{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,6]],"date-time":"2026-10-06T19:48:55Z","timestamp":1791316135648,"version":"4.3.1"},"reference-count":31,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2016,1,1]],"date-time":"2016-01-01T00:00:00Z","timestamp":1451606400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"}],"funder":[{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Department of Health and Human Services","award":["HHSN272200900007C"],"award-info":[{"award-number":["HHSN272200900007C"]}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Plasmid"],"published-print":{"date-parts":[[2016,1]]},"DOI":"10.1016\/j.plasmid.2015.12.001","type":"journal-article","created":{"date-parts":[[2015,12,31]],"date-time":"2015-12-31T03:15:44Z","timestamp":1451531744000},"page":"8-11","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":23,"special_numbering":"C","title":["Whole genome sequencing of diverse Shiga toxin-producing and non-producing Escherichia coli strains reveals a variety of virulence and novel antibiotic resistance plasmids"],"prefix":"10.1016","volume":"83","author":[{"given":"Liliana","family":"Losada","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chitrita","family":"DebRoy","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Diana","family":"Radune","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria","family":"Kim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ravi","family":"Sanka","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lauren","family":"Brinkac","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Subhashinie","family":"Kariyawasam","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel","family":"Shelton","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Pina M.","family":"Fratamico","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vivek","family":"Kapur","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peter C.H.","family":"Feng","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.plasmid.2015.12.001_bb0005","doi-asserted-by":"crossref","first-page":"3665","DOI":"10.1093\/bioinformatics\/bti601","article-title":"WebACT: an online companion for the artemis comparison tool","volume":"21","author":"Abbott","year":"2005","journal-title":"Bioinformatics"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0010","doi-asserted-by":"crossref","first-page":"281","DOI":"10.1111\/j.1574-6968.2005.00035.x","article-title":"The widespread occurrence of the enterohemolysin gene ehlyA among environmental strains of Escherichia coli","volume":"254","author":"Boczek","year":"2005","journal-title":"FEMS Microbiol. Lett."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0015","doi-asserted-by":"crossref","first-page":"1422","DOI":"10.1086\/466536","article-title":"Non-O157 Shiga toxin\u2013producing Escherichia coli infections in the United States, 1983\u20132002","volume":"192","author":"Brooks","year":"2005","journal-title":"J. Infect. Dis."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0020","doi-asserted-by":"crossref","first-page":"1005","DOI":"10.1099\/13500872-145-5-1005","article-title":"The large plasmid of Shiga toxin-producing Escherichia coli (STEC) are highly variable genetic elements","volume":"145","author":"Brunder","year":"1999","journal-title":"Microbiology"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0025","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1016\/j.mimet.2005.03.018","article-title":"Identification of plasmids by PCR-based replicon typing","volume":"63","author":"Carattoli","year":"2005","journal-title":"J. Microbiol. Methods"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0030","doi-asserted-by":"crossref","first-page":"D641","DOI":"10.1093\/nar\/gkr989","article-title":"VFDB 2012 update: toward the genetic diversity and molecular evolution of bacterial virulence factors","volume":"40","author":"Chen","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0035","doi-asserted-by":"crossref","first-page":"6360","DOI":"10.1128\/AEM.00316-07","article-title":"Molecular subtyping and genetic analysis of the enterohemolysin gene (ehxA) from Shiga toxin-producing Escherichia coli and atypical enteropathogenic E. coli","volume":"73","author":"Cookson","year":"2007","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0040","doi-asserted-by":"crossref","first-page":"3003","DOI":"10.1128\/AAC.00137-06","article-title":"Evidence of antibiotic resistance gene silencing in Escherichia coli","volume":"50","author":"Enne","year":"2006","journal-title":"Antimicrob. Agents Chemother."