Contrasting evolutionary genome dynamics between domesticated and wild yeasts

Abstract

Structural rearrangements have long been recognized as an important source of genetic variation, with implications in phenotypic diversity and disease, yet their detailed evolutionary dynamics remain elusive. Here we use long-read sequencing to generate end-to-end genome assemblies for 12 strains representing major subpopulations of the partially domesticated yeast Saccharomyces cerevisiae and its wild relative Saccharomyces paradoxus . These population-level high-quality genomes with comprehensive annotation enable precise definition of chromosomal boundaries between cores and subtelomeres and a high-resolution view of evolutionary genome dynamics. In chromosomal cores, S. paradoxus shows faster accumulation of balanced rearrangements (inversions, reciprocal translocations and transpositions), whereas S. cerevisiae accumulates unbalanced rearrangements (novel insertions, deletions and duplications) more rapidly. In subtelomeres, both species show extensive interchromosomal reshuffling, with a higher tempo in S. cerevisiae . Such striking contrasts between wild and domesticated yeasts are likely to reflect the influence of human activities on structural genome evolution.

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Cited by papers we hold 7

• Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae · 2023
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• De novo emergence of adaptive membrane proteins from thymine-rich genomic sequences · 2020
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• Genotyping structural variants in pangenome graphs using the vg toolkit · 2020
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• Persistent DNA-break potential near telomeres increases initiation of meiotic recombination on short chromosomes · 2019
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• Pangenome analyses of the wheat pathogen Zymoseptoria tritici reveal the structural basis of a highly plastic eukaryotic genome · 2018
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• Genome evolution across 1,011 Saccharomyces cerevisiae isolates · 2018
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• De novo yeast genome assemblies from MinION, PacBio and MiSeq platforms · 2017
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