Tags

Type your tag names separated by a space and hit enter

Population genomic analysis of outcrossing and recombination in yeast.
Nat Genet. 2006 Sep; 38(9):1077-81.NGen

Abstract

The budding yeast Saccharomyces cerevisiae has been used by humans for millennia to make wine, beer and bread. More recently, it became a key model organism for studies of eukaryotic biology and for genomic analysis. However, relatively little is known about the natural lifestyle and population genetics of yeast. One major question is whether genetically diverse yeast strains mate and recombine in the wild. We developed a method to infer the evolutionary history of a species from genome sequences of multiple individuals and applied it to whole-genome sequence data from three strains of Saccharomyces cerevisiae and the sister species Saccharomyces paradoxus. We observed a pattern of sequence variation among yeast strains in which ancestral recombination events lead to a mosaic of segments with shared genealogy. Based on sequence divergence and the inferred median size of shared segments (approximately 2,000 bp), we estimated that although any two strains have undergone approximately 16 million cell divisions since their last common ancestor, only 314 outcrossing events have occurred during this time (roughly one every 50,000 divisions). Local correlations in polymorphism rates indicate that linkage disequilibrium in yeast should extend over kilobases. Our results provide the initial foundation for population studies of association between genotype and phenotype in S. cerevisiae.

Authors+Show Affiliations

Ruderfer DM
Lewis-Sigler Institute for Integrative Genomics and Department of Ecology and Evolutionary Biology, Princeton University, Princeton, New Jersey 08544, USA.
Pratt SC
No affiliation info available
Seidel HS
No affiliation info available
Kruglyak L
No affiliation info available

MeSH

Crosses, GeneticDatabases, GeneticGenetics, PopulationGenome, FungalLinkage DisequilibriumPhylogenyPolymorphism, Single NucleotideRecombination, GeneticSaccharomyces cerevisiae

Pub Type(s)

Comparative Study
Journal Article
Research Support, N.I.H., Extramural
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

16892060

Citation

Ruderfer, Douglas M., et al. "Population Genomic Analysis of Outcrossing and Recombination in Yeast." Nature Genetics, vol. 38, no. 9, 2006, pp. 1077-81.
Ruderfer DM, Pratt SC, Seidel HS, et al. Population genomic analysis of outcrossing and recombination in yeast. Nat Genet. 2006;38(9):1077-81.
Ruderfer, D. M., Pratt, S. C., Seidel, H. S., & Kruglyak, L. (2006). Population genomic analysis of outcrossing and recombination in yeast. Nature Genetics, 38(9), 1077-81.
Ruderfer DM, et al. Population Genomic Analysis of Outcrossing and Recombination in Yeast. Nat Genet. 2006;38(9):1077-81. PubMed PMID: 16892060.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Population genomic analysis of outcrossing and recombination in yeast. AU - Ruderfer,Douglas M, AU - Pratt,Stephen C, AU - Seidel,Hannah S, AU - Kruglyak,Leonid, Y1 - 2006/08/06/ PY - 2006/05/03/received PY - 2006/07/10/accepted PY - 2006/8/8/pubmed PY - 2006/11/7/medline PY - 2006/8/8/entrez SP - 1077 EP - 81 JF - Nature genetics JO - Nat Genet VL - 38 IS - 9 N2 - The budding yeast Saccharomyces cerevisiae has been used by humans for millennia to make wine, beer and bread. More recently, it became a key model organism for studies of eukaryotic biology and for genomic analysis. However, relatively little is known about the natural lifestyle and population genetics of yeast. One major question is whether genetically diverse yeast strains mate and recombine in the wild. We developed a method to infer the evolutionary history of a species from genome sequences of multiple individuals and applied it to whole-genome sequence data from three strains of Saccharomyces cerevisiae and the sister species Saccharomyces paradoxus. We observed a pattern of sequence variation among yeast strains in which ancestral recombination events lead to a mosaic of segments with shared genealogy. Based on sequence divergence and the inferred median size of shared segments (approximately 2,000 bp), we estimated that although any two strains have undergone approximately 16 million cell divisions since their last common ancestor, only 314 outcrossing events have occurred during this time (roughly one every 50,000 divisions). Local correlations in polymorphism rates indicate that linkage disequilibrium in yeast should extend over kilobases. Our results provide the initial foundation for population studies of association between genotype and phenotype in S. cerevisiae. SN - 1061-4036 UR - https://www.unboundmedicine.com/medline/citation/16892060/Population_genomic_analysis_of_outcrossing_and_recombination_in_yeast_ L2 - https://doi.org/10.1038/ng1859 DB - PRIME DP - Unbound Medicine ER -