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Whole-genome sequencing of<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">C. oranimense<\/jats:named-content>G311 was performed using Ion Torrent PGM, and RAST, the EMBL-EBI server, and the Antibiotic Resistance Gene-ANNOTation (ARG-ANNOT) database were used for annotation of all genes, including antibiotic resistance (AR) genes. General features of the<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">C. oranimense<\/jats:named-content>G311 draft genome were compared to the other available genomes of<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">Chryseobacterium gleum<\/jats:named-content>and<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">Chryseobacterium<\/jats:named-content>sp. strain CF314.<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">C. oranimense<\/jats:named-content>G311 was found to be resistant to all \u03b2-lactams, including imipenem, and to colistin. The genome size of<jats:named-content xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" content-type=\"genus-species\" xlink:type=\"simple\">C. oranimense<\/jats:named-content>G311 is 4,457,049 bp in length, with 37.70% GC content. We found 27 AR genes in the genome, including \u03b2-lactamase genes which showed little similarity to the known \u03b2-lactamase genes and could likely be novel. We found the type I polyketide synthase operon followed by a zeaxanthin glycosyltransferase gene in the genome, which could impart the yellow pigmentation of the isolate. We located the O-antigen biosynthesis cluster, and we also discovered a novel capsular polysaccharide biosynthesis cluster. We also found known mutations in the orthologs of the<jats:italic>pmrA<\/jats:italic>(E8D),<jats:italic>pmrB<\/jats:italic>(L208F and P360Q), and<jats:italic>lpxA<\/jats:italic>(G68D) genes. We speculate that the presence of the capsular cluster and mutations in these genes could explain the resistance of this bacterium to colistin. We demonstrate that whole-genome sequencing was successfully applied to decipher the resistome of a multidrug resistance bacterium associated with cystic fibrosis patients.<\/jats:p>","DOI":"10.1128\/aac.02417-14","type":"journal-article","created":{"date-parts":[[2015,2,11]],"date-time":"2015-02-11T18:35:13Z","timestamp":1423679713000},"page":"1696-1706","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":36,"title":["Whole-Genome Sequence of Chryseobacterium oranimense, a Colistin-Resistant Bacterium Isolated from a Cystic Fibrosis Patient in France"],"prefix":"10.1128","volume":"59","author":[{"given":"Poonam","family":"Sharma","sequence":"first","affiliation":[{"name":"Unit\u00e9 de Recherche sur les Maladies Infectieuses et Tropicales Emergents, CNRS-IRD, UMR 7278, M\u00e9diterran\u00e9e Infection, Facult\u00e9 de M\u00e9decine et de Pharmacie, Aix-Marseille Universit\u00e9, Marseille, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sushim Kumar","family":"Gupta","sequence":"additional","affiliation":[{"name":"Unit\u00e9 de Recherche sur les Maladies Infectieuses et Tropicales Emergents, CNRS-IRD, UMR 7278, M\u00e9diterran\u00e9e Infection, Facult\u00e9 de M\u00e9decine et de Pharmacie, Aix-Marseille Universit\u00e9, Marseille, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Seydina M.","family":"Diene","sequence":"additional","affiliation":[{"name":"Unit\u00e9 de Recherche sur les Maladies Infectieuses et Tropicales Emergents, CNRS-IRD, UMR 7278, M\u00e9diterran\u00e9e Infection, Facult\u00e9 de M\u00e9decine et de Pharmacie, Aix-Marseille Universit\u00e9, Marseille, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jean-Marc","family":"Rolain","sequence":"additional","affiliation":[{"name":"Unit\u00e9 de Recherche sur les Maladies Infectieuses et Tropicales Emergents, CNRS-IRD, UMR 7278, M\u00e9diterran\u00e9e Infection, Facult\u00e9 de M\u00e9decine et de Pharmacie, Aix-Marseille Universit\u00e9, Marseille, France"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.2772657"},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.2475911"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.15.2.194-222.2002"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.41.9.4009-4015.2003"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00068-09"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.1002\/ppul.10166"},{"key":"e_1_3_3_8_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jcf.2008.02.003"},{"key":"e_1_3_3_9_2","doi-asserted-by":"publisher","DOI":"10.3201\/eid1406.071355"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1186\/1752-1947-2-373"},{"key":"e_1_3_3_11_2","doi-asserted-by":"publisher","DOI":"10.1086\/514631"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkh470"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1016\/0195-6701(95)90049-7"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.3233\/JPI-2012-0337"},{"key":"e_1_3_3_15_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.medmal.2007.01.006"},{"key":"e_1_3_3_16_2","doi-asserted-by":"crossref","first-page":"520","DOI":"10.7883\/yoken.64.520","article-title":"Clinical characteristics, antimicrobial susceptibilities, and outcomes of patients with Chryseobacterium indologenes bacteremia in an intensive care unit","volume":"64","author":"Chou DW","year":"2011","unstructured":"Chou DW, Wu SL, Lee CT, Tai FT, Yu WL. 2011. 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