{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,2]],"date-time":"2026-09-02T17:48:48Z","timestamp":1788371328951,"version":"build-2803163510"},"reference-count":72,"publisher":"Microbiology Society","issue":"12","license":[{"start":{"date-parts":[[2022,12,20]],"date-time":"2022-12-20T00:00:00Z","timestamp":1671494400000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000272","name":"National Institute for Health Research","doi-asserted-by":"crossref","award":["16_136_111"],"award-info":[{"award-number":["16_136_111"]}],"id":[{"id":"10.13039\/501100000272","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Medical Research Council","award":["MR\/L00464X\/1"],"award-info":[{"award-number":["MR\/L00464X\/1"]}]},{"DOI":"10.13039\/100000865","name":"Bill and Melinda Gates Foundation","doi-asserted-by":"crossref","award":["INV-036234"],"award-info":[{"award-number":["INV-036234"]}],"id":[{"id":"10.13039\/100000865","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,12,20]]},"abstract":"\n \n \n Escherichia coli<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> bloodstream infections are typically attributed to a limited number of lineages that carry virulence factors associated with invasiveness. In Nigeria, the identity of circulating clones is largely unknown and surveillance of their antimicrobial resistance has been limited. We verified and whole-genome sequenced 68 2016\u20132018 bloodstream \n \n E. coli<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> isolates from three sentinel sites in South-Western Nigeria and susceptibility tested 67 of them. Resistance to antimicrobials commonly used in Nigeria was high, with 67 (100\u200a%), 62 (92.5\u200a%), 53 (79.1\u200a%) and 37 (55.2\u200a%) showing resistance to trimethoprim, ampicillin, ciprofloxacin and aminoglycosides, respectively. Thirty-five (51\u200a%) isolates carried extended-spectrum \u03b2-lactamase genes and 32 (91\u200a%) of these were multidrug resistant. All the isolates were susceptible to carbapenems and colistin. The strain set included globally disseminated high-risk clones from sequence type (ST)12 (2), ST131 (12) and ST648 (4). Twenty-three (33.8\u200a%) of the isolates clustered within two clades. The first of these consisted of ST131 strains, comprising O16:H5 and O25:H4 sub-lineages. The second was an ST10\u2013ST167 complex clade comprising strains carrying O-antigen and capsular genes of likely \n \n Klebsiella<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> origin, identical to those of avian pathogenic \n \n E. coli<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> Sanji, and serotyped in silico<\/jats:italic> as O89, O101 or ONovel32, depending on the tool used. Four temporally associated ST90 strains from one sentinel were closely related enough to suggest that at least some of them represented a retrospectively detected outbreak cluster. Our data implicate a broad repertoire of \n \n E. coli<\/jats:ext-link>\n <\/jats:named-content>\n <\/jats:italic> isolates associated with bloodstream infections in South-West Nigeria. Continued genomic surveillance is valuable for tracking clones of importance and for outbreak identification.<\/jats:p>","DOI":"10.1099\/mgen.0.000863","type":"journal-article","created":{"date-parts":[[2022,12,16]],"date-time":"2022-12-16T16:22:19Z","timestamp":1671207739000},"source":"Crossref","is-referenced-by-count":15,"title":["An ST131 clade and a phylogroup A clade bearing an O101-like O-antigen cluster predominate among bloodstream Escherichia coli isolates from South-West Nigeria hospitals"],"prefix":"10.1099","volume":"8","author":[{"given":"Ayorinde O.","family":"Afolayan","sequence":"first","affiliation":[{"name":"Global Health Research Unit for the Genomic Surveillance of Antimicrobial Resistance, Department of Pharmaceutical Microbiology, Faculty of Pharmacy, University of Ibadan, Oyo State, Nigeria"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"A. 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