Comparative Phylogenomics Uncovers the Impact of Symbiotic Associations on Host Genome Evolution

Pierre Marc Delaux, Kranthi Varala, Patrick P. Edger, Gloria Coruzzi, J. Chris Pires, Jean Michel Ané

Research output: Contribution to journalArticle

Abstract

Mutualistic symbioses between eukaryotes and beneficial microorganisms of their microbiome play an essential role in nutrition, protection against disease, and development of the host. However, the impact of beneficial symbionts on the evolution of host genomes remains poorly characterized. Here we used the independent loss of the most widespread plant-microbe symbiosis, arbuscular mycorrhization (AM), as a model to address this question. Using a large phenotypic approach and phylogenetic analyses, we present evidence that loss of AM symbiosis correlates with the loss of many symbiotic genes in the Arabidopsis lineage (Brassicales). Then, by analyzing the genome and/or transcriptomes of nine other phylogenetically divergent non-host plants, we show that this correlation occurred in a convergent manner in four additional plant lineages, demonstrating the existence of an evolutionary pattern specific to symbiotic genes. Finally, we use a global comparative phylogenomic approach to track this evolutionary pattern among land plants. Based on this approach, we identify a set of 174 highly conserved genes and demonstrate enrichment in symbiosis-related genes. Our findings are consistent with the hypothesis that beneficial symbionts maintain purifying selection on host gene networks during the evolution of entire lineages.

Original languageEnglish (US)
Article numbere1004487
JournalPLoS Genetics
Volume10
Issue number7
DOIs
StatePublished - 2014

Fingerprint

Symbiosis
symbiosis
genome
Genome
gene
mycorrhizae
symbionts
Genes
symbiont
genes
Brassicales
Embryophyta
beneficial microorganisms
Gene Regulatory Networks
Microbiota
embryophytes
Eukaryota
Transcriptome
Arabidopsis
transcriptome

ASJC Scopus subject areas

  • Genetics
  • Molecular Biology
  • Ecology, Evolution, Behavior and Systematics
  • Cancer Research
  • Genetics(clinical)
  • Medicine(all)

Cite this

Comparative Phylogenomics Uncovers the Impact of Symbiotic Associations on Host Genome Evolution. / Delaux, Pierre Marc; Varala, Kranthi; Edger, Patrick P.; Coruzzi, Gloria; Pires, J. Chris; Ané, Jean Michel.

In: PLoS Genetics, Vol. 10, No. 7, e1004487, 2014.

Research output: Contribution to journalArticle

Delaux, Pierre Marc ; Varala, Kranthi ; Edger, Patrick P. ; Coruzzi, Gloria ; Pires, J. Chris ; Ané, Jean Michel. / Comparative Phylogenomics Uncovers the Impact of Symbiotic Associations on Host Genome Evolution. In: PLoS Genetics. 2014 ; Vol. 10, No. 7.
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