{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,27]],"date-time":"2026-10-27T18:27:04Z","timestamp":1793125624691,"version":"4.5.0"},"reference-count":30,"publisher":"Elsevier BV","issue":"4","license":[{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,10,1]],"date-time":"2025-10-01T00:00:00Z","timestamp":1759276800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,8,28]],"date-time":"2025-08-28T00:00:00Z","timestamp":1756339200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"funder":[{"DOI":"10.13039\/100006691","name":"Harvard Medical School","doi-asserted-by":"publisher","award":["P30 DK034854"],"award-info":[{"award-number":["P30 DK034854"]}],"id":[{"id":"10.13039\/100006691","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100005292","name":"Brigham and Women's Hospital","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100005292","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"}]},{"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\/100000092","name":"U.S. National Library of Medicine","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100000092","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100011495","name":"Massachusetts Life Sciences Center","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100011495","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["clinicalkey.com","clinicalkey.com.au","clinicalkey.es","clinicalkey.fr","clinicalkey.jp","journalofinfection.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Journal of Infection"],"published-print":{"date-parts":[[2025,10]]},"DOI":"10.1016\/j.jinf.2025.106607","type":"journal-article","created":{"date-parts":[[2025,9,2]],"date-time":"2025-09-02T06:35:57Z","timestamp":1756794957000},"page":"106607","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":4,"title":["Prospective whole genome sequencing to aid the identification and control of methicillin-susceptible Staphylococcus aureus transmissions in a neonatal ICU"],"prefix":"10.1016","volume":"91","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3295-8059","authenticated-orcid":false,"given":"Meghan A.","family":"Baker","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8641-4498","authenticated-orcid":false,"given":"Michael","family":"Klompas","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elizabeth Mermel","family":"Blaeser","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9537-4245","authenticated-orcid":false,"given":"Chanu","family":"Rhee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elisa","family":"Abdulhayoglu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julie","family":"Cadogan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elizabeth","family":"Flanigan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zach","family":"Pearson","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samantha","family":"Taffner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marisa","family":"Winkler","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicholas","family":"Boire","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jay","family":"Worley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Manfred","family":"Brigl","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lynn","family":"Bry","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5633-8746","authenticated-orcid":false,"given":"Nicole","family":"Pecora","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"issue":"18","key":"10.1016\/j.jinf.2025.106607_bib1","doi-asserted-by":"crossref","first-page":"1732","DOI":"10.1056\/NEJMoa1801550","article-title":"Changes in prevalence of health care-associated infections in U.S. Hospitals","volume":"379","author":"Magill","year":"2018","journal-title":"N Engl J Med"},{"key":"10.1016\/j.jinf.2025.106607_bib2","unstructured":"Prevention CfDCa. HAIs: Reports and Data; 2024.\u00a0\u3008https:\/\/www.cdc.gov\/healthcare-associated-infections\/php\/data\/?CDC_AAref_Val=https:\/\/www.cdc.gov\/hai\/data\/portal\/index.html\u3009."},{"key":"10.1016\/j.jinf.2025.106607_bib3","series-title":"The Direct Medical costs of Healthcare-Associated Infections in U.S. Hospitals and the Benefits of Prevention","author":"Scott","year":"2009"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib4","doi-asserted-by":"crossref","first-page":"395","DOI":"10.1097\/QCO.0000000000000383","article-title":"Outbreaks in the neonatal ICU: a review of the literature","volume":"30","author":"Johnson","year":"2017","journal-title":"Curr Opin Infect Dis"},{"issue":"5","key":"10.1016\/j.jinf.2025.106607_bib5","doi-asserted-by":"crossref","first-page":"854","DOI":"10.5114\/aoms.2012.31412","article-title":"Healthcare-associated infections in a neonatal intensive care unit","volume":"8","author":"Sadowska-Krawczenko","year":"2012","journal-title":"Arch Med