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The genomic diversity and antimicrobial resistance profile of <jats:italic>Campylobacter<\/jats:italic> was investigated with a focus on <jats:italic>C<\/jats:italic>. <jats:italic>jejuni<\/jats:italic> and <jats:italic>C<\/jats:italic>. <jats:italic>coli<\/jats:italic> in humans and livestock (poultry and cattle) from Nigeria.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Methods<\/jats:title>\n                <jats:p>586 human stool samples and 472 faecal samples from livestock were cultured for thermophilic <jats:italic>Campylobacter<\/jats:italic> species on modified charcoal cefoperazone deoxycholate agar (mCCDA). Culture in combination with whole genome sequencing identified and confirmed the presence of <jats:italic>Campylobacter<\/jats:italic> in humans and animals from the study area. Further analysis of the sequences was performed to determine multilocus sequence types and genetic determinants of antimicrobial resistance to fluoroquinolone, betalactam, tetracycline and macrolide classes of antimicrobials.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Results<\/jats:title>\n                <jats:p>From the human stool samples tested, 50 (9%) were positive of which 33 (66%) were <jats:italic>C<\/jats:italic>. <jats:italic>jejuni<\/jats:italic>, 14 (28%) were <jats:italic>C<\/jats:italic>. <jats:italic>coli<\/jats:italic> while 3 (6%) were <jats:italic>C<\/jats:italic>. <jats:italic>hyointestinalis<\/jats:italic>. In livestock, 132 (28%) were positive. Thirty one (7%) were <jats:italic>C<\/jats:italic>. <jats:italic>jejuni<\/jats:italic> while 101 (21%) were <jats:italic>C<\/jats:italic>. <jats:italic>coli<\/jats:italic>. Whole genome sequencing and MLST of the isolates revealed a total of 32 sequence types (STs) identified from 47 human isolates while 48 STs were identified in 124 isolates from livestock indicating a population which was overall, genetically diverse with a few more dominant strains. The antimicrobial resistance profiles of the isolates indicated a higher prevalence of resistance in <jats:italic>Campylobacter<\/jats:italic> isolated from livestock than in humans. Generally, resistance was greatest for betalactams (42%) closely followed by fluoroquinolones (41%), tetracyclines (15%) and lastly macrolides (2%). Multidrug resistance to three or more antimicrobials was observed in 24 (13%) isolates from humans (n\u2009=\u20091, 4%) and chicken (n\u2009=\u200923, 96%).<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Conclusions<\/jats:title>\n                <jats:p>This study has further contributed information about the epidemiology, genetic diversity and antimicrobial resistance profile of thermophilic <jats:italic>Campylobacter<\/jats:italic> in Nigeria.<\/jats:p>\n              <\/jats:sec>","DOI":"10.1186\/s12929-022-00786-2","type":"journal-article","created":{"date-parts":[[2022,1,24]],"date-time":"2022-01-24T17:02:42Z","timestamp":1643043762000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":23,"title":["Genomic diversity and antimicrobial resistance of Campylobacter spp. from humans and livestock in Nigeria"],"prefix":"10.1186","volume":"29","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8770-8359","authenticated-orcid":false,"given":"Benshak J.","family":"Audu","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Strachan","family":"Norval","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lopes","family":"Bruno","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ramjee","family":"Meenakshi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Macrae","family":"Marion","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ken J.","family":"Forbes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2022,1,24]]},"reference":[{"issue":"9730","key":"786_CR1","doi-asserted-by":"publisher","first-page":"1969","DOI":"10.1016\/S0140-6736(10)60549-1","volume":"375","author":"RE Black","year":"2010","unstructured":"Black RE, Cousens S, Johnson HL, Lawn JE, Rudan I, Bassani DG, et al. 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