ArticleMolecular systems biology2025
Unique trajectory of gene family evolution from genomic analysis of nearly all known species in an ancient yeast lineage.
Article in Molecular systems biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- The Origin and Early Evolution of Fungi: Challenges, Inferences, and Principles.Annual review of cell and developmental biology · 2026Review
- Lineage-Specific Gene Family Innovations Underpin the Pathogenicity of Woody-Plant Pathogens in Botryosphaeriaceae.Genome biology and evolution · 2026Article
- Genomic and phenotypic insights into the expanding phylogenetic landscape of the Cryptococcus genus.PLoS genetics · 2025Article
- Stable Hypermutators Revealed by the Genomic Landscape of Genes Involved in Genome Stability Among Yeast Species.Molecular biology and evolution · 2025Article
- Genomic and phenotypic insights into the expanding phylogenetic landscape of thebioRxiv : the preprint server for biology · 2025Article
- Convergent expansions of keystone gene families drive metabolic innovation in Saccharomycotina yeasts.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Genetic and phenotypic diversity of wine-associated Hanseniaspora species.FEMS yeast research · 2025Article
- Environment-dependent mutualism-parasitism transitions in the incipient symbiosis between Tetrahymena utriculariae and Micractinium tetrahymenae.The ISME journal · 2025Article
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Abstract
Gene gains and losses are a major driver of genome evolution; their precise characterization can provide insights into the origin and diversification of major lineages. Here, we examined gene family evolution of 1154 genomes from nearly all known species in the medically and technologically important yeast subphylum Saccharomycotina. We found that yeast gene family evolution differs from that of plants, animals, and filamentous ascomycetes, and is characterized by smaller overall gene numbers yet larger gene family sizes for a given gene number. Faster-evolving lineages (FELs) in yeasts experienced significantly higher rates of gene losses-commensurate with a narrowing of metabolic niche breadth-but higher speciation rates than their slower-evolving sister lineages (SELs). Gene families most often lost are those involved in mRNA splicing, carbohydrate metabolism, and cell division and are likely associated with intron loss, metabolic breadth, and non-canonical cell cycle processes. Our results highlight the significant role of gene family contractions in the evolution of yeast metabolism, genome function, and speciation, and suggest that gene family evolutionary trajectories have differed markedly across major eukaryotic lineages.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.