中国农业科技导报2026，Vol.28Issue(3)：74-84,11.DOI:10.13304/j.nykjdb.2024.0692
甜龙竹叶绿体基因组密码子偏好性分析
Analysis of Condon Usage Bias in Chloroplast Genome of Dendrocalamus brandisii
摘要
Abstract
To explore the codon usage preference and influencing factors of chloroplast genome in Dendrocalamus brandisii,50 protein-coding sequences of chloroplast genome of D.brandisii were as materials,the GC content at different codon positions(GC1,GC2,GC3),effective codon number(ENC),codon adaptation index(CAI),codon bias index(CBI),frequency of optimal codon usage(Fop)and relative synonymous codon usage(RSCU)were analyzed using software such as Codon W 1.4.2,CUSP and Excel.The results showed that the GC content followed the trend of GC1(47.70%)>GC2(39.39%)>GC3(30.99%)with average GC content 39.36%,which indicated there was an uneven distribution of GC content in chloroplast genome of D.brandisii.Codon preference was found to favor A/U endings,with the third base(GC3)showing a greater preference for A/U compared to the first(GC1)and second(GC2)bases.The means of ENC,CAI,CBI and Fop were 50.41,0.17,-0.09 and 0.36,respectively,indicating a weak codon usage preference in chloroplast genome of D.brandisii.Neutral plot,ENC-plot and PR2-plot analyses further demonstrated that codon usage preference in chloroplast genome of D.brandisii was primarily influenced by natural selection factor.And 11 optimal codons were identified,including GCU,UGU and GGU et al.Above results provided reference for the genomic research of D.brandisii and laid the foundation for subsequent studies in related fields.关键词
甜龙竹/叶绿体基因组/密码子偏好性/最优密码子Key words
Dendrocalamus brandisii/chloroplast genome/codon preference/optima codons分类
农业科技引用本文复制引用
曹建杰,辉朝茂,向自乾,蔡霖,胡梦茹,张寻梦,刘蔚漪..甜龙竹叶绿体基因组密码子偏好性分析[J].中国农业科技导报,2026,28(3):74-84,11.基金项目
国家重点研发计划项目(2021YFD2200501) （2021YFD2200501）
云南省基础研究项目(202201AT070053) （202201AT070053）
云南省农业联合专项(202301BD070001-123). （202301BD070001-123）
