Title: A deeper understanding of the evolutionary phylogeny of M. tuberculosis

Authors: Christophe Guyeux^1,2, Gaëtan Senelle^1,2, Guislaine Refrégier^3,4, Christophe Sola^3,5

Affiliations: ¹Université Bourgogne Franche-Comté (UBFC), Besançon, France; ²FEMTO-ST Institute, UMR 6174 CNRS-Université Bourgogne Franche-Comté (UBFC), France; ³Université Paris‐Saclay, 91190, Gif-sur-Yvette, France; ⁴Ecologie Systématique Evolution, Université Paris-Saclay, CNRS, AgroParisTech, UMR ESE, 91405, Orsay, France; ⁵Université Paris-Cité, IAME, UMR 1137, INSERM, Paris, France

Abstract: Knowledge is not equally advanced from one lineage to another of Mycobacterium tuberculosis. Lineage 2 and some sublineages of lineage 4, for example, have a high degree of refinement beyond the fourth sublineage level, whereas other lineages have very few defined sublineages. This fragmented understanding leads to many grey areas and a relative knowledge of the diversity of M. tuberculosis, which requires further development. In this work, we propose a deeper understanding of lineage 4.7, and point out how other lineages (4.5, 5 and 6) can also be better detailed.