Population genomics of domestic and wild yeasts.
Population genomics of domestic and wild yeasts.
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DOI：
10.1038/nature07743
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发表时间：
2009-03-19
期刊：
影响因子：
64.8
通讯作者：
Louis, Edward J.
中科院分区：
文献类型：
--
作者：
Liti, Gianni;Carter, David M.;Moses, Alan M.;Warringer, Jonas;Parts, Leopold;James, Stephen A.;Davey, Robert P.;Roberts, Ian N.;Burt, Austin;Koufopanou, Vassiliki;Tsai, Isheng J.;Bergman, Casey M.;Bensasson, Douda;O'Kelly, Michael J. T.;van Oudenaarden, Alexander;Barton, David B. H.;Bailes, Elizabeth;Ba, Alex N. Nguyen;Jones, Matthew;Quail, Michael A.;Goodhead, Ian;Sims, Sarah;Smith, Frances;Blomberg, Anders;Durbin, Richard;Louis, Edward J.
自1996年完成酿酒酵母基因组序列以来，随着我们对基因组进化的理解取得了巨大进展，全基因组序列呈指数级增长。尽管对野生酵母的自然和生活史知之甚少，但越来越多的研究关注生态和地理分布、种群结构以及有性繁殖与无性繁殖。在全基因组水平上，对种群和物种内部导致适应不同环境、表型差异和生殖隔离的进化过程了解较少。在这里，我们提出了一到四倍或更多的基因组序列覆盖超过70分离的面包酵母，酿酒酵母，和它最近的亲戚，悖论酵母。我们研究了基因含量、snp、索引、拷贝数和转座因子的变异。我们发现表型变异与全球全基因组系统发育关系广泛相关。有趣的是，悖论葡萄球菌种群沿地理边界划分得很好，而世界范围内酿酒葡萄球菌分离株之间的差异表现出较少的分化，与单一悖论葡萄球菌种群相当。酿酒酵母的种群结构不是由一两个驯化事件导致现存的面包酵母，而是由几个明确定义的地理上孤立的谱系和这些谱系的许多不同的马赛克组成，这支持了人类的影响为交叉育种和产生已有变异的新组合提供了机会的观点。
Since the completion of the genome sequence of Saccharomyces cerevisiae in 1996, there has been an exponential increase in complete genome sequences accompanied by great advances in our understanding of genome evolution. Although little is known about the natural and life histories of yeasts in the wild, there are an increasing number of studies looking at ecological and geographic distributions, population structure, and sexual versus asexual reproduction. Less well understood at the whole genome level are the evolutionary processes acting within populations and species leading to adaptation to different environments, phenotypic differences and reproductive isolation. Here we present one- to four-fold or more coverage of the genome sequences of over seventy isolates of the baker's yeast, S. cerevisiae, and its closest relative, S. paradoxus. We examine variation in gene content, SNPs, indels, copy numbers and transposable elements. We find that phenotypic variation broadly correlates with global genome-wide phylogenetic relationships. Interestingly, S. paradoxus populations are well delineated along geographic boundaries while the variation among worldwide S. cerevisiae isolates shows less differentiation and is comparable to a single S. paradoxus population. Rather than one or two domestication events leading to the extant baker's yeasts, the population structure of S. cerevisiae consists of a few well-defined geographically isolated lineages and many different mosaics of these lineages, supporting the idea that human influence provided the opportunity for cross-breeding and production of new combinations of pre-existing variation.
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影响因子：
2.6
作者：
Liti, G;Peruffo, A;Louis, EJ
通讯作者：
Louis, EJ
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：
Mancera, Eugenio;Bourgon, Richard;Brozzi, Alessandro;Huber, Wolfgang;Steinmetz, Lars M.
通讯作者：
Steinmetz, Lars M.
DOI：
10.1073/pnas.0801628105
发表时间：
2008-07-29
影响因子：
11.1
作者：
Wiens, Frank;Zitzmann, Annette;Spanagel, Rainer
通讯作者：
Spanagel, Rainer
影响因子：
64.8
作者：
MCDONALD, JH;KREITMAN, M
通讯作者：
KREITMAN, M