A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea - CNRS - Centre national de la recherche scientifique Accéder directement au contenu
Article Dans Une Revue BMC Ecology and Evolution Année : 2022

A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea

Résumé

Background The recent rise in cultivation-independent genome sequencing has provided key material to explore uncharted branches of the Tree of Life. This has been particularly spectacular concerning the Archaea , projecting them at the center stage as prominently relevant to understand early stages in evolution and the emergence of fundamental metabolisms as well as the origin of eukaryotes. Yet, resolving deep divergences remains a challenging task due to well-known tree-reconstruction artefacts and biases in extracting robust ancient phylogenetic signal, notably when analyzing data sets including the three Domains of Life. Among the various strategies aimed at mitigating these problems, divide-and-conquer approaches remain poorly explored, and have been primarily based on reconciliation among single gene trees which however notoriously lack ancient phylogenetic signal. Results We analyzed sub-sets of full supermatrices covering the whole Tree of Life with specific taxonomic sampling to robustly resolve different parts of the archaeal phylogeny in light of their current diversity. Our results strongly support the existence and early emergence of two main clades, Cluster I and Cluster II, which we name Ouranosarchaea and Gaiarchaea , and we clarify the placement of important novel archaeal lineages within these two clades. However, the monophyly and branching of the fast evolving nanosized DPANN members remains unclear and worth of further study. Conclusions We inferred a well resolved rooted phylogeny of the Archaea that includes all recently described phyla of high taxonomic rank. This phylogeny represents a valuable reference to study the evolutionary events associated to the early steps of the diversification of the archaeal domain. Beyond the specifics of archaeal phylogeny, our results demonstrate the power of divide-and-conquer approaches to resolve deep phylogenetic relationships, which should be applied to progressively resolve the entire Tree of Life.
Fichier principal
Vignette du fichier
s12862-021-01952-0.pdf (2.1 Mo) Télécharger le fichier
Origine : Publication financée par une institution

Dates et versions

hal-03514913 , version 1 (28-01-2022)

Licence

Paternité

Identifiants

Citer

Monique Aouad, Jean-Pierre Flandrois, Frédéric Jauffrit, Manolo Gouy, Simonetta Gribaldo, et al.. A divide-and-conquer phylogenomic approach based on character supermatrices resolves early steps in the evolution of the Archaea. BMC Ecology and Evolution, 2022, 22 (1), pp.1-12. ⟨10.1186/s12862-021-01952-0⟩. ⟨hal-03514913⟩
178 Consultations
63 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More