Sequencing and comparison of yeast species to identify genes and regulatory elements
Sequencing and comparison of yeast species to identify genes and regulatory elements
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DOI：
10.1038/nature01644
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发表时间：
2003-05-15
期刊：
影响因子：
64.8
通讯作者：
Lander, ES
中科院分区：
文献类型：
--
作者：
Kellis, M;Patterson, N;Lander, ES
识别基因组中编码的功能元素是现代生物学中的主要挑战之一。比较基因组学应提供强大的一般方法。在这里，我们根据三个相关物种的高质量草稿序列（S. paradoxus，S。mikatae和S. bayanus）进行了酿酒酵母的比较分析。我们首先将基因组对准并描述了它们的进化，从而定义了变化的区域和机制。然后，我们开发了直接鉴定基因和调节基序的方法。基因分析对酵母基因目录进行了重大修订，影响了所有基因的大约15％，并将总数减少了约500个基因。基序分析自动确定了72个全基因组元素，包括最著名的调节基序和许多新基序。我们推断了大多数这些基线的推定功能，并为其组合相互作用提供了见解。结果对包括人在内的各种生物的基因组分析具有影响。
Identifying the functional elements encoded in a genome is one of the principal challenges in modern biology. Comparative genomics should offer a powerful, general approach. Here, we present a comparative analysis of the yeast Saccharomyces cerevisiae based on high-quality draft sequences of three related species (S. paradoxus, S. mikatae and S. bayanus). We first aligned the genomes and characterized their evolution, defining the regions and mechanisms of change. We then developed methods for direct identification of genes and regulatory motifs. The gene analysis yielded a major revision to the yeast gene catalogue, affecting approximately 15% of all genes and reducing the total count by about 500 genes. The motif analysis automatically identified 72 genome-wide elements, including most known regulatory motifs and numerous new motifs. We inferred a putative function for most of these motifs, and provided insights into their combinatorial interactions. The results have implications for genome analysis of diverse organisms, including the human.