Characteristic enrichment of DNA repeats in different genomes
Characteristic enrichment of DNA repeats in different genomes
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DOI：
10.1073/pnas.94.10.5237
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发表时间：
1997-05-13
影响因子：
11.1
通讯作者：
Mirkin, SM
中科院分区：
文献类型：
--
作者：
Cox, R;Mirkin, SM
使用为此目的开发的计算机程序，我们寻找各种重复序列，包括反向，直接串联，和高嘌呤-高嘧啶镜像重复在各种原核生物，真核生物，和古细菌。观察到的频率与预期的比较表明，在细菌基因组和细胞器中，不同重复的频率是随机的或丰富的远反向和/或直接串联重复。相比之下，在所有研究的真核生物基因组中，我们观察到所有重复的过度表达，特别是高嘌呤-高嘧啶镜像重复。所有丰富的重复序列的基因组分布的分析表明，他们几乎被排除在编码序列。出乎意料的是，丰富的重复频率标准化为他们的期望几乎是完美的指数函数的大小，并为一个给定的重复这个功能是无法区分不同的基因组。
Using computer programs developed for this purpose, we searched for various repeated sequences including inverted, direct tandem, and homopurine-homopyrimidine mirror repeats in various prokaryotes, eukaryotes, and an archaebacterium. Comparison of observed frequencies with expectations revealed that in bacterial genomes and organelles the frequency of different repeats is either random or enriched far inverted and/or direct tandem repeats. By contrast, in all eukaryotic genomes studied, we observed an overrepresentation of all repeats, especially homopurine-homopyrimidine mirror repeats. Analysis of the genomic distribution of all abundant repeats showed that they are virtually excluded from coding sequences. Unexpectedly, the frequencies of abundant repeats normalized for their expectations were almost perfect exponential functions of their size, and for a given repeat this function was indistinguishable between different genomes.