{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,11]],"date-time":"2026-05-11T12:38:38Z","timestamp":1778503118527,"version":"3.51.4"},"reference-count":16,"publisher":"SAGE Publications","issue":"7","license":[{"start":{"date-parts":[[2019,7,1]],"date-time":"2019-07-01T00:00:00Z","timestamp":1561939200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2019,7,1]],"date-time":"2019-07-01T00:00:00Z","timestamp":1561939200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.sagepub.com\/page\/policies\/text-and-data-mining-license"}],"content-domain":{"domain":["journals.sagepub.com"],"crossmark-restriction":true},"short-container-title":["Foodborne Pathogens and Disease"],"published-print":{"date-parts":[[2019,7]]},"abstract":"\n A total of 73 nontyphoidal\n Salmonella enterica<\/jats:italic>\n isolates, 33 from raw chicken meat and 40 from routine clinical specimens, were collected between 2015 and 2017 from eight cities in Sri Lanka for a pilot study of whole-genome sequencing for\n Salmonella<\/jats:italic>\n surveillance. The isolates were characterized by conventional serotyping and whole-genome sequencing. The raw sequenced data were assembled and analyzed to predict\n Salmonella<\/jats:italic>\n serotypes, determine sequence type (ST) profiles of genome and plasmid, and identify plasmid replicon sequences and antimicrobial resistance (AMR) genes. The most common serovar isolated from chicken meat was\n Salmonella enterica<\/jats:italic>\n serovar Agona of ST13 (\n n<\/jats:italic>\n \u2009=\u200916), in contrast to\n Salmonella enterica<\/jats:italic>\n serovar Enteritidis of ST11 (\n n<\/jats:italic>\n \u2009=\u200921) in human.\n Salmonella enterica<\/jats:italic>\n serovar Corvallis is the only serovar that was overlapping between human and chicken meat. The level of agreement between serotyping and serotype prediction results was 100%. Among the 33 chicken isolates, multidrug resistance (MDR) was observed in five isolates, including two\n Salmonella enterica<\/jats:italic>\n serovar Kentucky ST314, which harbored six different classes of AMR determinants. Among the 40 human isolates, MDR was detected in two\n Salmonella enterica<\/jats:italic>\n serovar Chester (ST2063) isolates containing five different antibiotic classes of AMR determinants. Out of 73 isolates, the only human\n Salmonella enterica<\/jats:italic>\n serovar Typhimurium strain of ST36 was found to possess extended-spectrum beta-lactamase (ESBL) gene, bla\n CTX-M-15<\/jats:sub>\n , and it was positive for ESBL production. In summary, this study identified\n S<\/jats:italic>\n .\n enterica<\/jats:italic>\n serovars that were dominating in chicken meat and human and showed the genomic differences among the chicken meat and human strains. It should be noted that the limited number of isolates and sampling at a different time period means that thorough source attribution is not possible. To the best of our knowledge, this is the first report on the use of whole-genome sequencing analysis of nontyphoidal\n S<\/jats:italic>\n .\n enterica<\/jats:italic>\n isolated from chicken meat and human in Sri Lanka.\n <\/jats:p>","DOI":"10.1089\/fpd.2018.2604","type":"journal-article","created":{"date-parts":[[2019,5,17]],"date-time":"2019-05-17T10:10:22Z","timestamp":1558087822000},"page":"531-537","update-policy":"https:\/\/doi.org\/10.1177\/sage-journals-update-policy","source":"Crossref","is-referenced-by-count":20,"title":["Whole-Genome Sequencing Analysis of Nontyphoidal\n Salmonella enterica<\/i>\n of Chicken Meat and Human Origin Under Surveillance in Sri Lanka"],"prefix":"10.1177","volume":"16","author":[{"given":"Moon Y.F.","family":"Tay","sequence":"first","affiliation":[{"name":"School of Chemical and Biomedical Engineering, Nanyang Technological University (NTU), Singapore, Singapore."},{"name":"Nanyang Technological University Food Technology Centre (NAFTEC), Nanyang Technological University (NTU), Singapore, Singapore."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sujatha","family":"Pathirage","sequence":"additional","affiliation":[{"name":"Enteric Reference Laboratory, Department of Bacteriology, Medical Research Institute (MRI), Colombo, Sri Lanka."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lakshmi","family":"Chandrasekaran","sequence":"additional","affiliation":[{"name":"School of Chemical and Biomedical Engineering, Nanyang Technological University (NTU), Singapore, Singapore."},{"name":"Nanyang Technological University Food Technology Centre (NAFTEC), Nanyang Technological University (NTU), Singapore, Singapore."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Uddami","family":"Wickramasuriya","sequence":"additional","affiliation":[{"name":"Enteric Reference Laboratory, Department of Bacteriology, Medical Research Institute (MRI), Colombo, Sri Lanka."