{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T10:38:28Z","timestamp":1791887908676,"version":"4.3.4"},"reference-count":69,"publisher":"Oxford University Press (OUP)","issue":"7","license":[{"start":{"date-parts":[[2024,5,16]],"date-time":"2024-05-16T00:00:00Z","timestamp":1715817600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc\/4.0\/"}],"funder":[{"name":"The International Society for Antimicrobial Chemotherapy"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,7,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Objectives<\/jats:title>\n                  <jats:p>Comprehensive data on the genomic epidemiology of hospital-associated Klebsiella pneumoniae in Ghana are scarce. This study investigated the genomic diversity, antimicrobial resistance patterns, and clonal relationships of 103 clinical K. pneumoniae isolates from five tertiary hospitals in Southern Ghana\u2014predominantly from paediatric patients aged under 5\u2005years (67\/103; 65%), with the majority collected from urine (32\/103; 31%) and blood (25\/103; 24%) cultures.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Methods<\/jats:title>\n                  <jats:p>We generated hybrid Nanopore\u2013Illumina assemblies and employed Pathogenwatch for genotyping via Kaptive [capsular (K) locus and lipopolysaccharide (O) antigens] and Kleborate (antimicrobial resistance and hypervirulence) and determined clonal relationships using core-genome MLST (cgMLST).<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Results<\/jats:title>\n                  <jats:p>Of 44 distinct STs detected, ST133 was the most common, comprising 23% of isolates (n\u200a=\u200a23\/103). KL116 (28\/103; 27%) and O1 (66\/103; 64%) were the most prevalent K-locus and O-antigen types. Single-linkage clustering highlighted the global spread of MDR clones such as ST15, ST307, ST17, ST11, ST101 and ST48, with minimal allele differences (1\u20135) from publicly available genomes worldwide. Conversely, 17 isolates constituted novel clonal groups and lacked close relatives among publicly available genomes, displaying unique genetic diversity within our study population. A significant proportion of isolates (88\/103; 85%) carried resistance genes for \u22653 antibiotic classes, with the blaCTX-M-15 gene present in 78% (n\u200a=\u200a80\/103). Carbapenem resistance, predominantly due to blaOXA-181 and blaNDM-1 genes, was found in 10% (n\u200a=\u200a10\/103) of the isolates.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Conclusions<\/jats:title>\n                  <jats:p>Our findings reveal a complex genomic landscape of K. pneumoniae in Southern Ghana, underscoring the critical need for ongoing genomic surveillance to manage the substantial burden of antimicrobial resistance.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/jac\/dkae123","type":"journal-article","created":{"date-parts":[[2024,5,16]],"date-time":"2024-05-16T05:30:58Z","timestamp":1715837458000},"page":"1529-1539","source":"Crossref","is-referenced-by-count":17,"title":["Genomic diversity and antimicrobial resistance in clinical <i>Klebsiella pneumoniae<\/i> isolates from tertiary hospitals in Southern Ghana"],"prefix":"10.1093","volume":"79","author":[{"given":"Richael O","family":"Mills","sequence":"first","affiliation":[{"name":"Department of Biomedical Sciences, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Isaac","family":"Dadzie","sequence":"additional","affiliation":[{"name":"Department of Medical Laboratory Technology, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Thanh","family":"Le-Viet","sequence":"additional","affiliation":[{"name":"Quadram Institute Biosciences, Norwich Research Park , Norwich NR4 7UQ , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David J","family":"Baker","sequence":"additional","affiliation":[{"name":"Quadram Institute Biosciences, Norwich Research Park , Norwich NR4 7UQ , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-3861-4671","authenticated-orcid":false,"given":"Humphrey P K","family":"Addy","sequence":"additional","affiliation":[{"name":"Department of Biomedical Sciences, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Samuel A","family":"Akwetey","sequence":"additional","affiliation":[{"name":"Department of Clinical Microbiology, University of Development Studies , Tamale , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Irene E","family":"Donkoh","sequence":"additional","affiliation":[{"name":"Department of Medical Laboratory Technology, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Elvis","family":"Quansah","sequence":"additional","affiliation":[{"name":"Department of Biomedical Sciences, University of Cape Coast , Cape Coast , Ghana"},{"name":"Anhui Provincial Laboratory of Microbiology and Parasitology, Anhui Key Laboratory of Zoonoses, Department of Microbiology and Parasitology, School of Basic Medical Sciences, Anhui Medical University , Hefei , China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Prince S","family":"Semanshia","sequence":"additional","affiliation":[{"name":"Department of Biomedical Sciences, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jennifer","family":"Morgan","sequence":"additional","affiliation":[{"name":"Department of Medical Laboratory Technology, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Abraham","family":"Mensah","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, University of Cape Coast , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nana E","family":"Adade","sequence":"additional","affiliation":[{"name":"West African Centre for Cell Biology of Infectious Pathogens, College of Basic and Applied Sciences, University of Ghana , Accra , Ghana"},{"name":"Department of Microbiology, Korle-Bu Teaching Hospital , Accra , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emmanuel O","family":"Ampah","sequence":"additional","affiliation":[{"name":"Microbiology Department, Greater Accra Regional Hospital, Ridge , Accra , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emmanuel","family":"Owusu","sequence":"additional","affiliation":[{"name":"Microbiology Department, Greater Accra Regional Hospital, Ridge , Accra , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philimon","family":"Mwintige","sequence":"additional","affiliation":[{"name":"Microbiology Laboratory, Cape Coast Teaching Hospital , Cape Coast , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eric O","family":"Amoako","sequence":"additional","affiliation":[{"name":"Public Health Laboratory, Effia Nkwanta Regional Hospital , Sekondi-Takoradi , Ghana"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anton","family":"Spadar","sequence":"additional","affiliation":[{"name":"Department of Infection Biology, London School of Hygiene & Tropical Medicine , Keppel Street, London , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3949-2471","authenticated-orcid":false,"given":"Kathryn E","family":"Holt","sequence":"additional","affiliation":[{"name":"Department of Infection Biology, London School of Hygiene & Tropical Medicine , Keppel Street, London , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6620-9403","authenticated-orcid":false,"given":"Ebenezer","family":"Foster-Nyarko","sequence":"additional","affiliation":[{"name":"Department of Infection Biology, London School of Hygiene & Tropical Medicine , Keppel Street, London , UK"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,5,16]]},"reference":[{"key":"2024070109574812200_dkae123-B1","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/s13073-019-0706-y","article-title":"Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from South and Southeast Asia","volume":"12","author":"Wyres","year":"2020","journal-title":"Genome Med"},{"key":"2024070109574812200_dkae123-B2","doi-asserted-by":"crossref","first-page":"E3574","DOI":"10.1073\/pnas.1501049112","article-title":"Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health","volume":"112","author":"Holt","year":"2015","journal-title":"Proc Natl Acad Sci U S 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