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. 2019 May 3;10:955. doi: 10.3389/fmicb.2019.00955

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Copyright © 2019 Hauer, Michelet, Cochard, Branger, Nunez, Boschiroli and Biet.

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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Phylogeny of the French M. bovis field isolates resolved with SNPs. UPGMA phylogenetic tree based on a combination of spoligotyping and MLVA (A) or inferred from the alignment of the pseudosequences of the 9,170 SNPs in the 87 genome (B). Minimum spanning tree (MST) based on combination of spoligotyping and MLVA (C) and genome-wide SNP (D) of the 87 French isolates plus the genome of the reference strain AF2122/97. The genotype groups defined in Table 1 are represented by name and their associated color.