水产科技情报2025，Vol.52Issue(4)：205-213,9.DOI:10.16446/j.fsti.20230700125
草鱼cdx2基因密码子偏好性与进化分析
Codon bias and evolutionary analysis of the cdx2 gene in grass carp(Ctenopharyngodon idella)
摘要
Abstract
This study explored the codon bias formed in the evolution of cdx2 gene in grass carp(Ctenopharyn-godon idella)and its phylogenetic relationship with certain animals(Bos taurus,Gallus gallus,Homo sapiens,Mus musculus,Polypterus senegalus,Rattus norvegicus,Sus scrofa,Xenopus tropicalis),providing insights into the heterologous expression and molecular regulation research of the cdx2 gene in grass carp.In this study,17 cdx2 genes from grass carp and 8 other animals were utilized,employing Codon W and EMBOSS tools to make sta-tistical analysis of the codon bias parameters.Subsequently,SPSS and MEGA tools were used to analyze codon bias and gene clustering,respectively.The results showed that the cdx2 gene in grass carp exhibited the strongest codon bias for CUG and there were 7 high-frequency codons of the cdx2 gene in 9 species,all of which ended in C/G,CUG being the optimal codon.The effective number of codons(ENC)for the cdx2 gene in 9 animals ranged from 33.01 to 58.08,and the codon adaptation index(CAI)was much less than 1,indicating weak codon preference.Natural selection is an important driving force behind the cdx2 codon usage biases in most animals.The cdx2 gene has different biases for synonymous codons either in different animal species or in the same animal species.The clustering results based on the relative synonymous codon usage(RSCU)values of animal cdx2 genes were similar to those based on the phylogenetic tree,though slightly less accurate.关键词
草鱼/尾型同源盒转录因子cdx2基因/密码子偏好性/进化分析Key words
grass carp/caudal-related homeobox transcription factor cdx2 gene/codon bias/evolutionary analysis引用本文复制引用
罗君涵,刘晶,宋梦玲,何志敏,李艳芳,高星,唐翔,罗雅楠,曾鹏,卿艳玲,王辰浩洋,陈振峰..草鱼cdx2基因密码子偏好性与进化分析[J].水产科技情报,2025,52(4):205-213,9.基金项目
国家自然科学基金(31902345和32102813) （31902345和32102813）
湖南省自然科学基金(2023JJ30075、2023JJ40075和2021JJ40627) （2023JJ30075、2023JJ40075和2021JJ40627）
湖南省教育厅重点项目(22A0597). （22A0597）
