ArticleGenetics2005
Hypervariable noncoding sequences in Saccharomyces cerevisiae.
Article in Genetics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Deep learning suggests that gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure.Nature communications · 2020Article
- Development and implementation of multilocus sequence typing to study the diversity of the yeast Kluyveromyces marxianus in Italian cheeses.Microbial genomics · 2018Article
- Complex Ancestries of Lager-Brewing Hybrids Were Shaped by Standing Variation in the Wild Yeast Saccharomyces eubayanus.PLoS genetics · 2016Article
- Divergent MLS1 Promoters Lie on a Fitness Plateau for Gene Expression.Molecular biology and evolution · 2016Article
- A unique ecological niche fosters hybridization of oak-tree and vineyard isolates of Saccharomyces cerevisiae.Molecular ecology · 2015Article
- Ecological and Genetic Barriers Differentiate Natural Populations of Saccharomyces cerevisiae.Molecular biology and evolution · 2015Article
- Stress Tolerance Variations in Saccharomyces cerevisiae Strains from Diverse Ecological Sources and Geographical Locations.PloS one · 2015Article
- Natural selection on coding and noncoding DNA sequences is associated with virulence genes in a plant pathogenic fungus.Genome biology and evolution · 2014Article
- Article
- Harnessing genetic diversity in Saccharomyces cerevisiae for fermentation of xylose in hydrolysates of alkaline hydrogen peroxide-pretreated biomass.Applied and environmental microbiology · 2014Article
- Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments.Genome research · 2012Article
- The Awesome Power of Yeast Evolutionary Genetics: New Genome Sequences and Strain Resources for the Saccharomyces sensu stricto Genus.G3 (Bethesda, Md.) · 2011Article
- Correlating gene expression variation with cis-regulatory polymorphism in Saccharomyces cerevisiae.Genome biology and evolution · 2010Article
- ABC transporter Pdr10 regulates the membrane microenvironment of Pdr12 in Saccharomyces cerevisiae.The Journal of membrane biology · 2009Article
- Possible diversifying selection in the imprinted gene, MEDEA, in Arabidopsis.Molecular biology and evolution · 2009Article
- Mutagenesis from meiotic recombination is not a primary driver of sequence divergence between Saccharomyces species.Molecular biology and evolution · 2008Article
- A catalog of neutral and deleterious polymorphism in yeast.PLoS genetics · 2008Article
- Article
- High-resolution species trees without concatenation.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Article
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Compared to protein-coding sequences, the evolution of noncoding sequences and the selective constraints placed on these sequences is not well characterized. To compare the evolution of coding and noncoding sequences, we have conducted a survey for DNA polymorphism at five randomly chosen loci among a diverse collection of 81 strains of Saccharomyces cerevisiae. Average rates of both polymorphism and divergence are 40% lower at noncoding sites and 90% lower at nonsynonymous sites in comparison to synonymous sites. Although noncoding and coding sequences show substantial variability in ratios of polymorphism to divergence, two of the loci, MLS1 and PDR10, show a higher rate of polymorphism at noncoding compared to synonymous sites. The high rate of polymorphism is not accompanied by a high rate of divergence and is limited to a few small regions. These hypervariable regions include sites with three segregating bases at a single site and adjacent polymorphic sites. We show that this clustering of polymorphic sites is significantly greater than one would expect on the basis of the spacing between polymorphic fourfold degenerate sites. Although hypervariable noncoding sequences could result from selection on regulatory mutations, they could also result from transient mutational hotspots.
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