{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,6]],"date-time":"2026-10-06T06:09:36Z","timestamp":1791266976914,"version":"4.1.0"},"reference-count":50,"publisher":"American Society for Microbiology","issue":"17","license":[{"start":{"date-parts":[[2015,9,1]],"date-time":"2015-09-01T00:00:00Z","timestamp":1441065600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2015,9]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:p>\n            <jats:named-content content-type=\"genus-species\">Clostridium botulinum<\/jats:named-content>\n            group II isolates (\n            <jats:italic>n<\/jats:italic>\n            = 163) from different geographic regions, outbreaks, and neurotoxin types and subtypes were characterized\n            <jats:italic>in silico<\/jats:italic>\n            using whole-genome sequence data. Two clusters representing a variety of botulinum neurotoxin (BoNT) types and subtypes were identified by multilocus sequence typing (MLST) and core single nucleotide polymorphism (SNP) analysis. While one cluster included BoNT\/B4\/F6\/E9 and nontoxigenic members, the other comprised a wide variety of different BoNT\/E subtype isolates and a nontoxigenic strain.\n            <jats:italic>In silico<\/jats:italic>\n            MLST and core SNP methods were consistent in terms of clade-level isolate classification; however, core SNP analysis showed higher resolution capability. Furthermore, core SNP analysis correctly distinguished isolates by outbreak and location. This study illustrated the utility of next-generation sequence-based typing approaches for isolate characterization and source attribution and identified discrete SNP loci and MLST alleles for isolate comparison.\n          <\/jats:p>","DOI":"10.1128\/aem.01155-15","type":"journal-article","created":{"date-parts":[[2015,6,27]],"date-time":"2015-06-27T12:26:52Z","timestamp":1435408012000},"page":"5938-5948","update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":25,"title":["Clostridium botulinum Group II Isolate Phylogenomic Profiling Using Whole-Genome Sequence Data"],"prefix":"10.1128","volume":"81","author":[{"given":"K. A.","family":"Weedmark","sequence":"first","affiliation":[{"name":"National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"P.","family":"Mabon","sequence":"additional","affiliation":[{"name":"National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"K. L.","family":"Hayden","sequence":"additional","affiliation":[{"name":"National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"D.","family":"Lambert","sequence":"additional","affiliation":[{"name":"Bureau of Microbial Hazards, Health Products and Food Branch, Health Canada, Ottawa, Ontario, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"G.","family":"Van Domselaar","sequence":"additional","affiliation":[{"name":"National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"J. W.","family":"Austin","sequence":"additional","affiliation":[{"name":"Bureau of Microbial Hazards, Health Products and Food Branch, Health Canada, Ottawa, Ontario, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"C. R.","family":"Corbett","sequence":"additional","affiliation":[{"name":"National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, Manitoba, Canada"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","doi-asserted-by":"publisher","DOI":"10.1001\/jama.285.8.1059"},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.resmic.2014.09.007"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro3295"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciq240"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciq256"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.3201\/eid1906.120873"},{"key":"e_1_3_3_8_2","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1016\/S0065-2628(08)60338-9","article-title":"Clostridium botulinum and its importance in fishery products","volume":"22","author":"Hobbs G","year":"1976","unstructured":"Hobbs G. 1976. Clostridium botulinum and its importance in fishery products. Adv Food Res 22:135\u2013185.","journal-title":"Adv Food Res"},{"key":"e_1_3_3_9_2","doi-asserted-by":"crossref","first-page":"426","DOI":"10.1111\/j.1365-2672.1965.tb02173.x","article-title":"The incidence of Clostridium botulinum type E in fish and bottom deposits in the North Sea and off the coast of Scandinavia","volume":"28","author":"Cann DC","year":"1965","unstructured":"Cann DC, Wilson BB, Hobbs G, Shewan JM, Johannsen A. 1965. The incidence of Clostridium botulinum type E in fish and bottom deposits in the North Sea and off the coast of Scandinavia. J Appl Bacteriol 28:426\u2013430.","journal-title":"J Appl Bacteriol"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1139\/m75-136"},{"key":"e_1_3_3_11_2","doi-asserted-by":"crossref","first-page":"763","DOI":"10.1139\/m72-121","article-title":"Distribution of Clostridium botulinum type E in the Gulf of St. Lawrence in relation to the physical environment","volume":"18","author":"Laycock RA","year":"1972","unstructured":"Laycock RA, Loring DH. 1972. Distribution of Clostridium botulinum type E in the Gulf of St. Lawrence in relation to the physical environment. Can J Microbiol 18:763\u2013773.","journal-title":"Can J