{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,9]],"date-time":"2026-10-09T00:16:41Z","timestamp":1791505001964,"version":"4.3.4"},"reference-count":35,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2023,9,1]],"date-time":"2023-09-01T00:00:00Z","timestamp":1693526400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2023,9,1]],"date-time":"2023-09-01T00:00:00Z","timestamp":1693526400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2023,7,28]],"date-time":"2023-07-28T00:00:00Z","timestamp":1690502400000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Veterinary Microbiology"],"published-print":{"date-parts":[[2023,9]]},"DOI":"10.1016\/j.vetmic.2023.109839","type":"journal-article","created":{"date-parts":[[2023,7,28]],"date-time":"2023-07-28T18:21:03Z","timestamp":1690568463000},"page":"109839","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":8,"special_numbering":"C","title":["Genome characteristics related to the virulence of Streptococcus suis in Swedish pigs"],"prefix":"10.1016","volume":"284","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7076-5808","authenticated-orcid":false,"given":"Anna","family":"Werinder","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anna","family":"Asp\u00e1n","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Magdalena","family":"Jacobson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Annette","family":"Backhans","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marie","family":"Sj\u00f6lund","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bengt","family":"Guss","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert","family":"S\u00f6derlund","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.vetmic.2023.109839_bib1","doi-asserted-by":"crossref","first-page":"162","DOI":"10.1186\/s12866-016-0782-8","article-title":"Determining Streptococcus suis serotype from short-read whole-genome sequencing data","volume":"16","author":"Athey","year":"2016","journal-title":"BMC Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib2","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1089\/cmb.2012.0021","article-title":"SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing","volume":"19","author":"Bankevich","year":"2012","journal-title":"J. Comput. Biol."},{"key":"10.1016\/j.vetmic.2023.109839_bib3","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"10.1016\/j.vetmic.2023.109839_bib4","doi-asserted-by":"crossref","first-page":"238","DOI":"10.1186\/s13059-016-1108-8","article-title":"Rapid scoring of genes in microbial pan-genome-wide association studies with Scoary","volume":"17","author":"Brynildsrud","year":"2016","journal-title":"Genome Biol."},{"key":"10.1016\/j.vetmic.2023.109839_bib5","doi-asserted-by":"crossref","first-page":"421","DOI":"10.1186\/1471-2105-10-421","article-title":"BLAST+: architecture and applications","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinform"},{"key":"10.1016\/j.vetmic.2023.109839_bib6","doi-asserted-by":"crossref","first-page":"161","DOI":"10.1186\/1471-2180-11-161","article-title":"Genetic diversity of Streptococcus suis isolates as determined by comparative genome hybridization","volume":"11","author":"de Greeff","year":"2011","journal-title":"BMC Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib7","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1186\/s13567-022-01039-8","article-title":"Comparative analysis of Streptococcus suis genomes identifies novel candidate virulence-associated genes in North American isolates","volume":"53","author":"Estrada","year":"2022","journal-title":"Vet. Res."},{"key":"10.1016\/j.vetmic.2023.109839_bib8","doi-asserted-by":"crossref","first-page":"22","DOI":"10.1186\/s40813-021-00201-6","article-title":"Proposed virulence-associated genes of Streptococcus suis isolates from the United States serve as predictors of pathogenicity","volume":"7","author":"Estrada","year":"2021","journal-title":"Porc Health Manag"},{"key":"10.1016\/j.vetmic.2023.109839_bib9","doi-asserted-by":"crossref","first-page":"259","DOI":"10.2217\/fmb.11.149","article-title":"Virulence factors involved in the pathogenesis of the infection caused by the swine pathogen and zoonotic agent Streptococcus suis","volume":"7","author":"Fittipaldi","year":"2012","journal-title":"Future Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib10","doi-asserted-by":"crossref","first-page":"2140","DOI":"10.1099\/ijs.0.018176-0","article-title":"Partial recN gene sequencing: a new tool for identification and phylogeny within the genus Streptococcus","volume":"60","author":"Glazunova","year":"2010","journal-title":"Int J. Syst. Evol. Bacteriol."