{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,5]],"date-time":"2026-10-05T08:11:47Z","timestamp":1791187907578,"version":"4.1.0"},"reference-count":26,"publisher":"Cambridge University Press (CUP)","issue":"9","license":[{"start":{"date-parts":[[2015,6,8]],"date-time":"2015-06-08T00:00:00Z","timestamp":1433721600000},"content-version":"unspecified","delay-in-days":0,"URL":"https:\/\/www.cambridge.org\/core\/terms"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Infect. Control Hosp. Epidemiol."],"published-print":{"date-parts":[[2015,9]]},"abstract":"<jats:sec id=\"S0899823X15001336_abs1\" sec-type=\"general\"><jats:title>OBJECTIVE<\/jats:title><jats:p>To use whole genome sequencing to describe the likely origin of an outbreak of <jats:italic>Pseudomonas aeruginosa<\/jats:italic> in a neonatal unit.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs2\" sec-type=\"general\"><jats:title>DESIGN<\/jats:title><jats:p>Outbreak investigation.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs3\" sec-type=\"general\"><jats:title>SETTING<\/jats:title><jats:p>The neonatal intensive care unit service of a major obstetric tertiary referral center.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs4\" sec-type=\"general\"><jats:title>PATIENTS<\/jats:title><jats:p>Infants admitted to the neonatal unit who developed <jats:italic>P. aeruginosa<\/jats:italic> colonization or infection.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs5\" sec-type=\"methods\"><jats:title>METHODS<\/jats:title><jats:p>We undertook whole genome sequencing of <jats:italic>P. aeruginosa<\/jats:italic> strains isolated from colonized infants and from the neonatal unit environment.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs6\" sec-type=\"results\"><jats:title>RESULTS<\/jats:title><jats:p>Eighteen infants were colonized with <jats:italic>P. aeruginosa.<\/jats:italic> Isolates from 12 infants and 7 environmental samples were sequenced. All but one of the clinical isolates clustered in ST253 and no differences were detected between unmapped reads. The environmental isolates revealed a variety of sequence types, indicating a large diverse bioburden within the unit, which was subsequently confirmed via enterobacterial repetitive intergenic consensus\u2013polymerase chain reaction typing of post-outbreak isolates. One environmental isolate, obtained from a sink in the unit, clustered within ST253 and differed from the outbreak strain by 9 single-nucleotide polymorphisms only. This information allowed us to focus infection control activities on this sink.<\/jats:p><\/jats:sec><jats:sec id=\"S0899823X15001336_abs7\" sec-type=\"conclusions\"><jats:title>CONCLUSIONS<\/jats:title><jats:p>Whole genome sequencing can provide detailed information in a clinically relevant time frame to aid management of outbreaks in critical patient management areas. The superior discriminatory power of this method makes it a powerful tool in infection control.<\/jats:p><jats:p><jats:italic>Infect. Control Hosp. Epidemiol.<\/jats:italic> 2015;36(9):1058\u20131064<\/jats:p><\/jats:sec>","DOI":"10.1017\/ice.2015.133","type":"journal-article","created":{"date-parts":[[2015,6,7]],"date-time":"2015-06-07T23:02:35Z","timestamp":1433718155000},"page":"1058-1064","source":"Crossref","is-referenced-by-count":45,"title":["Whole Genome Sequencing in Real-Time Investigation and Management of a <i>Pseudomonas aeruginosa<\/i> Outbreak on a Neonatal Intensive Care Unit"],"prefix":"10.1017","volume":"36","author":[{"given":"Rebecca J.","family":"Davis","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Slade O.","family":"Jensen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sebastiaan","family":"Van Hal","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bj\u00f6rn","family":"Espedido","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adrienne","family":"Gordon","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rima","family":"Farhat","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Raymond","family":"Chan","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"56","published-online":{"date-parts":[[2015,6,8]]},"reference":[{"key":"S0899823X15001336_ref17","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0081760"},{"key":"S0899823X15001336_ref3","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1109910"},{"key":"S0899823X15001336_ref11","doi-asserted-by":"publisher","DOI":"10.1016\/j.jhin.2011.03.025"},{"key":"S0899823X15001336_ref18","volume-title":"Guidelines on Hand Hygiene in Health Care","year":"2009"},{"key":"S0899823X15001336_ref7","doi-asserted-by":"publisher","DOI":"10.1542\/peds.110.2.285"},{"key":"S0899823X15001336_ref25","doi-asserted-by":"publisher","DOI":"10.1016\/j.jhin.2013.09.010"},{"key":"S0899823X15001336_ref26","first-page":"2","article-title":"A pilot study of rapid benchtop sequencing of Staphylococcus aureus and Clostridium difficile for outbreak detection and surveillance","author":"Eyre","year":"2012","journal-title":"BMJ Open"},{"key":"S0899823X15001336_ref20","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.01421-10"},{"key":"S0899823X15001336_ref14","doi-asserted-by":"publisher","DOI":"10.1016\/j.jhin.2013.10.003"},{"key":"S0899823X15001336_ref8","doi-asserted-by":"publisher","DOI":"10.1097\/01.inf.0000195628.35980.2e"},{"key":"S0899823X15001336_ref4","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.03900-14"},{"key":"S0899823X15001336_ref9","doi-asserted-by":"publisher","DOI":"10.1056\/NEJM200009073431004"},{"key":"S0899823X15001336_ref2","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1106920"},{"key":"S0899823X15001336_ref16","volume-title":"Health Facility Briefing and Planning, Nursery IC-NSC","year":"2013"},{"key":"S0899823X15001336_ref22","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0059920"},{"key":"S0899823X15001336_ref19","doi-asserted-by":"publisher","DOI":"10.1136\/bmjopen-2014-006278"},{"key":"S0899823X15001336_ref12","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2334-9-70"},{"key":"S0899823X15001336_ref23","doi-asserted-by":"publisher","DOI":"10.1086\/592700"},{"key":"S0899823X15001336_ref1","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1003176"},{"key":"S0899823X15001336_ref10","doi-asserted-by":"publisher","DOI":"10.1159\/000119722"},{"key":"S0899823X15001336_ref21","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMra1003071"},{"key":"S0899823X15001336_ref5","doi-asserted-by":"publisher","DOI":"10.2807\/1560-7917.ES2013.18.42.20611"},{"key":"S0899823X15001336_ref15","doi-asserted-by":"publisher","DOI":"10.1093\/clind\/16.3.372"},{"key":"S0899823X15001336_ref24","doi-asserted-by":"publisher","DOI":"10.1136\/jcp.37.4.424"},{"key":"S0899823X15001336_ref6","doi-asserted-by":"publisher","DOI":"10.1111\/1469-0691.12528"},{"key":"S0899823X15001336_ref13","doi-asserted-by":"publisher","DOI":"10.1111\/j.1440-1754.2011.02248.x"}],"container-title":["Infection Control &amp; 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