{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,18]],"date-time":"2026-08-18T14:12:03Z","timestamp":1787062323979,"version":"build-2736575974"},"reference-count":29,"publisher":"Editorial Committee of Japanese Journal of Infectious Diseases, National Institute of Infectious Dis","issue":"1","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Jpn J Infect Dis"],"published-print":{"date-parts":[[2026,1,30]]},"DOI":"10.7883\/yoken.jjid.2024.406","type":"journal-article","created":{"date-parts":[[2025,5,29]],"date-time":"2025-05-29T18:08:05Z","timestamp":1748542085000},"page":"1-7","source":"Crossref","is-referenced-by-count":1,"title":["Draft Genome-Sequence-Based Genomic Characterization of &lt;i&gt;Salmonella enterica&lt;\/i&gt; subsp. &lt;i&gt;enterica&lt;\/i&gt; serovar Oslo Isolated from Clinical Samples in South India and a Comparison with Global Isolates"],"prefix":"10.7883","volume":"79","author":[{"given":"Paulami","family":"Dutta","sequence":"first","affiliation":[{"name":"Department of Bacteriology, ICMR-National Institute for Research in Bacterial Infections (NIRBI), India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gourab","family":"Halder","sequence":"additional","affiliation":[{"name":"Department of Bacteriology, ICMR-National Institute for Research in Bacterial Infections (NIRBI), India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manisha","family":"Ghosh","sequence":"additional","affiliation":[{"name":"Department of Bioinformatics, ICMR-National Institute for Research in Bacterial Infections (NIRBI), India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Beena","family":"Antony","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Father Muller Medical College, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Priyanka","family":"Denny","sequence":"additional","affiliation":[{"name":"Collaborative Research Center of Okayama University for Infectious Diseases in India at ICMR-NIRBI, India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Arindam","family":"Ganai","sequence":"additional","affiliation":[{"name":"Department of Bacteriology, ICMR-National Institute for Research in Bacterial Infections (NIRBI), India"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shanta","family":"Dutta","sequence":"additional","affiliation":[{"name":"Department of Bacteriology, ICMR-National Institute for Research in Bacterial Infections (NIRBI), India"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"4631","reference":[{"key":"1","doi-asserted-by":"crossref","unstructured":"1. Hartman RM, Cohen AL, Antoni S, et al. Risk factors for mortality among children younger than age 5 years with severe diarrhea in low- and middle-income countries: findings from the World Health Organization-coordinated global rotavirus and pediatric diarrhea surveillance networks. Clin Infect Dis. 2023;76:e1047-e1053. Erratum in Clin Infect Dis 2023;76:183.","DOI":"10.1093\/cid\/ciac865"},{"key":"2","doi-asserted-by":"crossref","unstructured":"2. Jain P, Chowdhury G, Samajpati S, <i>et al.<\/i> Characterization of non-typhoidal <i>Salmonella<\/i> isolates from children with acute gastroenteritis, Kolkata, India, during 2000\u20132016. Braz J Microbiol. 2020;51:613-627.","DOI":"10.1007\/s42770-019-00213-z"},{"key":"3","unstructured":"3. Bangera SR, Umakanth S, Chowdhury G, et al. Nontyphoidal salmonellosis: Detection of genes responsible for virulence- A hospital-based study from Manipal, India. J Krishna Inst Med Sci Univ. 2022;11:1-11."