Sci"},{"issue":"12","key":"10.1016\/j.jinf.2025.106607_bib6","doi-asserted-by":"crossref","first-page":"1105","DOI":"10.1001\/jamapediatrics.2015.2380","article-title":"Burden of invasive Staphylococcus aureus infections in hospitalized infants","volume":"169","author":"Ericson","year":"2015","journal-title":"JAMA Pediatr"},{"issue":"2","key":"10.1016\/j.jinf.2025.106607_bib7","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pmed.1000238","article-title":"Automated detection of infectious disease outbreaks in hospitals: a retrospective cohort study","volume":"7","author":"Huang","year":"2010","journal-title":"PLoS Med"},{"issue":"9","key":"10.1016\/j.jinf.2025.106607_bib8","doi-asserted-by":"crossref","first-page":"1016","DOI":"10.1017\/ice.2020.233","article-title":"Automated outbreak detection of hospital-associated pathogens: value to infection prevention programs","volume":"41","author":"Baker","year":"2020","journal-title":"Infect Control Hosp Epidemiol"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib9","doi-asserted-by":"crossref","first-page":"466","DOI":"10.1017\/ice.2015.325","article-title":"Lack of comprehensive outbreak detection in hospitals","volume":"37","author":"Baker","year":"2016","journal-title":"Infect Control Hosp Epidemiol"},{"issue":"10","key":"10.1016\/j.jinf.2025.106607_bib10","doi-asserted-by":"crossref","first-page":"1838","DOI":"10.1093\/cid\/ciac379","article-title":"Ralstonia pickettii and Pseudomonas aeruginosa bloodstream infections associated with contaminated extracorporeal membrane oxygenation water heater devices","volume":"75","author":"Baker","year":"2022","journal-title":"Clin Infect Dis"},{"issue":"11","key":"10.1016\/j.jinf.2025.106607_bib11","doi-asserted-by":"crossref","first-page":"677","DOI":"10.1086\/501993","article-title":"Epidemiology of methicillin-susceptible Staphylococcus aureus in the neonatal intensive care unit","volume":"23","author":"Graham","year":"2002","journal-title":"Infect Control Hosp Epidemiol"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib12","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.01030-15","article-title":"Genomically informed surveillance for Carbapenem-resistant Enterobacteriaceae in a health care system","volume":"6","author":"Pecora","year":"2015","journal-title":"mBio"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib13","doi-asserted-by":"crossref","first-page":"589","DOI":"10.1017\/ice.2022.133","article-title":"Epidemiology and genomics of a slow outbreak of methicillin-resistant Staphyloccus aureus (MRSA) in a neonatal intensive care unit: successful chronic decolonization of MRSA-positive healthcare personnel","volume":"44","author":"Quan","year":"2023","journal-title":"Infect Control Hosp Epidemiol"},{"issue":"9","key":"10.1016\/j.jinf.2025.106607_bib14","doi-asserted-by":"crossref","first-page":"1610","DOI":"10.1093\/cid\/ciac200","article-title":"Cluster of Burkholderia cepacia complex infections associated with extracorporeal membrane oxygenation water heater devices","volume":"75","author":"Rhee","year":"2022","journal-title":"Clin Infect Dis"},{"issue":"6","key":"10.1016\/j.jinf.2025.106607_bib15","doi-asserted-by":"crossref","first-page":"e02577","DOI":"10.1128\/AAC.02577-18","article-title":"Next-generation-sequencing-based hospital outbreak investigation yields insight into Klebsiella aerogenes population structure and determinants of carbapenem resistance and pathogenicity","volume":"63","author":"Malek","year":"2019","journal-title":"Antimicrob Agents Chemother"},{"issue":"1","key":"10.1016\/j.jinf.2025.106607_bib16","doi-asserted-by":"crossref","DOI":"10.1128\/aac.01479-24","article-title":"Pathogen genomics in healthcare: overcoming barriers to proactive surveillance","volume":"69","author":"Sundermann","year":"2025","journal-title":"Antimicrob Agents Chemother"},{"key":"10.1016\/j.jinf.2025.106607_bib17","doi-asserted-by":"crossref","DOI":"10.7717\/peerj-cs.20","article-title":"CFSAN SNP Pipeline: an automated method for constructing SNP matrices from next-generation sequence data","volume":"1","author":"Davis","year":"2015","journal-title":"PeerJ Comput Sci"},{"issue":"2","key":"10.1016\/j.jinf.2025.106607_bib18","doi-asserted-by":"crossref","first-page":"130","DOI":"10.1016\/S1473-3099(12)70268-2","article-title":"Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study","volume":"13","author":"Harris","year":"2013","journal-title":"Lancet Infect Dis"},{"key":"10.1016\/j.jinf.2025.106607_bib19","article-title":"Multi-site implementation of whole genome sequencing for hospital infection control: a prospective genomic epidemiological analysis","volume":"23","author":"Sherry","year":"2022","journal-title":"Lancet Reg Health West Pac"},{"issue":"8","key":"10.1016\/j.jinf.2025.106607_bib20","doi-asserted-by":"crossref","first-page":"e328","DOI":"10.1016\/S2666-5247(20)30149-X","article-title":"Definition