Microbiol"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.01180-06"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.05155-11"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00784-07"},{"key":"e_1_3_3_15_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.05999-11"},{"key":"e_1_3_3_16_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.02623-06"},{"key":"e_1_3_3_17_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00686-13"},{"key":"e_1_3_3_18_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.44.5.1635-1644.2006"},{"key":"e_1_3_3_19_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.64.2.703-708.1998"},{"key":"e_1_3_3_20_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01578-10"},{"key":"e_1_3_3_21_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.71.3.1148-1154.2005"},{"key":"e_1_3_3_22_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01539-07"},{"key":"e_1_3_3_23_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-14-333"},{"key":"e_1_3_3_24_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-12-245"},{"key":"e_1_3_3_25_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01573-14"},{"key":"e_1_3_3_26_2","first-page":"313","article-title":"SMALT\u2014a new mapper for DNA sequencing reads","volume":"1","author":"Ponstingl H","year":"2010","unstructured":"Ponstingl H, Ning Z. 2010. SMALT\u2014a new mapper for DNA sequencing reads. F1000 Posters 1:313.","journal-title":"F1000 Posters"},{"key":"e_1_3_3_27_2","unstructured":"Garrison E Marth G. 2012. Haplotype-based variant detection from short-read sequencing. arXiv:1207.3907v2 [q-bio.GN]."},{"key":"e_1_3_3_28_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp352"},{"key":"e_1_3_3_29_2","doi-asserted-by":"crossref","unstructured":"Inouye M Dashnow H Raven L Schultz MB Pope BJ Tomita T Zobel J Holt KE. 26 June 2014. SRST2: rapid genomic surveillance for public health and hospital microbiology labs. bioR\u03c7iv http:\/\/dx.doi.org\/10.1101\/006627.","DOI":"10.1101\/006627"},{"key":"e_1_3_3_30_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btm404"},{"key":"e_1_3_3_31_2","doi-asserted-by":"publisher","DOI":"10.1093\/sysbio\/syq010"},{"key":"e_1_3_3_32_2","doi-asserted-by":"publisher","DOI":"10.1080\/10635150600755453"},{"key":"e_1_3_3_33_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00080-13"},{"key":"e_1_3_3_34_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.meegid.2014.12.002"},{"key":"e_1_3_3_35_2","doi-asserted-by":"publisher","DOI":"10.1128\/genomeA.01111-14"},{"key":"e_1_3_3_36_2","doi-asserted-by":"publisher","DOI":"10.1128\/genomeA.00083-15"},{"key":"e_1_3_3_37_2","doi-asserted-by":"publisher","DOI":"10.1093\/gbe\/evu164"},{"key":"e_1_3_3_38_2","doi-asserted-by":"publisher","DOI":"10.1007\/s00239-001-0034-9"},{"key":"e_1_3_3_39_2","doi-asserted-by":"publisher","DOI":"10.1098\/rstb.2012.0202"},{"key":"e_1_3_3_40_2","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.02158-14"},{"key":"e_1_3_3_41_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.03934-13"},{"key":"e_1_3_3_42_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-14-192"},{"key":"e_1_3_3_43_2","doi-asserted-by":"publisher","DOI":"10.3201\/eid1711.110794"},{"key":"e_1_3_3_44_2","doi-asserted-by":"publisher","DOI":"10.1038\/ng.705"},{"key":"e_1_3_3_45_2","doi-asserted-by":"publisher","DOI":"10.1101\/gr.6282807"},{"key":"e_1_3_3_46_2","first-page":"48","article-title":"Botulism in Canada, with report of a type E outbreak at Nanaimo, BC","volume":"38","author":"Dolman CE","year":"1947","unstructured":"Dolman CE, Kerr DE. 1947. Botulism in Canada, with report of a type E outbreak at Nanaimo, BC. Can J Public Health 38:48\u201357.","journal-title":"Can J Public Health"},{"key":"e_1_3_3_47_2","first-page":"432","article-title":"Existence in France of human botulism due to fish and to Clostridium botulinum E","volume":"135","author":"Prevot AR","year":"1951","unstructured":"Prevot AR, Huet M. 1951. Existence in France of human botulism due to fish and to Clostridium botulinum E. Bull Acad Natl Med 135:432\u2013435.","journal-title":"Bull Acad Natl Med"},{"key":"e_1_3_3_48_2","doi-asserted-by":"publisher","DOI":"10.1186\/1741-7007-7-66"},{"key":"e_1_3_3_49_2","doi-asserted-by":"publisher","DOI":"10.4161\/mge.1.3.17617"},{"key":"e_1_3_3_50_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-12-185"},{"key":"e_1_3_3_51_2","first-page":"473","article-title":"Human botulism caused by Clostridium botulinum type E: the Birmingham outbreak","volume":"48","author":"Ball AP","year":"1979","unstructured":"Ball AP, Hopkinson RB, Farrell ID, Hutchison JG, Paul R, Watson RD, Page AJ, Parker RG, Edwards CW, Snow M, Scott DK, Leone-Ganado A, Hastings A, Ghosh AC, Gilbert RJ. 1979. Human botulism caused by Clostridium botulinum type E: the Birmingham outbreak. Q J Med 48:473\u2013491.","journal-title":"Q J Med"}],"container-title":["Applied and Environmental Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/AEM.01155-15","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/AEM.01155-15","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,2,23]],"date-time":"2022-02-23T18:03:58Z","timestamp":1645639438000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/AEM.01155-15"}},"subtitle":[],"editor":[{"given":"M. W.","family":"Griffiths","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2015,9]]},"references-count":50,"journal-issue":{"issue":"17","published-print":{"date-parts":[[2015,9]]}},"alternative-id":["10.1128\/AEM.01155-15"],"URL":"https:\/\/doi.org\/10.1128\/aem.01155-15","relation":{},"ISSN":["0099-2240","1098-5336"],"issn-type":[{"value":"0099-2240","type":"print"},{"value":"1098-5336","type":"electronic"}],"subject":[],"published":{"date-parts":[[2015,9]]},"assertion":[{"value":"2015-04-20","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2015-06-15","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2015-08-07","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}]}}