{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,9]],"date-time":"2026-10-09T04:19:44Z","timestamp":1791519584673,"version":"4.3.4"},"reference-count":46,"publisher":"Oxford University Press (OUP)","issue":"23","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2017,12,15]]},"DOI":"10.1093\/femsle\/fnx239","type":"journal-article","created":{"date-parts":[[2017,11,7]],"date-time":"2017-11-07T20:21:52Z","timestamp":1510086112000},"source":"Crossref","is-referenced-by-count":29,"title":["Study of mesophilic Aeromonas salmonicida A527 strain sheds light on the species\u2019 lifestyles and taxonomic dilemma"],"prefix":"10.1093","volume":"364","author":[{"given":"Antony T","family":"Vincent","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fran\u00e7ois D","family":"Rouleau","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sylvain","family":"Moineau","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steve J","family":"Charette","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2017,11,8]]},"reference":[{"key":"key\n\t\t\t\t20180215000900_bib1","doi-asserted-by":"crossref","first-page":"W7","DOI":"10.1093\/nar\/gkq291","article-title":"TranslatorX: Multiple alignment of nucleotide sequences guided by amino acid translations","volume":"38","author":"Abascal","year":"2010","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20180215000900_bib2","doi-asserted-by":"crossref","first-page":"23080","DOI":"10.1038\/srep23080","article-title":"Identification of protein secretion systems in bacterial genomes","volume":"6","author":"Abby","year":"2016","journal-title":"Sci Rep"},{"key":"key\n\t\t\t\t20180215000900_bib3","doi-asserted-by":"crossref","first-page":"W16","DOI":"10.1093\/nar\/gkw387","article-title":"PHASTER: a better, faster version of the PHAST phage search tool","volume":"44","author":"Arndt","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20180215000900_bib4","doi-asserted-by":"crossref","first-page":"20","DOI":"10.1186\/1297-9716-42-20","article-title":"Taxonomy of bacterial fish pathogens","volume":"42","author":"Austin","year":"2011","journal-title":"Vet Res"},{"key":"key\n\t\t\t\t20180215000900_bib5","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1007\/978-3-319-32674-0_5","article-title":"Aeromonadaceae representative (Aeromonas salmonicida)","volume-title":"Bacterial Fish Pathogens: Disease of Farmed and Wild Fish","author":"Austin","year":"2016","edition":"6th edn"},{"key":"key\n\t\t\t\t20180215000900_bib6","doi-asserted-by":"crossref","first-page":"277","DOI":"10.1016\/S0723-2020(89)80026-8","article-title":"Taxonomy of fish associated Aeromonas spp., with the description of Aeromonas salmonicida subsp. smithia subsp. nov","volume":"11","author":"Austin","year":"1989","journal-title":"Syst Appl Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib7","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1016\/j.femsle.2004.10.039","article-title":"Characterization of pRAS1-like plasmids from atypical North American psychrophilic Aeromonas salmonicida","volume":"242","author":"Casas","year":"2005","journal-title":"FEMS Microbiol Lett"},{"key":"key\n\t\t\t\t20180215000900_bib8","doi-asserted-by":"crossref","first-page":"15258","DOI":"10.1016\/S0021-9258(18)98611-4","article-title":"Structure of the tetragonal surface virulence array protein and gene of Aeromonas salmonicida","volume":"266","author":"Chu","year":"1991","journal-title":"J Biol Chem"},{"key":"key\n\t\t\t\t20180215000900_bib9","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1128\/mBio.02136-14","article-title":"Bioinformatic genome comparisons for taxonomic and phylogenetic assignments using Aeromonas as a test case","volume":"5","author":"Colston","year":"2014","journal-title":"MBio"},{"key":"key\n\t\t\t\t20180215000900_bib10","first-page":"473","article-title":"Proposal to recognize the family Aeromonadaceae fam. nov","volume":"36","author":"Colwell","year":"1986","journal-title":"Int J Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib11","doi-asserted-by":"crossref","first-page":"7696","DOI":"10.1128\/AEM.02411-13","article-title":"GET_HOMOLOGUES, a