Evidence of selectively driven codon usage in rice:: Implications for GC content evolution of Gramineae genes
Evidence of selectively driven codon usage in rice:: Implications for GC content evolution of Gramineae genes
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DOI：
10.1016/j.febslet.2007.01.088
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发表时间：
2007-03-06
期刊：
影响因子：
3.5
通讯作者：
Fan, Longjiang
中科院分区：
文献类型：
--
作者：
Guo, Xingyi;Bao, Jiandong;Fan, Longjiang
在水稻和其他谷物中发现了以GC含量高和低为特征的两类基因，但在双子叶植物基因组中没有发现。我们使用水稻中GC含量高和低的旁系同源基因，发现：（a）外显子四倍冗余位点的GC含量比侧翼内含子的增加更大;（B）关于它们在拟南芥中的直向同源物，发现两种旁系同源物之间的大多数取代位点在2-和4-简并位点处，具有T -> C模式，而A -> C和A -> G在0-简并位点起主要作用;和（c）高GC基因具有更大的偏好，并且密码子使用偏向于在高表达基因中优选的密码子。我们认为这是水稻中选择性驱动密码子使用的有力证据。另一种谷物，玉米，也显示出与水稻相同的趋势。这代表了水稻和其他谷物中具有高GC含量的基因起源的潜在进化过程。(c)2007年欧洲生物化学学会联合会。Elsevier B. V.出版，保留所有权利。
Two gene classes characterized by high and low GC content have been found in rice and other cereals, but not dicot genomes. We used paralogs with high and low GC contents in rice and found: (a) a greater increase in GC content at exonic fourfold-redundant sites than at flanking introns; (b) with reference to their orthologs in Arabidopsis, most substitution sites between the two kinds of paralogs are found at 2- and 4-degenerate sites with a T -> C mode, while A -> C and A -> G play major roles at 0-degenerate sites; and (c) high-GC genes have greater bias and codon usage is skewed toward codons that are preferred in highly expressed genes. We believe this is strong evidence for selectively driven codon usage in rice. Another cereal, maize, also showed the same trend as in rice. This represents a potential evolutionary process for the origin of genes with a high GC content in rice and other cereals. (c) 2007 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.