Single nucleotide polymorphisms in wild isolates of Caenorhabditis elegans
Single nucleotide polymorphisms in wild isolates of Caenorhabditis elegans
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DOI：
10.1101/gr.gr-1471r
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发表时间：
2000-11-01
期刊：
影响因子：
7
通讯作者：
Plasterk, RHA
中科院分区：
文献类型：
--
作者：
Koch, R;van Luenen, HGAM;Plasterk, RHA
秀丽隐杆线虫（从英国布里斯托尔分离N2株）是第一个获得完整基因组序列的动物。我们从四个不同地点（澳大利亚、德国、加利福尼亚和威斯康星）的秀丽隐杆线虫自然分离株中取样基因组DNA，并通过与Bristol菌株的比较发现单核苷酸多态性（snp）。snp在编码区域的代表性不足，许多被发现是第三碱基沉默密码子突变。我们对另外19个天然分离株进行了检测，以确定在其中一个菌株中发现的snp的存在和分布。大多数snp存在于全球各地的分离株中，因此比这些菌株之间的最新接触更早。一个例外是来自一个岛屿（夏威夷）的分离物，它包含许多独特的SNPs，在世界其他地方的测试分离物中不存在，以前已经注意到保守基因（根据与酿酒酵母基因的同源性定义）聚集在染色体中心。我们发现，这些区域之外的SNP频率高出4.5倍，这支持了染色体臂上基因进化速度更高的观点。
Caenorhabditis elegans (isolate N2 from Bristol, UK) is the first animal of which the complete genome sequence was available. We sampled genomic DNA of natural isolates of C. elegans From four different locations (Australia, Germany, California, and Wisconsin) and found single nucleotide polymorphisms (SNPs) by comparing with the Bristol strain. SNPs are under-represented in coding regions, and many were found to be third base silent codon mutations. We tested 19 additional natural isolates for the presence and distribution of SNPs originally found in one of the four strains. Most SNPs are present in isolates from around the globe and thus are older than the latest contact between these strains. An exception is formed by an isolate from an island (Hawaii) that contains many unique SNPs, absent in the tested isolates from the rest of the world, it has been noticed previously that conserved genes (as defined by homology to genes in Saccharomyces cerevisiae) cluster in the chromosome centers. We round that the SNP frequency outside these regions is 4.5 times higher, supporting the notion of a higher rate of evolution of genes on the chromosome arms.