versatile software package for scalable and robust microbial pangenome analysis","volume":"79","author":"Contreras-Moreira","year":"2013","journal-title":"Appl Environ Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib12","volume-title":"Cowan and Steel's Manual for the Identification of Medical Bacteria","author":"Cowan","year":"2003","edition":"3rd edn"},{"key":"key\n\t\t\t\t20180215000900_bib13","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1186\/1471-2148-10-210","article-title":"BMGE (Block Mapping and Gathering with Entropy): a new software for selection of phylogenetic informative regions from multiple sequence alignments","volume":"10","author":"Criscuolo","year":"2010","journal-title":"BMC Evol Biol"},{"key":"key\n\t\t\t\t20180215000900_bib14","doi-asserted-by":"crossref","first-page":"353","DOI":"10.1016\/j.vetmic.2011.04.034","article-title":"Alteration of virulence factors and rearrangement of pAsa5 plasmid caused by the growth of Aeromonas salmonicida in stressful conditions","volume":"152","author":"Daher","year":"2011","journal-title":"Vet Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib15","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.vetmic.2013.06.025","article-title":"Virulence, genomic features, and plasticity of Aeromonas salmonicida subsp. salmonicida, the causative agent of fish furunculosis","volume":"169","author":"Dallaire-Dufresne","year":"2014","journal-title":"Vet Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib16","first-page":"1","article-title":"\u00dcber eine durch Bakterien erzengte Seuche unter den Forellen","volume":"21","author":"Emmerich","year":"1894","journal-title":"Arch Hyg Bakteriol"},{"key":"key\n\t\t\t\t20180215000900_bib17","doi-asserted-by":"crossref","first-page":"68","DOI":"10.1016\/j.vetmic.2014.11.014","article-title":"Variants of a genomic island in Aeromonas salmonicida subsp. salmonicida link isolates with their geographical origins","volume":"175","author":"Emond-Rheault","year":"2015","journal-title":"Vet Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib18","author":"Gerhardt","year":"1994","journal-title":"Methods for General and Molecular Bacteriology"},{"key":"key\n\t\t\t\t20180215000900_bib19","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1093\/nar\/gkm360","article-title":"CRISPRFinder: a web tool to identify clustered regularly interspace short palindromic repeats","volume":"35","author":"Grissa","year":"2007","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20180215000900_bib20","doi-asserted-by":"crossref","first-page":"452","DOI":"10.1006\/jmbi.1994.1247","article-title":"Mutagenesis of the paracrystalline surface protein array of Aeromonas salmonicida by endogenous insertion elements","volume":"237","author":"Gustafson","year":"1994","journal-title":"J Mol Biol"},{"key":"key\n\t\t\t\t20180215000900_bib21","doi-asserted-by":"crossref","first-page":"294","DOI":"10.1186\/s13059-015-0849-0","article-title":"Circlator: automated circularization of genome assemblies using long sequencing reads","volume":"16","author":"Hunt","year":"2015","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t20180215000900_bib22","doi-asserted-by":"crossref","first-page":"369","DOI":"10.1093\/oxfordjournals.jbchem.a021946","article-title":"Structure and function of bacterial cytochrome c oxidase","volume":"123","author":"Iwata","year":"1998","journal-title":"J Biochem"},{"issue":"D1","key":"key\n\t\t\t\t20180215000900_bib23","doi-asserted-by":"crossref","first-page":"D566","DOI":"10.1093\/nar\/gkw1004","article-title":"CARD 2017: expansion and model-centric curation of the comprehensive antibiotic resistance database","volume":"45","author":"Jia","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20180215000900_bib24","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1089\/10766290152652819","article-title":"Class 1 integrons mediate antibiotic resistance in the fish pathogen Aeromonas salmonicida