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0045","doi-asserted-by":"crossref","first-page":"820","DOI":"10.4315\/0362-028X.JFP-13-412","article-title":"Prevalence and diversity of enterotoxigenic Escherichia coli strains in fresh produce","volume":"77","author":"Feng","year":"2014","journal-title":"J. Food Prot."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0050","doi-asserted-by":"crossref","first-page":"62","DOI":"10.1111\/j.1574-6968.2010.01990.x","article-title":"Prevalence, characterization and clonal analysis of Escherichia coli O157:non-H7 serotypes that carry eae alleles","volume":"308","author":"Feng","year":"2010","journal-title":"FEMS Microbiol. Lett."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0055","doi-asserted-by":"crossref","first-page":"192","DOI":"10.1016\/j.ijmm.2010.09.002","article-title":"The complete DNA sequence and analysis of the virulence plasmid and of five additional plasmids carried by Shiga toxin-producing Escherichia coli O26:H11 strain H30","volume":"301","author":"Fratamico","year":"2011","journal-title":"Int. J. Med. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0060","doi-asserted-by":"crossref","first-page":"162","DOI":"10.1128\/MMBR.58.2.162-210.1994","article-title":"Analysis of the sequence and gene products of the transfer region of the F sex factor","volume":"58","author":"Frost","year":"1994","journal-title":"Microbiol. Rev."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0065","doi-asserted-by":"crossref","first-page":"1155","DOI":"10.1093\/jac\/dkq101","article-title":"Plasmid double locus sequence typing for IncHI2 plasmids, a subtyping scheme for the characterization of IncHI2 plasmids carrying extended-spectrum beta-lactamase and quinolone resistance genes","volume":"65","author":"Garcia-Fernandez","year":"2010","journal-title":"J. Antimicrob. Chemother."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0070","doi-asserted-by":"crossref","first-page":"182","DOI":"10.1016\/j.plasmid.2004.06.006","article-title":"The complete nucleotide sequence of the resistance plasmid R478: defining the backbone components of incompatibility group H conjugative plasmids through comparative genomics","volume":"52","author":"Gilmour","year":"2004","journal-title":"Plasmids"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0075","doi-asserted-by":"crossref","first-page":"750","DOI":"10.1128\/MMBR.00015-09","article-title":"Pathogenomics of the virulence plasmids of Escherichia coli","volume":"73","author":"Johnson","year":"2009","journal-title":"Microbiol. Mol. Biol. Rev."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0080","doi-asserted-by":"crossref","first-page":"3929","DOI":"10.1128\/AAC.00569-06","article-title":"Complete DNA sequence, comparative genomics, and prevalence of an IncHI2 plasmid occurring among extraintestinal pathogenic Escherichia coli isolates","volume":"50","author":"Johnson","year":"2006","journal-title":"Antimicrob. Agents Chemother."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0085","doi-asserted-by":"crossref","first-page":"1976","DOI":"10.1128\/AEM.02171-06","article-title":"Plasmid replicon typing of commensal and pathogenic Escherichia coli isolates","volume":"73","author":"Johnson","year":"2007","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0090","doi-asserted-by":"crossref","first-page":"2043","DOI":"10.1128\/JCM.39.6.2043-2049.2001","article-title":"Sorbitol-fermenting, Shiga toxin-producing Escherichia coli O157:H- strains: epidemiology, phenotype and molecular characteristics and microbiological diagnosis","volume":"39","author":"Karch","year":"2001","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0095","doi-asserted-by":"crossref","first-page":"97","DOI":"10.1016\/j.resmic.2006.09.004","article-title":"paa, originally identified in attaching and effacing Escherichia coli, is also associated with enterotoxigenic E. coli","volume":"158","author":"Leclerc","year":"2007","journal-title":"Res. