflanzen Heft"},{"key":"key20130823111119682_r30"},{"key":"key20130823111119682_r31","doi-asserted-by":"crossref","first-page":"157","DOI":"10.1099\/00222615-25-3-157","article-title":"Bacillus species of medical and veterinary importance.","volume":"25","author":"Logan","year":"1988","journal-title":"J Med Microbiol"},{"key":"key20130823111119682_r32","doi-asserted-by":"crossref","first-page":"933","DOI":"10.3201\/eid0706.010604","article-title":"Bioterrorism-related inhalational anthrax: the first 10 cases reported in the United States.","volume":"7","author":"Jernigan","year":"2001","journal-title":"Emerg Infect Dis"},{"key":"key20130823111119682_r33","doi-asserted-by":"crossref","first-page":"382","DOI":"10.1128\/CMR.00073-09","article-title":"Bacillus cereus, a volatile human pathogen.","volume":"23","author":"Bottone","year":"2010","journal-title":"Clin Microbiol Rev"},{"key":"key20130823111119682_r34","doi-asserted-by":"crossref","first-page":"2296","DOI":"10.1897\/08-096.1","article-title":"Selection and identification of bacterial strains with methyl-tert-butyl ether, ethyl-tert-butyl ether, and tert-amyl methyl ether degrading capacities.","volume":"27","author":"Purswani","year":"2008","journal-title":"Environ Toxicol Chem"},{"key":"key20130823111119682_r35","first-page":"152","article-title":"Taxonomic parameters revisited: tarnished gold standards.","volume":"33","author":"Stackebrandt","year":"2006","journal-title":"Microbiol Today"},{"key":"key20130823111119682_r36","doi-asserted-by":"crossref","first-page":"4576","DOI":"10.1073\/pnas.87.12.4576","article-title":"Towards a natural system of organisms: proposal for the domains Archae, Bacteria, and Eukarya.","volume":"87","author":"Woese","year":"1990","journal-title":"Proc Natl Acad Sci USA"},{"key":"key20130823111119682_r37","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1099\/00207713-28-1-1","article-title":"Proposals concerning the Higher Taxa of the Bacteria.","volume":"28","author":"Gibbons","year":"1978","journal-title":"Int J Syst Bacteriol"},{"key":"key20130823111119682_r38"},{"key":"key20130823111119682_r39"},{"key":"key20130823111119682_r40","doi-asserted-by":"crossref","first-page":"469","DOI":"10.1099\/ijs.0.022855-0","article-title":"List of new names and new combinations previously effectively, but not validly, published. List no. 132.","volume":"60","author":"List Editor","year":"2010","journal-title":"Int J Syst Evol Microbiol"},{"key":"key20130823111119682_r41"},{"key":"key20130823111119682_r42","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1099\/00207713-30-1-225","article-title":"Approved list of bacterial names.","volume":"30","author":"Skerman","year":"1980","journal-title":"Int J Syst Bact"},{"key":"key20130823111119682_r43"},{"key":"key20130823111119682_r44","first-page":"1","article-title":"Untersuchungen \u00fcber bakterien.","volume":"27","author":"Fischer","year":"1895","journal-title":"Jahrb\u00fccher f\u00fcr Wissenschaftliche Botanik"},{"key":"key20130823111119682_r45"},{"key":"key20130823111119682_r46","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1038\/75556","article-title":"Gene ontology: tool for the unification of biology. The Gene Ontology Consortium.","volume":"25","author":"Ashburner","year":"2000","journal-title":"Nat Genet"},{"key":"key20130823111119682_r47","doi-asserted-by":"crossref","first-page":"543","DOI":"10.1086\/600885","article-title":"Ongoing revolution in bacteriology: routine identification of bacteria by matrix-assisted laser desorption ionization time-of-flight mass spectrometry.","volume":"49","author":"Seng","year":"2009","journal-title":"Clin Infect Dis"},{"key":"key20130823111119682_r48","doi-asserted-by":"crossref","first-page":"541","DOI":"10.1038\/nbt1360","article-title":"The minimum information about a genome sequence (MIGS) specification.","volume":"26","author":"Field","year":"2008","journal-title":"Nat Biotechnol"},{"key":"key20130823111119682_r49","unstructured":"Prodigal. http:\/\/prodigal.ornl.gov"},{"key":"key20130823111119682_r50","unstructured":"GenBank database. http:\/\/www.ncbi.nlm.nih.gov\/genbank"},{"key":"key20130823111119682_r51","doi-asserted-by":"crossref","first-page":"955","DOI":"10.1093\/nar\/25.5.0955","article-title":"tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.","volume":"25","author":"Lowe","year":"1997","journal-title":"Nucleic Acids Res"},{"key":"key20130823111119682_r52","doi-asserted-by":"crossref","first-page":"3100","DOI":"10.1093\/nar\/gkm160","article-title":"RNAmmer: consistent and rapid annotation of ribosomal RNA genes.","volume":"35","author":"Lagesen","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"key20130823111119682_r53","doi-asserted-by":"crossref","first-page":"783","DOI":"10.1016\/j.jmb.2004.05.028","article-title":"Improved prediction of signal peptides: SignalP 3.0.","volume":"340","author":"Bendtsen","year":"2004","journal-title":"J Mol Biol"},{"key":"key20130823111119682_r54","doi-asserted-by":"crossref","first-page":"567","DOI":"10.1006\/jmbi.2000.4315","article-title":"Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.","volume":"305","author":"Krogh","year":"2001","journal-title":"J Mol Biol"},{"key":"key20130823111119682_r55","doi-asserted-by":"crossref","first-page":"124","DOI":"10.1186\/1471-2105-12-124","article-title":"Proteinortho: Detection of (Co-)orthologs in large-scale analysis.","volume":"12","author":"Lechner","year":"2011","journal-title":"BMC Bioinformatics"},{"key":"key20130823111119682_r56","doi-asserted-by":"crossref","first-page":"944","DOI":"10.1093\/bioinformatics\/16.10.944","article-title":"Artemis: sequence visualization and annotation.","volume":"16","author":"Rutherford","year":"2000","journal-title":"Bioinformatics"},{"key":"key20130823111119682_r57","doi-asserted-by":"crossref","first-page":"119","DOI":"10.1093\/bioinformatics\/btn578","article-title":"DNAPlotter: circular and linear interactive genome visualization.","volume":"25","author":"Carver","year":"2009","journal-title":"Bioinformatics"},{"key":"key20130823111119682_r58","doi-asserted-by":"crossref","first-page":"1394","DOI":"10.1101\/gr.2289704","article-title":"Mauve: multiple alignment of conserved genomic sequence with rearrangements.","volume":"14","author":"Darling","year":"2004","journal-title":"Genome Res"}],"container-title":["Standards in Genomic Sciences"],"original-title":[],"language":"en","deposited":{"date-parts":[[2024,5,16]],"date-time":"2024-05-16T22:08:46Z","timestamp":1715897326000},"score":1,"resource":{"primary":{"URL":"https:\/\/environmentalmicrobiome.biomedcentral.com\/articles\/10.4056\/sigs.4087826"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,7,30]]},"references-count":58,"journal-issue":{"issue":"3","published-online":{"date-parts":[[2013,7,30]]}},"alternative-id":["10.4056\/sigs.4087826"],"URL":"https:\/\/doi.org\/10.4056\/sigs.4087826","relation":{},"ISSN":["1944-3277"],"issn-type":[{"value":"1944-3277","type":"electronic"}],"subject":[],"published":{"date-parts":[[2013,7,30]]}}}