worldwide","volume":"7","author":"L\u2019Ab\u00e9e-Lund","year":"2001","journal-title":"Microb Drug Resist"},{"key":"key\n\t\t\t\t20180215000900_bib25","doi-asserted-by":"crossref","first-page":"fnw190","DOI":"10.1093\/femsle\/fnw190","article-title":"Aeromonas salmonicida subsp. salmonicida strains isolated from Chinese freshwater fish contain a novel genomic island and possible regional-specific mobile genetic elements profiles","volume":"363","author":"Long","year":"2016","journal-title":"FEMS Microbiol Lett"},{"key":"key\n\t\t\t\t20180215000900_bib26","doi-asserted-by":"crossref","first-page":"556","DOI":"10.1007\/0-387-28022-7_12","article-title":"Aeromonadales ord. nov","volume-title":"Bergey's Manual\u00ae of Systematic Bacteriology","author":"Martin-Carnahan","year":"2005"},{"key":"key\n\t\t\t\t20180215000900_bib27","doi-asserted-by":"crossref","first-page":"M486","DOI":"10.1111\/j.1750-3841.2011.02303.x","article-title":"Prevalence, characterization, and antimicrobial resistance of Aeromonas strains from various retail food products in Mumbai, India","volume":"76","author":"Nagar","year":"2011","journal-title":"J Food Sci"},{"key":"key\n\t\t\t\t20180215000900_bib28","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies","volume":"32","author":"Nguyen","year":"2015","journal-title":"Mol Biol Evol"},{"key":"key\n\t\t\t\t20180215000900_bib29","doi-asserted-by":"crossref","first-page":"1119","DOI":"10.1099\/00207713-50-3-1119","article-title":"Aeromonas salmonicida subsp. pectinolytica subsp. nov., a new pectinase-positive subspecies isolated from a heavily polluted river","volume":"50","author":"Pavan","year":"2000","journal-title":"Int J Syst Evol Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib30","doi-asserted-by":"crossref","first-page":"494","DOI":"10.3389\/fmicb.2015.00494","article-title":"Insight into the mobilome of Aeromonas strains","volume":"6","author":"Piotrowska","year":"2015","journal-title":"Front Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib31","doi-asserted-by":"crossref","first-page":"427","DOI":"10.1186\/1471-2164-9-427","article-title":"The genome of Aeromonas salmonicida subsp. salmonicida A449: insights into the evolution of a fish pathogen","volume":"9","author":"Reith","year":"2008","journal-title":"BMC Genomics"},{"key":"key\n\t\t\t\t20180215000900_bib32","doi-asserted-by":"crossref","first-page":"19126","DOI":"10.1073\/pnas.0906412106","article-title":"Shifting the genomic gold standard for the prokaryotic species definition","volume":"106","author":"Richter","year":"2009","journal-title":"Proc Natl Acad Sci U S A"},{"key":"key\n\t\t\t\t20180215000900_bib33","doi-asserted-by":"crossref","first-page":"D32","DOI":"10.1093\/nar\/gkj014","article-title":"ISfinder: the reference centre for bacterial insertion sequences","volume":"34","author":"Siguier","year":"2006","journal-title":"Nucleic Acids Res"},{"key":"key\n\t\t\t\t20180215000900_bib34","doi-asserted-by":"crossref","first-page":"e33725","DOI":"10.1371\/journal.pone.0033725","article-title":"An insertion sequence-dependent plasmid rearrangement in Aeromonas salmonicida causes the loss of the type three secretion system","volume":"7","author":"Tanaka","year":"2012","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180215000900_bib35","doi-asserted-by":"crossref","first-page":"528","DOI":"10.1186\/s12864-017-3921-1","article-title":"Plasmid composition in Aeromonas salmonicida subsp. salmonicida 01-B526 unravels unsuspected type three secretion system loss patterns","volume":"18","author":"Tanaka","year":"2017","journal-title":"BMC Genomics"},{"key":"key\n\t\t\t\t20180215000900_bib36","doi-asserted-by":"crossref","first-page":"e2595","DOI":"10.7717\/peerj.2595","article-title":"The mosaic architecture of Aeromonas salmonicida subsp. salmonicida pAsa4 plasmid and its consequences on antibiotic resistance","volume":"4","author":"Tanaka","year":"2016","journal-title":"PeerJ"},{"key":"key\n\t\t\t\t20180215000900_bib37","doi-asserted-by":"crossref","first-page":"35617","DOI":"10.1038\/srep35617","article-title":"Diversity of antibiotic-resistance