金鱼密码子用法特点分析  

Analysis of Codon Usage Bias in Carassius auratus

作　　者：张欣[1] 尤宏争[2] 李荣妮 朱莉飞[1] 李文通[1] 梁拥军[1] 史东杰[1] 孙砚胜[1] ZHANG Xin;YOU Hongzheng;LI Rongni;ZHU Lifei;LI Wentong;LIANG Yongjun;SHI Dongjie;SUN Yansheng(Beijing Fisheries Research Institute,Beijing 100068,China;Tianjin Fisheries Research Institute,Tianjin 300221,China)

机构地区：[1]北京市水产科学研究所,北京100068 [2]天津市水产研究所,天津300221

出　　处：《华北农学报》2017年第A01期30-36,共7页Acta Agriculturae Boreali-Sinica

基　　金：北京市自然科学基金项目(8152017);公益性行业(农业)科研专项(201503108);北京市农林科学院所级科技创新团队建设(JNKST201616);农业部都市农业(北方)重点实验室(99124120)

摘　　要：不同物种间的同义密码子使用偏性存在差异,开展密码子偏好性研究可深入了解基因表达特征,为分子育种提供依据。利用Illumina Hi Seq 2000高通量测序技术获得金鱼的转录组数据,筛选符合条件的编码基因序列(Coding DNAsequence,简称CDS),并通过Codon W软件和CUSP程序对金鱼蛋白质编码基因序列进行了分析,获得编码氨基酸的密码子使用频率,并与人、酵母、大肠杆菌、果蝇、斑马鱼等不同种类的模式生物进行比较。结果表明,金鱼8 143个基因在64个密码子中有28种偏爱密码子,有效密码子数为54.9,3个位置的平均GC含量为0.509,第3位密码子GC百分含量为0.564,金鱼偏向使用G或C结尾的密码子。金鱼密码子偏好性与模式生物有不同程度的差异,与酵母密码子使用频率差异最大,与斑马鱼的密码子偏好性一致。The study of codon usage bias in species can be in-depth understanding of gene expressions,and provide the basis for molecular breeding.8 143 eligible coding DNA sequences were selecting from transcriptome data of Carassius auratus which were obtained through transcriptome sequencing by Illumina HiSeq 2000.CDS were analyzed by CodonW and CUSP programs in C.auratus genome,calculating frequency of codon usage which encoded amino acids and comparing with variety classes of mode organisms such as:Homo sapiens,yeast,E.coli,Drosophila,D.rerio.The consequences indicated that twenty-eight optimal codons of C.auratus were identified in 64 codons,effective number of codons was 54.9,GC content of genes was 0.509,GC content at the third position of synonymous codon was 0.564 the codons which were ending with G or C were bias using.And codon bias of C.auratus was difference in various degrees with other mode organisms,codon usage frequency of C.auratus was biggest different from yeast,but had a consistency with codon bias of D.rerio.

关 键 词：金鱼 密码子 密码子偏好性 GC含量 

分 类 号：Q78[生物学—分子生物学] Q959.4