},{"key":"10.1016\/j.vetmic.2023.109839_bib11","series-title":"Diseases of Swine","first-page":"934","article-title":"Streptococcosis","author":"Gottschalk","year":"2019"},{"key":"10.1016\/j.vetmic.2023.109839_bib12","doi-asserted-by":"crossref","DOI":"10.1038\/emi.2014.45","article-title":"Streptococcus suis, an important pig pathogen and emerging zoonotic agent-an update on the worldwide distribution based on serotyping and sequence typing","volume":"3","author":"Goyette-Desjardins","year":"2014","journal-title":"Emerg. Microbes Infect."},{"key":"10.1016\/j.vetmic.2023.109839_bib13","doi-asserted-by":"crossref","DOI":"10.1177\/11779322211059238","article-title":"FastMLST: a multi-core tool for multilocus sequence typing of draft genome assemblies","volume":"15","author":"Guerrero-Araya","year":"2021","journal-title":"Bioinform Biol. Insights"},{"key":"10.1016\/j.vetmic.2023.109839_bib14","doi-asserted-by":"crossref","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.vetmic.2023.109839_bib15","doi-asserted-by":"crossref","first-page":"3671","DOI":"10.1128\/JCM.40.10.3671-3680.2002","article-title":"Development of a multilocus sequence typing scheme for the pig pathogen Streptococcus suis: identification of virulent clones and potential capsular serotype exchange","volume":"40","author":"King","year":"2002","journal-title":"J. Clin. Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib16","doi-asserted-by":"crossref","first-page":"1547","DOI":"10.1093\/molbev\/msy096","article-title":"MEGA X: Molecular evolutionary genetics analysis across computing platforms","volume":"35","author":"Kumar","year":"2018","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.vetmic.2023.109839_bib17","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with Bowtie 2","volume":"9","author":"Langmead","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.vetmic.2023.109839_bib18","doi-asserted-by":"crossref","first-page":"1570","DOI":"10.1093\/molbev\/msaa323","article-title":"Genome reduction is associated with bacterial pathogenicity across different scales of temporal and ecological divergence","volume":"38","author":"Murray","year":"2020","journal-title":"Mol. Biol. Evol."},{"key":"10.1016\/j.vetmic.2023.109839_bib19","first-page":"5","article-title":"Current taxonomical situation of Streptococcus suis","author":"Okura","year":"2016","journal-title":"Pathogens"},{"key":"10.1016\/j.vetmic.2023.109839_bib20","doi-asserted-by":"crossref","first-page":"3691","DOI":"10.1093\/bioinformatics\/btv421","article-title":"Roary: rapid large-scale prokaryote pan genome analysis","volume":"31","author":"Page","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.vetmic.2023.109839_bib21","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1039\/C5AY02550H","article-title":"Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens","volume":"8","author":"Pritchard","year":"2016","journal-title":"Anal. Methods"},{"key":"10.1016\/j.vetmic.2023.109839_bib22","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0210801","article-title":"Molecular typing of Streptococcus suis strains isolated from diseased and healthy pigs between 1996-2016","author":"Pr\u00fcfer","year":"2019","journal-title":"PloS One"},{"key":"10.1016\/j.vetmic.2023.109839_bib23","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/S0168-6445(00)00040-1","article-title":"The species concept for prokaryotes","volume":"25","author":"Rossell\u00f3-Mora","year":"2001","journal-title":"FEMS Microbiol Rev."