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. 2022 Apr 7;12:869314. doi: 10.3389/fcimb.2022.869314

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Copyright © 2022 Aworh, Ekeng, Nilsson, Egyir, Owusu-Nyantakyi and Hendriksen

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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SNP-based phylogeny of ESBL E. coli isolates from humans, cattle, and abattoir environments in Abuja and Lagos. SNP-based maximum likelihood phylogeny of E. coli isolates visualized in iterative Tree of life tool (iTol). The tree was rooted in a reference isolate E. coli strain NCTC11129. Clustering of isolates was found to be following the core genome and SNP-based phylogenies. The clustering of isolates belonging to the same phylogenetic group and sequence type was consistent. Shown for each isolate is the source: humans, cattle or environment, location, phylogroup, sequence types (STs), AMR genes and plasmid replicons, and number of MGEs.