Nucleotide bias causes a genomewide bias in the amino acid composition of proteins
Nucleotide bias causes a genomewide bias in the amino acid composition of proteins
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DOI：
10.1093/oxfordjournals.molbev.a026257
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发表时间：
2000-11-01
影响因子：
10.7
通讯作者：
Hickey, DA
中科院分区：
文献类型：
--
作者：
Singer, GAC;Hickey, DA
我们分析了几个完全测序的基因组的核苷酸含量，我们表明，核苷酸的偏见可以有一个显着的影响编码蛋白质的氨基酸组成。通过调查的基因在21个完全测序的真细菌和古细菌基因组，沿着整个酿酒酵母基因组和两个恶性疟原虫染色体，我们发现，有偏见的DNA编码有偏见的蛋白质在全基因组范围内。预测的偏差几乎影响基因组中的所有基因，即使我们将分析限制在同源基因序列组中，也可以清楚地看到。在古细菌和真细菌中发现了组成偏差的平行模式。我们还发现氨基酸偏好程度与蛋白质序列分歧程度之间存在正相关性。我们的结论是突变的偏见可以有一个重大的影响，蛋白质的分子进化。这些结果可能具有重要意义的蛋白质为基础的分子生物学的解释和推理的功能蛋白质的适应比较序列数据。
We analyzed the nucleotide contents of several completely sequenced genomes, and we show that nucleotide bias can have a dramatic effect on the amino acid composition of the encoded proteins. By surveying the genes in 21 completely sequenced eubacterial and archaeal genomes, along with the entire Saccharomyces cerevisiae genome and two Plasmodium falciparum chromosomes, we show that biased DNA encodes biased proteins on a genomewide scale. The predicted bias affects virtually all genes within the genome, and it could be clearly seen even when we limited the analysis to sets of homologous gene sequences. Parallel patterns of compositional bias were found within the archaea and the eubacteria. We also found a positive correlation between the degree of amino acid bias and the magnitude of protein sequence divergence. We conclude that mutational bias can have a major effect on the molecular evolution of proteins. These results could have important implications for the interpretation of protein-based molecular phylogenies and for the inference of functional protein adaptation from comparative sequence data.