},{"key":"10.1016\/j.vetmic.2023.109839_bib24","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0033854","article-title":"Differences in the population structure of invasive Streptococcus suis strains isolated from pigs and from humans in the Netherlands","volume":"7","author":"Schultsz","year":"2012","journal-title":"PLoS One"},{"key":"10.1016\/j.vetmic.2023.109839_bib25","doi-asserted-by":"crossref","first-page":"2068","DOI":"10.1093\/bioinformatics\/btu153","article-title":"Prokka: rapid prokaryotic genome annotation","volume":"30","author":"Seemann","year":"2014","journal-title":"Bioinformatics"},{"key":"10.1016\/j.vetmic.2023.109839_bib26","doi-asserted-by":"crossref","first-page":"374","DOI":"10.3390\/pathogens9050374","article-title":"Update on Streptococcus suis research and prevention in the era of antimicrobial restriction: 4th international workshop on S. suis","volume":"9","author":"Segura","year":"2020","journal-title":"Pathogens"},{"key":"10.1016\/j.vetmic.2023.109839_bib27","doi-asserted-by":"crossref","first-page":"585","DOI":"10.1016\/j.tim.2017.02.005","article-title":"Critical Streptococcus suis virulence factors: are they all really critical?","volume":"25","author":"Segura","year":"2017","journal-title":"Trends Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib28","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0112963","article-title":"Pilon: an integrated tool for comprehensive microbial variant detection and genome assembly improvement","volume":"9","author":"Walker","year":"2014","journal-title":"PLoS One"},{"key":"10.1016\/j.vetmic.2023.109839_bib29","first-page":"6","article-title":"Genomic signatures of human and animal disease in the zoonotic pathogen Streptococcus suis","author":"Weinert","year":"2015","journal-title":"Nat. Commun."},{"key":"10.1016\/j.vetmic.2023.109839_bib30","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s13028-020-00533-3","article-title":"Streptococcus suis in Swedish grower pigs: occurrence, serotypes, and antimicrobial susceptibility","volume":"62","author":"Werinder","year":"2020","journal-title":"Acta Vet. Scand."},{"key":"10.1016\/j.vetmic.2023.109839_bib31","doi-asserted-by":"crossref","DOI":"10.1128\/JCM.01297-21","article-title":"Whole-genome sequencing evaluation of MALDI-TOF MS as a species identification tool for Streptococcus suis","author":"Werinder","year":"2021","journal-title":"J. Clin. Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib32","first-page":"57","article-title":"Pathotyping the zoonotic pathogen Streptococcus suis: novel genetic markers to differentiate invasive disease-associated isolates from non-disease-associated isolates from England and Wales","author":"Wileman","year":"2019","journal-title":"J. Clin. Microbiol"},{"key":"10.1016\/j.vetmic.2023.109839_bib33","doi-asserted-by":"crossref","first-page":"523","DOI":"10.1186\/1471-2164-12-523","article-title":"Comparative genomic analysis of Streptococcus suis reveals significant genomic diversity among different serotypes","volume":"12","author":"Zhang","year":"2011","journal-title":"BMC Genom."},{"key":"10.1016\/j.vetmic.2023.109839_bib34","doi-asserted-by":"crossref","first-page":"1395","DOI":"10.1101\/gr.232397.117","article-title":"GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens","volume":"28","author":"Zhou","year":"2018","journal-title":"Genome Res"},{"key":"10.1016\/j.vetmic.2023.109839_bib35","doi-asserted-by":"crossref","DOI":"10.1093\/bioinformatics\/btab234","article-title":"HierCC: a multi-level clustering scheme for population assignments based on core genome MLST","author":"Zhou","year":"2021","journal-title":"Bioinformatics"}],"container-title":["Veterinary Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0378113523001918?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0378113523001918?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,10,7]],"date-time":"2025-10-07T23:24:25Z","timestamp":1759879465000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0378113523001918"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,9]]},"references-count":35,"alternative-id":["S0378113523001918"],"URL":"https:\/\/doi.org\/10.1016\/j.vetmic.2023.109839","relation":{},"ISSN":["0378-1135"],"issn-type":[{"value":"0378-1135","type":"print"}],"subject":[],"published":{"date-parts":[[2023,9]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Genome characteristics related to the virulence of Streptococcus suis in Swedish pigs","name":"articletitle","label":"Article Title"},{"value":"Veterinary Microbiology","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.vetmic.2023.109839","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2023 The Authors. Published by Elsevier B.V.","name":"copyright","label":"Copyright"}],"article-number":"109839"}}