of a genetic relatedness cutoff to exclude recent transmission of meticillin-resistant Staphylococcus aureus: a genomic epidemiology analysis","volume":"1","author":"Coll","year":"2020","journal-title":"Lancet Microbe"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib21","doi-asserted-by":"crossref","first-page":"294","DOI":"10.1038\/nbt.2522","article-title":"Updating benchtop sequencing performance comparison","volume":"31","author":"J\u00fcnemann","year":"2013","journal-title":"Nat Biotechnol"},{"key":"10.1016\/j.jinf.2025.106607_bib22","unstructured":"National Center for Biotechnology Information NLoM, National Institutes of Health, Bethesda, MD 20894, USA. The NCBI Pathogen Detection Project; 2016.\u00a0\u3008https:\/\/www.ncbi.nlm.nih.gov\/pathogens\/\u3009."},{"issue":"9","key":"10.1016\/j.jinf.2025.106607_bib23","doi-asserted-by":"crossref","DOI":"10.1001\/jamanetworkopen.2021.24938","article-title":"Surveillance for colonization, transmission, and infection with methicillin-susceptible Staphylococcus aureus in a neonatal intensive care unit","volume":"4","author":"Nurjadi","year":"2021","journal-title":"JAMA Netw Open"},{"issue":"5","key":"10.1016\/j.jinf.2025.106607_bib24","doi-asserted-by":"crossref","DOI":"10.1128\/jcm.00014-23","article-title":"Prospective genomic surveillance reveals cryptic MRSA outbreaks with local to international origins among NICU patients","volume":"61","author":"Worley","year":"2023","journal-title":"J Clin Microbiol"},{"issue":"1","key":"10.1016\/j.jinf.2025.106607_bib25","doi-asserted-by":"crossref","first-page":"2619","DOI":"10.1038\/s41598-020-59015-1","article-title":"Surveillance-embedded genomic outbreak resolution of methicillin-susceptible Staphylococcus aureus in a neonatal intensive care unit","volume":"10","author":"Cremers","year":"2020","journal-title":"Sci Rep"},{"issue":"4","key":"10.1016\/j.jinf.2025.106607_bib26","doi-asserted-by":"crossref","first-page":"203","DOI":"10.1038\/s41579-018-0147-4","article-title":"Methicillin-resistant Staphylococcus aureus: an overview of basic and clinical research","volume":"17","author":"Turner","year":"2019","journal-title":"Nat Rev Microbiol"},{"issue":"2","key":"10.1016\/j.jinf.2025.106607_bib27","doi-asserted-by":"crossref","first-page":"258","DOI":"10.3201\/eid2402.170606","article-title":"Clinical and molecular epidemiology of staphylococcal toxic shock syndrome in the United Kingdom","volume":"24","author":"Sharma","year":"2018","journal-title":"Emerg Infect Dis"},{"issue":"9","key":"10.1016\/j.jinf.2025.106607_bib28","doi-asserted-by":"crossref","DOI":"10.3390\/toxins9090270","article-title":"Spread of Tst-positive Staphylococcus aureus strains belonging to ST30 clone among patients and healthcare workers in two intensive care units","volume":"9","author":"Papadimitriou-Olivgeris","year":"2017","journal-title":"Toxins"},{"issue":"3","key":"10.1016\/j.jinf.2025.106607_bib29","first-page":"179","article-title":"The investment case for preventing NICU-associated infections","volume":"30","author":"Donovan","year":"2013","journal-title":"Am J Perinatol"},{"issue":"1","key":"10.1016\/j.jinf.2025.106607_bib30","doi-asserted-by":"crossref","first-page":"e9","DOI":"10.1093\/cid\/ciaa512","article-title":"Method for economic evaluation of bacterial whole genome sequencing surveillance compared to standard of care in detecting hospital outbreaks","volume":"73","author":"Kumar","year":"2021","journal-title":"Clin Infect Dis"}],"container-title":["Journal of Infection"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0163445325002075?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0163445325002075?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,6,2]],"date-time":"2026-06-02T08:15:23Z","timestamp":1780388123000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0163445325002075"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,10]]},"references-count":30,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2025,10]]}},"alternative-id":["S0163445325002075"],"URL":"https:\/\/doi.org\/10.1016\/j.jinf.2025.106607","relation":{},"ISSN":["0163-4453"],"issn-type":[{"value":"0163-4453","type":"print"}],"subject":[],"published":{"date-parts":[[2025,10]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Prospective whole genome sequencing to aid the identification and control of methicillin-susceptible Staphylococcus aureus transmissions in a neonatal ICU","name":"articletitle","label":"Article Title"},{"value":"Journal of Infection","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.jinf.2025.106607","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 The Authors. Published by Elsevier Ltd on behalf of The British Infection Association.","name":"copyright","label":"Copyright"}],"article-number":"106607"}}