{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,15]],"date-time":"2026-10-15T05:51:44Z","timestamp":1792043504053,"version":"4.4.0"},"reference-count":127,"publisher":"Microbiology Society","issue":"4","license":[{"start":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T00:00:00Z","timestamp":1777507200000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100015691","name":"Division of Microbiology and Infectious Diseases, National Institute of Allergy and Infectious Diseases","doi-asserted-by":"crossref","award":["R21AI178369"],"award-info":[{"award-number":["R21AI178369"]}],"id":[{"id":"10.13039\/100015691","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100015691","name":"Division of Microbiology and Infectious Diseases, National Institute of Allergy and Infectious Diseases","doi-asserted-by":"crossref","award":["R01AI127472"],"award-info":[{"award-number":["R01AI127472"]}],"id":[{"id":"10.13039\/100015691","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100003524","name":"Ministry of Business, Innovation and Employment","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100003524","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Genomics Aotearoa"},{"name":"PHF Science"},{"name":"Awanui Labs Wellington"},{"DOI":"10.13039\/501100001504","name":"Ministry of Health New Zealand","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001504","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,4,30]]},"abstract":"<jats:p>\n                    <jats:italic>Klebsiella pneumoniae<\/jats:italic>\n                    is a leading cause of healthcare-associated infections worldwide, yet its population structure and transmission dynamics remain largely uncharacterized in New Zealand hospitals. We conducted a 15-month prospective genomic surveillance pilot at Wellington Regional Hospital, embedding Oxford Nanopore MinION sequencing directly within the diagnostic laboratory. Clinical and screening isolates (\n                    <jats:italic>n<\/jats:italic>\n                    =157) underwent on-site sequencing and genotyping. Following quality control, 121 (77%) high-quality genomes (118 complete assemblies) were analysed for diversity, antimicrobial resistance (AMR), virulence loci and plasmid content and assessed for evidence of in-hospital transmission. The cohort covered many ages (0 to 95\u2009years), with nearly half of the patients aged \u226565\u2009years. The local\n                    <jats:italic>K. pneumoniae<\/jats:italic>\n                    population was highly diverse, comprising 75 distinct sequence types (STs), of which 68% were single-isolate STs. Although a few lineages recurred intermittently (e.g. ST253 and ST17), no clone showed evidence of patient\u2013patient transmission. Plasmid reconstructions showed backbones dominated by F-type, Col, and mosaic multi-replicon elements. Acquired AMR genes were plasmid-borne in 35\/118 complete genomes. Chromosomes mostly carried intrinsic determinants typical of\n                    <jats:italic>K. pneumoniae<\/jats:italic>\n                    :\n                    <jats:italic>bla<\/jats:italic>\n                    <jats:sub>SHV<\/jats:sub>\n                    (intrinsic ampicillin resistance) and\n                    <jats:italic>fos<\/jats:italic>\n                    A and\n                    <jats:italic>oqx<\/jats:italic>\n                    AB (which may raise minimum inhibitory concentrations but, in their intrinsic forms, do not exceed clinical breakpoints). Few isolates carried markers of\n                    <jats:italic>K. pneumoniae<\/jats:italic>\n                    virulence plasmids (\n                    <jats:italic>iuc<\/jats:italic>\n                    \/\n                    <jats:italic>iro<\/jats:italic>\n                    siderophores and\n                    <jats:italic>rmp<\/jats:italic>\n                    A\/\n                    <jats:italic>rmp<\/jats:italic>\n                    A2; Kleborate virulence score \u22653), and none showed convergence of virulence and acquired AMR. This study shows that prospective, hospital-based nanopore sequencing is feasible in routine diagnostic settings and can deliver high-resolution genomic intelligence for infection prevention and control. In this setting,\n                    <jats:italic>K. pneumoniae<\/jats:italic>\n                    isolates arose from a genotypically heterogeneous background without evidence of patient\u2013patient transmission. This pilot establishes a genomic baseline for\n                    <jats:italic>K. pneumoniae<\/jats:italic>\n                    in a major New Zealand hospital and supports a trigger-based framework for early detection of high-risk clones before they become established.