The yeast gene order browser: combining curated homology and syntenic context reveals gene fate in polyploid species
Open accessAbstract
We developed the Yeast Gene Order Browser (YGOB; http://wolfe.gen.tcd.ie/ygob) to facilitate visual comparisons and computational analysis of synteny relationships in yeasts. The data presented in YGOB, currently covering seven species, are based on sets of homologous genes that have been intensively manually curated based on both sequence similarity and genomic context (synteny). We reconciled different laboratories' lists of paralogous Saccharomyces cerevisiae gene pairs formed by genome duplication (ohnologs), and present near-exhaustive lists of the ohnolog pairs retained in S. cerevisiae (551, including 22 previously unidentified), Saccharomyces castellii (599), and Candida glabrata (404).
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PYC1 is an ohnolog of the universally conserved PYC2, resulting from the whole genome duplication event that occurred during the evolution of Saccharomycetaceae.
“PYC1 is an ohnolog of the universally conserved PYC2, resulting from the whole genome duplication (WGD) event that occurred during the evolution of Saccharomycetaceae (Wolfe and Shields 1997; Byrne and Wolfe 2005)”
From Mitochondrial retrograde control of transcription evolves with respiratory stress, metabolic adaptation, and virulence in budding yeasts (2026) · cites this paper as Byrne and Wolfe 2005
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- Authors
- Byrne, K. P., & Wolfe, K. H.
- Affiliations
- Trinity College Dublin (IE)
- Corresponding author
- Wolfe, Kenneth H.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2005-09-16
- Volume
- 15
- Issue
- 10
- Pages
- 1456-1461
- ISSN
- 1088-9051 (ISSN-L)
- PMC
- PMC1240090
- OpenAlex
- W1964612763
- Cited by
- 720
- References
- 1
- Citations by year
- 2026: 18 · 2025: 22 · 2024: 19 · 2023: 28 · 2022: 33 · 2021: 49 · 2020: 40 · 2019: 33 · 2018: 33 · 2017: 58 · 2016: 43 · 2015: 39 · 2014: 41 · 2013: 33 · 2012: 35
- Type
- posted content
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Genome Research (publishedVersion)
- Europe PMC (PubMed Central) (publishedVersion)
- PubMed Central (publishedVersion)
- PubMed (publishedVersion)
- Arrow@dit (Dublin Institute of Technology) (submittedVersion)
- Trinity's Access to Research Output (TARA) (Trinity College Dublin) (submittedVersion)
- Funders
- Science Foundation Ireland
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Fungal and yeast genetics research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genome Rearrangement Algorithms
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- synteny, ohnologs, whole-genome duplication, polyploidy, paralogs, Saccharomyces cerevisiae, Candida glabrata, yeast genome, web browsers
- MeSH terms
- Polyploidy, Yeasts, Genome, Fungal, Internet, Databases, Genetic
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