ArticleMicrobial genomics2019
Pan-genome analyses of model fungal species.
Article in Microbial genomics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 69 papers.
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Who cites it
69 citing papers in PubMed.
- Pan-Genome-Scale Metabolic Reconstruction Reveals Conserved Metabolic Functions inJournal of fungi (Basel, Switzerland) · 2026Article
- Identification and characterization of non-canonical azole antifungal resistance pathways inmBio · 2026Article
- Reciprocal Genome Projection Reveals Reference-Conditioned Functional Variation in ClinicalPathogens (Basel, Switzerland) · 2026Article
- Empowering Plant Biotechnology Research: Super-Pangenomes as a Novel Arsenal for Crop Breeding and Improvement.Molecular biotechnology · 2026Review
- Horizontal gene transfer in Saccharomyces cerevisiae and other Saccharomycotina yeasts: a review.World journal of microbiology & biotechnology · 2026Review
- TheJournal of fungi (Basel, Switzerland) · 2026Article
- Evolution of genomic architecture of the plant-pathogenic fungusMicrobial genomics · 2026Article
- Article
- Genome-wide discovery and phenotyping of non-coding transcripts in A. fumigatus reveals lncRNAs with a role in antifungal drug sensitivity.Nature communications · 2026Article
- Global Stress Responses Identify the Functionally Divergent Regulators Required forExploration (Beijing, China) · 2025Article
- Genome analysis and machine learning-based feature selection strategy reveal potential drug-resistance determinants inEmerging microbes & infections · 2025Article
- Small pangenome ofmBio · 2025Article
- Population structure in a fungal human pathogen is potentially linked to pathogenicity.Nature communications · 2025Article
- The highly dynamic pangenome of basal chordates is enriched in defence and immunity genes and is inherited following the Mendelian law.PLoS genetics · 2025Article
- Core gene set of the speciesbioRxiv : the preprint server for biology · 2025Article
- How genomics can help unravel the evolution of endophytic fungi.World journal of microbiology & biotechnology · 2025Review
- Identification of the ADH gene family in Trichosporon asahii and the role of TaADH_like in pathogenicity and fluconazole resistance.BMC genomics · 2025Article
- Evolutionary genomics reveals variation in structure and genetic content implicated in virulence and lifestyle in the genus Gaeumannomyces.BMC genomics · 2025Article
- Advancing the Indian cattle pangenome: characterizing non-reference sequences in Bos indicus.Journal of animal science and biotechnology · 2025Article
- Comparative Genomics Reveals Sources of Genetic Variability in the Asexual Fungal Plant Pathogen Colletotrichum lupini.Molecular plant pathology · 2024Article
9 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The concept of the species 'pan-genome', the union of 'core' conserved genes and all 'accessory' non-conserved genes across all strains of a species, was first proposed in prokaryotes to account for intraspecific variability. Species pan-genomes have been extensively studied in prokaryotes, but evidence of species pan-genomes has also been demonstrated in eukaryotes such as plants and fungi. Using a previously published methodology based on sequence homology and conserved microsynteny, in addition to bespoke pipelines, we have investigated the pan-genomes of four model fungal species: Saccharomyces cerevisiae, Candida albicans, Cryptococcus neoformans var. grubii and Aspergillus fumigatus. Between 80 and 90 % of gene models per strain in each of these species are core genes that are highly conserved across all strains of that species, many of which are involved in housekeeping and conserved survival processes. In many of these species, the remaining 'accessory' gene models are clustered within subterminal regions and may be involved in pathogenesis and antimicrobial resistance. Analysis of the ancestry of species core and accessory genomes suggests that fungal pan-genomes evolve by strain-level innovations such as gene duplication as opposed to wide-scale horizontal gene transfer. Our findings lend further supporting evidence to the existence of species pan-genomes in eukaryote taxa.
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