Comprehensive polymorphism survey elucidates population structure of Saccharomyces cerevisiae.
Comprehensive polymorphism survey elucidates population structure of Saccharomyces cerevisiae.
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DOI：
10.1038/nature07670
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发表时间：
2009-03-19
期刊：
影响因子：
64.8
通讯作者：
Kruglyak L
中科院分区：
文献类型：
--
作者：
Schacherer J;Shapiro JA;Ruderfer DM;Kruglyak L
全面鉴定一个物种内个体之间的多态性对于研究表型差异的遗传基础和阐明物种的进化历史至关重要。最近报道了针对人类、小鼠和拟南芥的大规模多态性调查。在这里，我们报告了对 63 种酿酒酵母菌株的基因组变异进行的核苷酸水平调查，这些菌株采样自不同的生态位（啤酒、面包、葡萄园、免疫功能低下的个体、各种发酵和自然）和不同大陆的地点。我们将每个菌株的基因组 DNA 与全基因组平铺微阵列杂交，检测到 189 万个单核苷酸多态性 (SNP)，这些多态性被分为 101,343 个不同的分离位点。我们还在调查的菌株中鉴定出了 3,985 个长度 >200 bp 的缺失事件。我们分析了核苷酸多态性和缺失变异的全基因组模式，并测量了酿酒酵母中连锁不平衡的程度。这些结果和我们生成的多态性资源为酵母全基因组关联研究奠定了基础。我们还检查了酿酒酵母的种群结构，为多种驯化事件提供支持，并深入了解致病菌株的起源。
Comprehensive identification of polymorphisms among individuals within a species is essential both for studying the genetic basis of phenotypic differences and for elucidating the evolutionary history of the species. Large-scale polymorphism surveys have recently been reported for human, mouse, and Arabidopsis thaliana. Here we report a nucleotide-level survey of genome variation in a diverse collection of 63 S. cerevisiae strains sampled from different ecological niches (beer, bread, vineyards, immunocompromised individuals, various fermentations and nature) and from locations on different continents. We hybridized genomic DNA from each strain to whole-genome tiling microarrays and detected 1.89 million single nucleotide polymorphisms (SNPs), which were grouped into 101,343 distinct segregating sites. We also identified 3,985 deletion events of length >200 bp among the surveyed strains. We analyzed the genome-wide patterns of nucleotide polymorphism and deletion variants, and measured the extent of linkage disequilibrium in S. cerevisiae. These results and the polymorphism resource we have generated lay the foundation for genome-wide association studies in yeast. We also examined the population structure of S. cerevisiae, providing support for multiple domestication events as well as insight into the origins of pathogenic strains.
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全基因组对酿酒酵母菌株的核苷酸水平变异的分析。
影响因子：
3.7
作者：
Schacherer J;Ruderfer DM;Gresham D;Dolinski K;Botstein D;Kruglyak L
通讯作者：
Kruglyak L
影响因子：
64.8
作者：
Steinmetz, LM;Sinha, H;Davis, RW
通讯作者：
Davis, RW
影响因子：
64.8
作者：
Kellis, M;Patterson, N;Lander, ES
通讯作者：
Lander, ES
影响因子：
64.8
作者：
Dujon, B;Sherman, D;Souciet, JL
通讯作者：
Souciet, JL
影响因子：
56.9
作者：
Gresham, D;Ruderfer, DM;Kruglyak, L
通讯作者：
Kruglyak, L