\n                  <\/jats:p>","DOI":"10.1099\/mgen.0.001700","type":"journal-article","created":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T15:16:43Z","timestamp":1777562203000},"source":"Crossref","is-referenced-by-count":4,"title":["Decentralized nanopore genomics reveals diverse Klebsiella pneumoniae and no evidence of patient\u2013patient transmission in a New Zealand hospital"],"prefix":"10.1099","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6620-758X","authenticated-orcid":false,"given":"Rhys T.","family":"White","sequence":"first","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sarah","family":"Bakker","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Megan","family":"Burton","sequence":"additional","affiliation":[{"name":"Awanui Labs Wellington, Department of Microbiology and Molecular Pathology, Wellington 6021, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2508-6843","authenticated-orcid":false,"given":"Kristin","family":"Dyet","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-4482-6758","authenticated-orcid":false,"given":"Juliet","family":"Elvy","sequence":"additional","affiliation":[{"name":"Awanui Labs Dunedin, Department of Microbiology and Molecular Pathology, Dunedin 9016, New Zealand"},{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alexandra","family":"Eustace","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-0677-8203","authenticated-orcid":false,"given":"Marissa P.","family":"Griffith","sequence":"additional","affiliation":[{"name":"Division of Infectious Diseases, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"},{"name":"Microbial Genomics Epidemiology Laboratory, Center for Genomic Epidemiology, University of Pittsburgh, Pittsburgh, PA 15261, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samantha","family":"Hutton","sequence":"additional","affiliation":[{"name":"Awanui Labs Wellington, Department of Microbiology and Molecular Pathology, Wellington 6021, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julianna","family":"Lees","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3258-9003","authenticated-orcid":false,"given":"Nathan J.","family":"Raabe","sequence":"additional","affiliation":[{"name":"School of Public Health, Department of Epidemiology, University of Pittsburgh, Pittsburgh, PA 15261, USA"},{"name":"Microbial Genomics Epidemiology Laboratory, Center for Genomic Epidemiology, University of Pittsburgh, Pittsburgh, PA 15261, USA"},{"name":"Division of Infectious Diseases, University of Pittsburgh School of Medicine, Pittsburgh, PA 15261, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Brandon","family":"Su","sequence":"additional","affiliation":[{"name":"Awanui Labs Wellington, Department of Microbiology and Molecular Pathology, Wellington 6021, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9351-1085","authenticated-orcid":false,"given":"Audrey","family":"Tiong","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6165-0029","authenticated-orcid":false,"given":"David J.","family":"Winter","sequence":"additional","affiliation":[{"name":"New Zealand Institute for Public Health and Forensic Science, Health Security, Porirua 5022, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4033-6639","authenticated-orcid":false,"given":"Kelly L.","family":"Wyres","sequence":"additional","affiliation":[{"name":"Department of Infection Biology, Faculty of Infectious and Tropical Diseases, London School of Hygiene, Tropical Medicine, London WC1E 7HT, UK"},{"name":"Monash University, Centre to Impact AMR, Clayton 3800, Australia"},{"name":"Department of Infectious Diseases, School of Translational Medicine, Monash University, Melbourne 3004, Australia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3920-7151","authenticated-orcid":false,"given":"Max","family":"Bloomfield","sequence":"additional","affiliation":[{"name":"Te Whatu Ora\/Health New Zealand, Infection Services, Capital, Coast & Hutt Valley, Wellington 6021, New Zealand"},{"name":"Awanui Labs Wellington, Department of Microbiology and Molecular Pathology, Wellington 6021, New Zealand"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"345","reference":[{"key":"R1","doi-asserted-by":"publisher","DOI":"10.1016\/S0140-6736(21)02724-0"},{"key":"R2","doi-asserted-by":"publisher","DOI":"10.1007\/s40121-023-00803-3"},{"key":"R3","article-title":"Tackling drug-resistant infections globally: final report and recommendations","author":"O\u2019Neill","year":"2016"},{"key":"R4","article-title":"Drug-resistant infections: a threat to our economic future","author":"Jonas","year":"2017"},{"key":"R5","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30753-3"},{"key":"R6","doi-asserted-by":"publisher","DOI":"10.1016\/j.mib.2018.04.004"},{"key":"R7","article-title":"Global antimicrobial resistance and use surveillance system (GLASS) report","year":"2022"},{"key":"R8","doi-asserted-by":"publisher","DOI":"10.1007\/BF01880516"},{"key":"R9","doi-asserted-by":"publisher","DOI":"10.1586\/eri.13.12"},{"key":"R10","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.11.4.589"},{"key":"R11","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMoa1306801"},{"key":"R12","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-021-24448-3"},{"key":"R13","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-30717-6"},{"key":"R14","doi-asserted-by":"publisher","DOI":"10.1038\/s41579-019-0315-1"},{"key":"R15","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/cix270"},{"key":"R16","doi-asserted-by":"publisher","DOI":"10.1128\/mSphere.00261-16"},{"key":"R17","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciy796"},{"key":"R18","article-title":"Global