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0100","doi-asserted-by":"crossref","first-page":"D443","DOI":"10.1093\/nar\/gkn656","article-title":"ARDB\u2013antibiotic resistance genes database","volume":"37","author":"Liu","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0105","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1093\/dnares\/5.1.1","article-title":"Complete nucleotide sequences of 93-kb and 3.3-kb plasmids of an enterohemorrhagic Escherichia coli O157:H7 derived from Sakai outbreak","volume":"5","author":"Machino","year":"1998","journal-title":"DNA Res."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0110","doi-asserted-by":"crossref","first-page":"67","DOI":"10.1093\/jac\/dkn428","article-title":"Replicon typing of plasmids in Escherichia coli producing extended-spectrum beta-lactamases","volume":"63","author":"Marcade","year":"2009","journal-title":"J. Antimicrob. Chemother."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0115","doi-asserted-by":"crossref","first-page":"1207","DOI":"10.1016\/S0140-6736(98)01267-7","article-title":"Escherichia coli O157: H7","volume":"352","author":"Mead","year":"1998","journal-title":"Lancet"},{"issue":"1","key":"10.1016\/j.plasmid.2015.12.001_bb0120","article-title":"Full sequence and comparative analysis of the plasmid pAPEC-1 of avian pathogenic E. coli \u03c77122 (O78:K80:H9)","volume":"4","author":"Mellata","year":"2009","journal-title":"PLoS"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0125","doi-asserted-by":"crossref","first-page":"2818","DOI":"10.1093\/bioinformatics\/btn548","article-title":"Aggressive assembly of pyrosequencing reads with mates","volume":"24","author":"Miller","year":"2008","journal-title":"Bioinformatics"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0130","first-page":"1511","article-title":"TraT gene sequences, serum resistance and pathogenicity-related factors in clinical isolates of Escherichia coli and other Gram-negative bacteria","volume":"131","author":"Montenegro","year":"1985","journal-title":"J. Gen. Microbiol."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0135","doi-asserted-by":"crossref","first-page":"529","DOI":"10.1038\/35054089","article-title":"Genome sequence of enterohaemorrhagic Escherichia coli O157:H7","volume":"409","author":"Perna","year":"2001","journal-title":"Nature"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0140","first-page":"1073","article-title":"Shiga-toxin-producing Escherichia coli and haemolytic uraemic syndrome","volume":"365","author":"Tarr","year":"2005","journal-title":"Lancet"},{"key":"10.1016\/j.plasmid.2015.12.001_bb0145","doi-asserted-by":"crossref","first-page":"437","DOI":"10.1128\/MMBR.55.3.437-450.1991","article-title":"Colicin V virulence plasmids","volume":"55","author":"Waters","year":"1991","journal-title":"Microbiol. Rev."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0150","doi-asserted-by":"crossref","first-page":"248","DOI":"10.7883\/yoken.JJID.2000.248","article-title":"Plasmid encoded enterotoxin (pet) gene in enteroaggregative Eshcherichia coli isolated from sporadic diarrhea cases","volume":"53","author":"Yamazaki","year":"2000","journal-title":"Jpn. J. Infect. Dis."},{"key":"10.1016\/j.plasmid.2015.12.001_bb0155","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/j.plasmid.2012.02.001","article-title":"DNA sequence and analysis of a 90.1-kb plasmid in Shiga toxin-producing Escherichia coli (STEC) O145:NM 83-75","volume":"68","author":"Yan","year":"2012","journal-title":"Plasmids"}],"container-title":["Plasmid"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0147619X15300147?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0147619X15300147?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,5,31]],"date-time":"2025-05-31T23:56:05Z","timestamp":1748735765000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0147619X15300147"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,1]]},"references-count":31,"alternative-id":["S0147619X15300147"],"URL":"https:\/\/doi.org\/10.1016\/j.plasmid.2015.12.001","relation":{},"ISSN":["0147-619X"],"issn-type":[{"value":"0147-619X","type":"print"}],"subject":[],"published":{"date-parts":[[2016,1]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Whole genome sequencing of diverse Shiga toxin-producing and non-producing Escherichia coli strains reveals a variety of virulence and novel antibiotic resistance plasmids","name":"articletitle","label":"Article Title"},{"value":"Plasmid","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.plasmid.2015.12.001","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"Published by Elsevier Inc.","name":"copyright","label":"Copyright"}]}}