杜仲转录组基因密码子使用偏好性分析  

Analysis of Characteristic of Codon Usage of Eucommia ulmoides Transcriptome

作　　者：刘慧敏[1,2] 乌云塔娜[1,2] 杜红岩[1,2] 

机构地区：[1]中国林业科学研究院经济林研究开发中心,河南郑州450003 [2]国家林业局杜仲工程技术研究中心,河南郑州450003

出　　处：《北方园艺》2016年第13期85-89,共5页Northern Horticulture

基　　金：国家"十二五"科技支撑计划资助项目(2012BAD21B0502)

摘　　要：以杜仲转录组数据为试材,采用CodonW和SPSS软件相结合的方法,研究了杜仲基因密码子组成和长度对基因表达量的影响,以期为将来改造外源基因及利用基因工程技术改良杜仲提供理论基础。结果表明:杜仲转录组中基因的表达量与G3s、C3s、G+C和GC3s含量均呈极显著正相关(P<0.01),与A3s含量、T3s含量、单条基因总密码子数(L_aa)和有效密码子数ENC均呈极显著负相关(P<0.01),与Aro含量呈显著负相关(P<0.05),表明高表达基因的密码子使用偏好性较强,且偏好于使用以G/C结尾的密码子;ENC与C3s、G3s、G+C和GC3含量均呈极显著负相关(P<0.01),与A3s、T3s、Aro含量呈极显著正相关(P<0.01);确定了15个杜仲最优密码子,分别为AAC、AAG、ACC、AGG、AUC、CAC、CAG、CCG、CUC、CUG、GCC、GGC、GUC、UAC和UCC。果实和叶片特异表达基因在氨基酸Leu、Ile、Ser、Pro、Thr、Asn、Glu和Cys密码子的使用上存在差异。Eucommia ulmoides was used as test materials,the correlation between codon composition and gene expression was analyzed based on the transcriptome data by using CodonW and SPSS software,in order to offer a theoretical foundation for transforming exogenous gene and Eucommiagenetic engineering.The results showed that the gene expression had a significant and positive correlation to G3 s,C3s,G＋C and GC3s（P〈0.01）content and a negative correlation to A3 scontent,T3scontent,gene coding sequence length and effective codon number（ENC）（P〈0.01）and Aro content（P〈0.05）.These results indicated that genes with a high expression had a stronger codon usage bias and likely end with G/C.ENC had a significant positive correlation to A3 s,T3sand Aro content（P〈0.01）and a significant negative correlation to C3 s,G3s,G＋C,and GC3scontent（P〈0.01）.Fifteen optimal codons were identified,namely,AAC,AAG,ACC,AGG,AUC,CAC,CAG,CCG,CUC,CUG,GCC,GGC,GUC,UAC,and UCC.Fruit and leaf special genes had difference on the codon usage of Leu,Ile,Ser,Pro,Thr,Asn,Glu and Cys.

关 键 词：杜仲 转录组 密码子 偏好性 

分 类 号：S567.19[农业科学—中草药栽培]