antibiotic resistance surveillance report 2025","year":"2025"},{"key":"R19","article-title":"Public Health Surveillance Strategy 2025-2030","year":"2025"},{"key":"R20","doi-asserted-by":"publisher","DOI":"10.1080\/22221751.2019.1634981"},{"key":"R21","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2021.604031"},{"key":"R22","doi-asserted-by":"publisher","DOI":"10.1186\/s13756-025-01529-2"},{"key":"R23","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2018.03000"},{"key":"R24","doi-asserted-by":"publisher","DOI":"10.1016\/j.resmic.2019.02.003"},{"key":"R25","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0113539"},{"key":"R26","doi-asserted-by":"publisher","DOI":"10.1099\/00207713-51-3-915"},{"key":"R27","doi-asserted-by":"publisher","DOI":"10.1078\/0723-2020-00261"},{"key":"R28","doi-asserted-by":"publisher","DOI":"10.1099\/ijs.0.062737-0"},{"key":"R29","doi-asserted-by":"publisher","DOI":"10.3201\/eid2011.140206"},{"key":"R30","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.1501049112"},{"key":"R31","doi-asserted-by":"publisher","DOI":"10.1128\/genomeA.01057-17"},{"key":"R32","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pgen.1008114"},{"key":"R33","doi-asserted-by":"publisher","DOI":"10.1099\/00207713-27-4-386"},{"key":"R34","doi-asserted-by":"publisher","DOI":"10.1128\/cdli.4.5.550-555.1997"},{"key":"R35","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-0691.2009.03057.x"},{"key":"R36","doi-asserted-by":"publisher","DOI":"10.1016\/j.tim.2014.09.003"},{"key":"R37","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.43.8.4178-4182.2005"},{"key":"R38","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0004982"},{"key":"R39","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000520"},{"key":"R40","doi-asserted-by":"publisher","DOI":"10.1016\/j.tim.2016.09.007"},{"key":"R41","doi-asserted-by":"publisher","DOI":"10.1128\/MMBR.00078-15"},{"key":"R42","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000196"},{"key":"R43","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00001-19"},{"key":"R44","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(12)70205-0"},{"key":"R45","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000936"},{"key":"R46","article-title":"Global action plan on antimicrobial resistance","year":"2016"},{"key":"R47","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-019-0706-y"},{"key":"R48","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(18)30605-4"},{"key":"R49","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciab767"},{"key":"R50","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciab777"},{"key":"R51","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciab795"},{"key":"R52","article-title":"survey of extended-spectrum \u03b2-lactamaseproducing Enterobacteriaceae","author":"Heffernan","year":"2016"},{"key":"R53","article-title":"survey of extended-spectrum \u03b2-lactamase producing Enterobacterales in New Zealand","author":"Tiong","year":"2019"},{"key":"R54","article-title":"survey of Staphylococcus aureus bacteraemia in New Zealand","author":"Carr","year":"2021"},{"key":"R55","doi-asserted-by":"publisher","DOI":"10.1186\/s12879-022-07687-7"},{"key":"R56","first-page":"25","article-title":"Implementing nanopore sequencing in a clinical laboratory: a social systems case New Zealand","volume":"79","author":"Manning","year":"2025","journal-title":"Journal of Medical Laboratory Science"},{"key":"R57","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001273"},{"key":"R58","doi-asserted-by":"publisher","DOI":"10.1017\/ice.2024.77"},{"key":"R59","doi-asserted-by":"publisher","DOI":"10.1016\/j.jhin.2025.06.004"},{"key":"R60","doi-asserted-by":"publisher","DOI":"10.7554\/eLife.98300.3"},{"key":"R61","article-title":"Carbapenemase-producing Enterobacterales (CPE) in New Zealand","year":"2025"},{"key":"R62","doi-asserted-by":"publisher","DOI":"10.3201\/eid3107.250289"},{"key":"R63","doi-asserted-by":"publisher","DOI":"10.1016\/j.pathol.2023.07.014"},{"key":"R64","article-title":"Breakpoint tables for interpretation of MICs and zone diameters. Version 13.1","year":"2023"},{"key":"R65","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty149"},{"key":"R66","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2014-15-3-r46"},{"key":"R67","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkn741"},{"key":"R68","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btaf474"},{"key":"R69","doi-asserted-by":"publisher","DOI":"10.1101\/gr.215087.116"},{"key":"R70","doi-asserted-by":"publisher","DOI":"10.1038\/s41587-019-0072-8"},{"key":"R71","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btw152"},{"key":"R72","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-024-03252-4"},{"key":"R73","doi-asserted-by":"publisher","DOI":"10.1038\/s43588-021-00073-4"},{"key":"R74","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty191"},{"key":"R75","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btab705"},{"key":"R76","doi-asserted-by":"publisher","DOI":"10.1101\/gr.214270.116"},{"key":"R77","doi-asserted-by":"publisher","DOI":"10.21105\/joss.05968"},{"key":"R78","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkw569"},{"key":"R79","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkx1068"},{"key":"R80","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkaa1105"},{"key":"R81","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000357"},{"key":"R82","doi-asserted-by":"publisher","DOI":"10.12688\/wellcomeopenres.14826.1"},{"key":"R83","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000102"},{"key":"R84","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000800"},{"key":"R85","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001428"},{"key":"R86","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-021-91456-0"},{"key":"R87","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.02412-14"},{"key":"R88","doi-asserted-by":"publisher","DOI":"10.1007\/978-1-4939-9877-7_20"},{"key":"R89","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000206"},{"key":"R90","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000435"},{"key":"R91","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-016-0997-x"},{"key":"R92","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkaa190"},{"key":"R93","doi-asserted-by":"publisher","DOI":"10.1093\/molbev\/msac135"},{"key":"R94","doi-asserted-by":"publisher","DOI":"10.1101\/2025.10.30.25338662"},{"key":"R95","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001300"},{"key":"R96","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btp352"},{"key":"R97","doi-asserted-by":"publisher","DOI":"10.1038\/s43588-022-00387-x"},{"key":"R98","doi-asserted-by":"publisher","DOI":"10.1093\/gigascience\/giab008"},{"key":"R99","volume-title":"R: A Language and Environment for Statistical Computing","year":"2021"},{"key":"R100","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-319-24277-4","volume-title":"Ggplot2: Elegant Graphics for Data Analysis New York, United States of America","author":"Wickham","year":"2016"},{"key":"R101","doi-asserted-by":"publisher","DOI":"10.1186\/1756-0500-7-618"},{"key":"R102","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gku1196"},{"key":"R103","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq033"},{"key":"R104","doi-asserted-by":"publisher","DOI":"10.1002\/0471250953.bi0604s00"},{"key":"R105","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-018-0587-5"},{"key":"R106","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-025-01461-5"},{"key":"R107","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00573-19"},{"key":"R108","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-019-0492-8"},{"key":"R109","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciaf216"},{"key":"R110","article-title":"Kotahitanga: Uniting Aotearoa against infectious disease and antimicrobial resistance","author":"Gerrard","year":"2021"},{"key":"R111","article-title":"Government response to the report from the Prime Minister\u2019s Chief Science Advisor: Kotahitanga: Uniting Aotearoa against infectious disease and antimicrobial resistance","year":"2025"},{"key":"R112","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-022-01103-0"},{"key":"R113","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkab463"},{"key":"R114","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciy027"},{"key":"R115","doi-asserted-by":"publisher","DOI":"10.1016\/j.drup.2025.101327"},{"key":"R116","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-020-18668-2"},{"key":"R117","doi-asserted-by":"publisher","DOI":"10.1093\/cid\/ciaa1147"},{"key":"R118","doi-asserted-by":"publisher","DOI":"10.1099\/acmi.0.000894.v3"},{"key":"R119","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.01169-07"},{"key":"R120","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2334-12-239"},{"key":"R121","doi-asserted-by":"publisher","DOI":"10.1093\/femsre\/fux013"},{"key":"R122","doi-asserted-by":"publisher","DOI":"10.1016\/S2214-109X(18)30278-X"},{"key":"R123","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30489-9"},{"key":"R124","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000149"},{"key":"R125","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30628-X"},{"key":"R126","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30629-1"},{"key":"R127","doi-asserted-by":"publisher","DOI":"10.2147\/IDR.S191892"}],"container-title":["Microbial Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001700?crawler=true&mimetype=application\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T15:16:46Z","timestamp":1777562206000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001700"}},"subtitle":["This article is part of the Establishing whole genome sequencing at the core of epidemiological surveillance collection"],"short-title":[],"issued":{"date-parts":[[2026,4,30]]},"references-count":127,"journal-issue":{"issue":"4","published-print":{"date-parts":[[2026,4,30]]}},"URL":"https:\/\/doi.org\/10.1099\/mgen.0.001700","relation":{},"ISSN":["2057-5858"],"issn-type":[{"value":"2057-5858","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,4,30]]}}}