A method for identification of selenoprotein genes in archaeal genomes.
A method for identification of selenoprotein genes in archaeal genomes.
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DOI：
10.1016/s1672-0229(08)60034-0
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发表时间：
2009-06
影响因子：
9.5
通讯作者：
Xiao, Yi
中科院分区：
文献类型：
--
作者：
Li, Mingfeng;Huang, Yanzhao;Xiao, Yi
遗传密码子 UGA 具有双重功能：充当终止子并编码硒代半胱氨酸。然而，大多数流行的基因注释程序仅将其作为停止信号，导致错误注释或完全缺失硒蛋白基因。我们开发了一种名为 Asec-Prediction 的计算方法，专门用于预测古菌硒蛋白基因。为了评估其有效性，我们首先将其应用于 14 个具有先前已知的硒蛋白基因的古细菌基因组，Asec-Prediction 识别了所有报告的硒蛋白基因，没有多余的结果。当我们将其应用到 12 个尚未研究过硒蛋白基因的古细菌基因组时，Asec-Prediction 在乙酸甲烷八叠球菌中检测到了一种新的硒蛋白基因。还收集了进一步的证据来支持预测的基因应该是真正的硒蛋白基因。结果表明Asec-Prediction对于古菌硒蛋白基因的预测是有效的。
The genetic codon UGA has a dual function: serving as a terminator and encoding selenocysteine. However, most popular gene annotation programs only take it as a stop signal, resulting in misannotation or completely missing selenoprotein genes. We developed a computational method named Asec-Prediction that is specific for the prediction of archaeal selenoprotein genes. To evaluate its effectiveness, we first applied it to 14 archaeal genomes with previously known selenoprotein genes, and Asec-Prediction identified all reported selenoprotein genes without redundant results. When we applied it to 12 archaeal genomes that had not been researched for selenoprotein genes, Asec-Prediction detected a novel selenoprotein gene in Methanosarcina acetivorans. Further evidence was also collected to support that the predicted gene should be a real selenoprotein gene. The result shows that Asec-Prediction is effective for the prediction of archaeal selenoprotein genes.