},{"key":"4","doi-asserted-by":"crossref","unstructured":"4. Marchello CS, Birkhold M, Crump JA, et al. Complications and mortality of non-typhoidal salmonella invasive disease: a global systematic review and meta-analysis. Lancet Infect Dis. 2022;22:692-705.","DOI":"10.1016\/S1473-3099(21)00615-0"},{"key":"5","doi-asserted-by":"crossref","unstructured":"5. Ao TT, Feasey NA, Gordon MA, et al. Global burden of invasive nontyphoidal Salmonella disease, 2010. Emerg Infect Dis. 2015;21:941-949.","DOI":"10.3201\/eid2106.140999"},{"key":"6","doi-asserted-by":"crossref","unstructured":"6. Stanaway JD, Parisi A, Sarkar K, et al. The global burden of non-typhoidal salmonella invasive disease: a systematic analysis for the Global Burden of Disease Study 2017. Lancet Infect Dis. 2019;19:1312-1324.","DOI":"10.1016\/S1473-3099(19)30418-9"},{"key":"7","doi-asserted-by":"crossref","unstructured":"7. Santos-Ja\u00e9n JM, Le\u00f3n-G\u00f3mez A, Valls Mart\u00ednez MDC, et al. The effect of public healthcare expenditure on the reduction in mortality rates caused by unhealthy habits among the population. Healthcare (Basel). 2022;10:2253.","DOI":"10.3390\/healthcare10112253"},{"key":"8","doi-asserted-by":"crossref","unstructured":"8. Kumar S, Kumar Y, Kumar G, et al. Non-typhoidal Salmonella infections across India: emergence of a neglected group of enteric pathogens. J. Taibah Univ Med Sci. 2022;17:747-754.","DOI":"10.1016\/j.jtumed.2022.02.011"},{"key":"9","doi-asserted-by":"crossref","unstructured":"9. Bottichio L, Medus C, Sorenson A, et al. Outbreak of <i>Salmonella oslo<\/i> infections linked to Persian cucumbers- United States. MMWR Morb Mortal Wkly Rep. 2016;65:1430-1433.","DOI":"10.15585\/mmwr.mm655051a3"},{"key":"10","doi-asserted-by":"crossref","unstructured":"10. Chmel H, Armstrong D. <i>Salmonella oslo<\/i>. a focal outbreak in a hospital. Am J Med. 1976;60:203-208.","DOI":"10.1016\/0002-9343(76)90429-0"},{"key":"11","doi-asserted-by":"crossref","unstructured":"11. Khan AA, Cheng CM, Van KT, et al. Characterization of class 1 integron resistance gene cassettes in <i>Salmonella enterica<\/i> serovars Oslo and Bareily from imported seafood. J Antimicrob Chemother. 2006;58:1308-1310.","DOI":"10.1093\/jac\/dkl416"},{"key":"12","unstructured":"12. Mikoleit ML. WHO global foodborne infections network, \u201cA WHO network building capacity to detect, control and prevent foodborne and other enteric infections from farm to table\u201d laboratory protocol: \u201cisolation of <i>Salmonella<\/i> and <i>Shigella<\/i> from faecal specimens\u201d. Enteric diseases laboratory branch, Centers for Disease Control and Prevention. Atlanta, GA; 2010."},{"key":"13","unstructured":"13. Grimont PAD, Weill FX. Antigenic formulae of the <i>Salmonella<\/i> serovars. 9th ed. World Health Organization Collaborating Centre for Reference and Research on <i>Salmonella<\/i>. Paris: Institut Pasteur; 2007."},{"key":"14","unstructured":"14. Clinical and Laboratory Standards Institute (CSLI). Performance standards for antimicrobial susceptibility testing, 34th ed. CLSI supplement M100. Wayne. PA: CLSI, 2024"},{"key":"15","unstructured":"15. Murugkar HV, Rahman H, Dutta PK. Distribution of virulence genes in <i>Salmonella<\/i> serovars isolated from man &amp; animals. Indian J Med Res. 2003;117:66-70."},{"key":"16","doi-asserted-by":"crossref","unstructured":"16. Guerra B, Soto SM, Arg\u00fcelles JM, et al. Multidrug resistance is mediated by large plasmids carrying a class 1 integron in the emergent <i>Salmonella enterica<\/i> serotype [4,5,12:i:-]. Antimicrob Agents Chemother. 2001;45:1305-1308.","DOI":"10.1128\/AAC.45.4.1305-1308.2001"},{"key":"17","doi-asserted-by":"crossref","unstructured":"17. Soto SM, Rodr\u0131\u00b4guez I, Rodicio MR, et al. Detection of virulence determinants in clinical strains of <i>Salmonella enterica<\/i> serovar Enteritidis and mapping on macrorestriction profiles. J Med Microbiol. 2006;55:365-373. OK","DOI":"10.1099\/jmm.0.46257-0"},{"key":"18","doi-asserted-by":"crossref","unstructured":"18. Noda T, Murakami K, Asai T, et al. Multi-locus sequence typing of <i>Salmonella enterica<\/i> subsp. <i>enterica<\/i> serovar Enteritidis strains in Japan between 1973 and 2004. Acta Vet Scand. 