Studies on codon usage in Entamoeba histolytica
Studies on codon usage in Entamoeba histolytica
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DOI：
10.1016/s0020-7519(00)00042-4
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发表时间：
2000-05-01
影响因子：
4
通讯作者：
Majumdar, S
中科院分区：
文献类型：
--
作者：
Ghosh, TC;Gupta, SK;Majumdar, S
利用已知的DNA序列数据，对溶组织内阿米巴（Entamoeba histolytica）的密码子使用偏倚进行了研究。溶组织内阿米巴具有富含AT的基因组，预期在密码子的第三位具有A和/或T。总体密码子使用数据分析表明，A和/或T末端密码子在该生物体的编码区中具有强烈的偏好性。然而，多变量统计分析表明，有一个单一的主要趋势，在基因之间的密码子使用的变化。高表达的基因聚集在一端，而大多数低表达的基因聚集在另一端。这两组基因的密码子使用模式明显不同。C末端密码子在该菌高表达基因中显著较高，表明C末端密码子在该菌中在功能上是最佳的。低表达基因中以A和/或T结尾密码子为主，说明组成限制在低表达基因密码子使用变异中起主要作用。这些结果表明，突变的偏见和翻译选择是可操作的密码子使用的变化，在这种生物体。(C)2000年澳大利亚寄生虫学会由爱思唯尔科技有限公司出版。保留所有权利。
Codon usage bias of Entamoeba histolytica, a protozoan parasite, was investigated using the available DNA sequence data. Entamoeba histolytica having AT rich genome, is expected to have A and/or T at the third position of codons. Overall codon usage data analysis indicates that A and/or T ending codons are strongly biased in the coding region of this organism. However, multivariate statistical analysis suggests that there is a single major trend in codon usage variation among the genes. The genes which are supposed to be highly expressed are clustered at one end, while the majority of the putatively lowly expressed genes are clustered at the other end. The codon usage pattern is distinctly different in these two sets of genes. C ending codons are significantly higher in the putatively highly expressed genes suggesting that C ending codons are translationally optimal in this organism. In the putatively lowly expressed genes A and/or T ending codons are predominant, which suggests that compositional constraints are playing the major role in shaping codon usage variation among the lowly expressed genes. These results suggest that both mutational bias and translational selection are operational in the codon usage variation in this organism. (C) 2000 Australian Society for Parasitology Inc. Published by Elsevier Science Ltd. All rights reserved.