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. 2023 Jul 6;14:1194243. doi: 10.3389/fmicb.2023.1194243

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Copyright © 2023 Grouteau, Mignonat, Marchou, Martin-Blondel, Glass, Roubaud-Baudron, Lansalot-Matras, Alik, Balardy, De Nadaï, Bénéjat, Jehanne, Le Coustumier and Lehours.

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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Whole-genome SNP phylogenetic tree generated from the alignment of each C. fetus studied isolate (cases 1, 2, 3, 4A, 4B, 6A, and 6B) combined with 75 additional clinical isolates (Iraola et al., 2017) from various countries against C. fetus reference CFF00A031. Genomes were aligned against the reference using bwa mem, and SNPs were called using samtools. Pair-wise comparison between all genomes was performed in order to determine the proportion of genotype similarity, which is displayed in the present tree in the percentage of identical SNP using iTOL online tool v6.