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nirasha","family":"Sadeepanie","sequence":"additional","affiliation":[{"name":"Enteric Reference Laboratory, Department of Bacteriology, Medical Research Institute (MRI), Colombo, Sri Lanka."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kaushalya D.K.","family":"Waidyarathna","sequence":"additional","affiliation":[{"name":"Enteric Reference Laboratory, Department of Bacteriology, Medical Research Institute (MRI), Colombo, Sri Lanka."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Liyanaralalage Dilini Chathurika","family":"Liyanage","sequence":"additional","affiliation":[{"name":"Enteric Reference Laboratory, Department of Bacteriology, Medical Research Institute (MRI), Colombo, Sri Lanka."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kelyn L.G.","family":"Seow","sequence":"additional","affiliation":[{"name":"School of Chemical and Biomedical Engineering, Nanyang Technological University (NTU), Singapore, Singapore."},{"name":"Nanyang Technological University Food Technology Centre (NAFTEC), Nanyang Technological University (NTU), Singapore, Singapore."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rene S.","family":"Hendriksen","sequence":"additional","affiliation":[{"name":"National Food Institute, Technical University of Denmark, Kongens Lyngby, 2800, Denmark."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Masami T.","family":"Takeuchi","sequence":"additional","affiliation":[{"name":"Food and Agriculture Organization of the United Nations (FAO), Rome, Italy."}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Joergen","family":"Schlundt","sequence":"additional","affiliation":[{"name":"School of Chemical and Biomedical Engineering, Nanyang Technological University (NTU), Singapore, Singapore."},{"name":"Nanyang Technological University Food Technology Centre (NAFTEC), Nanyang Technological University (NTU), Singapore, Singapore."}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"179","published-online":{"date-parts":[[2019,7,9]]},"reference":[{"key":"e_1_3_4_2_1","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky379"},{"key":"e_1_3_4_3_1","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1007261"},{"key":"e_1_3_4_4_1","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.02412-14"},{"key":"e_1_3_4_5_1","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00002-15"},{"key":"e_1_3_4_6_1","doi-asserted-by":"publisher","DOI":"10.7717\/peerj-cs.20"},{"key":"e_1_3_4_7_1","doi-asserted-by":"publisher","DOI":"10.1016\/S0140-6736(11)61752-2"},{"key":"e_1_3_4_8_1","doi-asserted-by":"publisher","DOI":"10.1016\/j.foodcont.2018.12.043"},{"key":"e_1_3_4_9_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt086"},{"key":"e_1_3_4_10_1","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.06094-11"},{"key":"e_1_3_4_11_1","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.41.9.4292-4297.2003"},{"key":"e_1_3_4_12_1","unstructured":"Ministry of Health. Weekly Epidemiological Report. Volume 2018. Sri Lanka: Epidemiology Unit Ministry of Health 2018."},{"key":"e_1_3_4_13_1","doi-asserted-by":"publisher","DOI":"10.1093\/clinids\/24.Supplement_1.S106"},{"key":"e_1_3_4_14_1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu033"},{"key":"e_1_3_4_15_1","first-page":"8","article-title":"Whole-genome sequencing of nontyphoidal Salmonella enterica isolates obtained from various meat types in Ghana","author":"Tay MYF","year":"2019","unstructured":"Tay MYF, , Adzitey F, , Sultan SA, , Tati JM, , Seow KLG, , and Schlundt J. Whole-genome sequencing of nontyphoidal Salmonella enterica isolates obtained from various meat types in Ghana. Microbiol Res Anncmnts, 2019; 8.","journal-title":"Microbiol Res Anncmnts"},{"key":"e_1_3_4_16_1","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dks261"},{"key":"e_1_3_4_17_1","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00323-15"}],"container-title":["Foodborne Pathogens and Disease"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.sagepub.com\/doi\/full-xml\/10.1089\/fpd.2018.2604","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/fpd.2018.2604","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.sagepub.com\/doi\/pdf\/10.1089\/fpd.2018.2604","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,4,29]],"date-time":"2026-04-29T06:23:14Z","timestamp":1777443794000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.sagepub.com\/doi\/10.1089\/fpd.2018.2604"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,7]]},"references-count":16,"journal-issue":{"issue":"7","published-print":{"date-parts":[[2019,7]]}},"alternative-id":["10.1089\/fpd.2018.2604"],"URL":"https:\/\/doi.org\/10.1089\/fpd.2018.2604","relation":{},"ISSN":["1535-3141","1556-7125"],"issn-type":[{"value":"1535-3141","type":"print"},{"value":"1556-7125","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,7]]}}}