A Method for Identification of Selenoprotein Genes in Archaeal Genomes  

作　　者：Mingfeng Li Yanzhao Huang Yi Xiao 

机构地区：[1]Biomolecular Physics and Modeling Group, Department of Physics, Huazhong University of Science and Technology, Wuhan 430074, China

出　　处：《Genomics, Proteomics & Bioinformatics》2009年第1期62-70,共9页基因组蛋白质组与生物信息学报（英文版）

基　　金：supported by the National Natu-ral Science Foundation of China under Grant No.30525037;the National 863 Program under Grant No. 2004AA231060

摘　　要：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 Asec-Prediction is effective be a real selenoprotein gene. for the prediction of archaeal The result shows that selenoprotein genes.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 Asec-Prediction is effective be a real selenoprotein gene. for the prediction of archaeal The result shows that selenoprotein genes.

关 键 词：ARCHAEA SELENOCYSTEINE SELENOPROTEIN SECIS SelB gene prediction 

分 类 号：Q513[生物学—生物化学] S852.65[农业科学—基础兽医学]