2011;53:38.","DOI":"10.1186\/1751-0147-53-38"},{"key":"19","unstructured":"19. Centers for Disease Control and Prevention. Standard operating procedure for PulseNet PFGE of Escherichia coli O157:H7, Escherichia coli non-O157 (STEC), Salmonella serotypes, <i>Shigella sonnei<\/i> and <i>Shigella flexneri<\/i>. CDC, Atlanta, USA; 2013."},{"key":"20","doi-asserted-by":"crossref","unstructured":"20. Tatusova T, DiCuccio M, Badretdin A, et al. NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res. 2016;44:6614-6624.","DOI":"10.1093\/nar\/gkw569"},{"key":"21","doi-asserted-by":"crossref","unstructured":"21. Bortolaia V, Kaas RS, Ruppe E, et al. ResFinder 4.0 for predictions of phenotypes from genotypes. J Antimicrob Chemother. 2020;75:3491-3500.","DOI":"10.1093\/jac\/dkaa345"},{"key":"22","doi-asserted-by":"crossref","unstructured":"22. Kirstahler P, Bjerrum SS, Friis-M\u00f8ller A, et al. Genomics-based identification of microorganisms in human ocular body fluid. Sci Rep. 2018;8:4126.","DOI":"10.1038\/s41598-018-22416-4"},{"key":"23","doi-asserted-by":"crossref","unstructured":"23. Liu B, Zheng D, Zhou S, et al. VFDB 2022: a general classification scheme for bacterial virulence factors. Nucleic Acids Res. 2022;50:D912-D917.","DOI":"10.1093\/nar\/gkab1107"},{"key":"24","doi-asserted-by":"crossref","unstructured":"24. Kolte B, N\u00fcbel U. Genetic determinants of resistance to antimicrobial therapeutics are rare in publicly available <i>Clostridioides difficile<\/i> genome sequences, J Antimicrob Chemother. 2024;79:1320-1328.","DOI":"10.1093\/jac\/dkae101"},{"key":"25","doi-asserted-by":"crossref","unstructured":"25. Syed Abu Thahir S, Rajendiran S, Shaharudin R, <i>et al<\/i>. Multidrug-resistant <i>Salmonella<\/i> species and their mobile genetic elements from poultry farm environments in Malaysia. Antibiotics (Basel). 2023;12:1330.","DOI":"10.3390\/antibiotics12081330"},{"key":"26","doi-asserted-by":"crossref","unstructured":"26. Antony B, Shetty AK, Kuruvilla TS. Emergence and distribution of diverse serovars of non\u2011Typhoidal Salmonellae in Mangalore, Coastal Karnataka: a 12\u2011year experience. Arch Med Health Sci. 2024;14:68-72.","DOI":"10.4103\/amhs.amhs_124_23"},{"key":"27","doi-asserted-by":"crossref","unstructured":"27. Kumar R, Surendran PK, Thampuran N. Analysis of antimicrobial resistance and plasmid profiles in <i>Salmonella<\/i> serovars associated with tropical seafood of India. Foodborne Pathog Dis. 2009;6:621-625.","DOI":"10.1089\/fpd.2008.0252"},{"key":"28","doi-asserted-by":"crossref","unstructured":"28. Kakatkar AS, Pansare LS, Gautam RK, et al. Molecular characterization of antibiotic-resistant <i>Salmonella<\/i> isolates from Indian foods. Food Res Int. 2011;44:3272-3275.","DOI":"10.1016\/j.foodres.2011.09.014"},{"key":"29","doi-asserted-by":"crossref","unstructured":"29. Jain P, Sudhanthirakodi S, Chowdhury G, et al. Antimicrobial resistance, plasmid, virulence, multilocus sequence typing and pulsed-field gel electrophoresis profiles of <i>Salmonella enterica<\/i> serovar Typhimurium clinical and environmental isolates from India. PLoS ONE. 2018;13:e0207954.","DOI":"10.1371\/journal.pone.0207954"}],"container-title":["Japanese Journal of Infectious Diseases"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.jstage.jst.go.jp\/article\/yoken\/79\/1\/79_JJID.2024.406\/_pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,24]],"date-time":"2026-01-24T03:19:01Z","timestamp":1769224741000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.jstage.jst.go.jp\/article\/yoken\/79\/1\/79_JJID.2024.406\/_article"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,1,30]]},"references-count":29,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2026]]}},"URL":"https:\/\/doi.org\/10.7883\/yoken.jjid.2024.406","relation":{},"ISSN":["1344-6304","1884-2836"],"issn-type":[{"value":"1344-6304","type":"print"},{"value":"1884-2836","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,1,30]]},"article-number":"JJID.2024.406"}}