genes in Canadian isolates of Aeromonas salmonicida subsp. salmonicida: dominance of pSN254b and discovery of pAsa8","volume":"6","author":"Trudel","year":"2016","journal-title":"Sci Rep"},{"key":"key\n\t\t\t\t20180215000900_bib38","doi-asserted-by":"crossref","first-page":"709","DOI":"10.1080\/1040841X.2017.1303661","article-title":"The impact of insertion sequences on bacterial genome plasticity and adaptability","volume":"43","author":"Vandecraen","year":"2017","journal-title":"Crit Rev Microbiol"},{"key":"key\n\t\t\t\t20180215000900_bib39","doi-asserted-by":"crossref","first-page":"R30","DOI":"10.1186\/gb-2011-12-3-r30","article-title":"ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes","volume":"12","author":"Varani","year":"2011","journal-title":"Genome Biol"},{"key":"key\n\t\t\t\t20180215000900_bib40","doi-asserted-by":"crossref","first-page":"R181","DOI":"10.1016\/j.cub.2004.02.014","article-title":"\u201cSpalog\u201d and \u201csequelog\u201d: neutral terms for spatial and sequence similarity","volume":"14","author":"Varshavsky","year":"2004","journal-title":"Curr Biol"},{"key":"key\n\t\t\t\t20180215000900_bib41","doi-asserted-by":"crossref","first-page":"607","DOI":"10.1128\/AAC.50.2.607-617.2006","article-title":"Emergence of DHA-1-producing Klebsiella spp. in the Parisian region: Genetic organization of the ampC and ampR genes originating from Morganella morganii","volume":"50","author":"Verdet","year":"2006","journal-title":"Antimicrob Agents Chemother"},{"key":"key\n\t\t\t\t20180215000900_bib42","doi-asserted-by":"crossref","first-page":"186","DOI":"10.1016\/j.mimet.2014.10.016","article-title":"Improvement in the DNA sequencing of genomes bearing long repeated elements","volume":"107","author":"Vincent","year":"2014","journal-title":"J Microbiol Methods"},{"key":"key\n\t\t\t\t20180215000900_bib43","doi-asserted-by":"crossref","first-page":"1241","DOI":"10.1111\/jfd.12595","article-title":"Phylogenetic analysis of the fish pathogen Aeromonas salmonicida underlines the dichotomy between European and Canadian strains for the salmonicida subspecies","volume":"40","author":"Vincent","year":"2017","journal-title":"J Fish Dis"},{"key":"key\n\t\t\t\t20180215000900_bib44","doi-asserted-by":"crossref","first-page":"942","DOI":"10.1099\/mic.0.000286","article-title":"Antibiotic resistance due to an unusual ColE1-type replicon plasmid in Aeromonas salmonicida","volume":"162","author":"Vincent","year":"2016","journal-title":"Microbiology"},{"key":"key\n\t\t\t\t20180215000900_bib45","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12864-016-2381-3","article-title":"Increasing genomic diversity and evidence of constrained lifestyle evolution due to insertion sequences in Aeromonas salmonicida","volume":"17","author":"Vincent","year":"2016","journal-title":"BMC Genomics"},{"key":"key\n\t\t\t\t20180215000900_bib46","doi-asserted-by":"crossref","first-page":"7367","DOI":"10.1128\/AAC.03730-14","article-title":"Detection of variants of the pRAS3, pAB5S9, and pSN254 plasmids in Aeromonas salmonicida subsp. salmonicida: multidrug-resistance, interspecies exchanges, and plasmid reshaping","volume":"58","author":"Vincent","year":"2014","journal-title":"Antimicrob Agents Chemother"}],"container-title":["FEMS Microbiology Letters"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/femsle\/article-pdf\/364\/23\/fnx239\/23931534\/fnx239.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,8,6]],"date-time":"2022-08-06T17:56:19Z","timestamp":1659808579000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/femsle\/article\/doi\/10.1093\/femsle\/fnx239\/4604818"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2017,11,8]]},"references-count":46,"journal-issue":{"issue":"23","published-online":{"date-parts":[[2017,11,8]]},"published-print":{"date-parts":[[2017,12,15]]}},"URL":"https:\/\/doi.org\/10.1093\/femsle\/fnx239","relation":{},"ISSN":["1574-6968"],"issn-type":[{"value":"1574-6968","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2017,12]]},"published":{"date-parts":[[2017,11,8]]}}}