独蒜兰属叶绿体基因组序列及密码子偏好性分析  

Analysis of Chloroplast Genome Sequence and Codon Preference of Pleione

作　　者：陶爱恩 尹成龙 李娅波 张玥 海永林 赵飞亚 Tao Aien;Yin Chenglong;Li Yabo;Zhang Yue;Hai Yonglin;Zhao Feiya(School of Medicine,Lijiang University of Culture and Tourism,Lijiang Yunnan 674100,China;School of Pharmacy,Dali University,Dali Yunnan 671000,China)

机构地区：[1]丽江文化旅游学院医学院,云南丽江674100 [2]大理大学药学院,云南大理671000

出　　处：《西南林业大学学报(自然科学)》2025年第2期66-75,共10页Journal of Southwest Forestry University:Natural Sciences

基　　金：云南省科技厅基础研究计划面上项目(202101AT070001)资助;云南省教育厅科学研究基金项目(2022J1214)资助;云南省大学生创新创业训练计划项目(SC20201332804,SC20211332803,SC202213328004)资助;丽江市科技计划项目(2023LJSNK09)资助;丽江市中青年学术和技术带头人后备人才项目资助;校级中青年学术和技术带头人后备人才项目资助。

摘　　要：为探讨独蒜兰属叶绿体基因组中密码子的使用模式,选取独蒜兰属的16个物种作为研究对象,通过使用Codon W 1.4.2软件以及在线工具CUSP,分析了独蒜兰属密码子的GC含量、相对密码子使用度(RSCU)、有效密码子数(ENC)等参数,并进行了中性绘图、PR2-plot和最优密码子的分析。结果表明:16个物种在密码子的GC_(1)、GC_(2)、GC_(3)和GC_(all)含量方面相对接近,同时每个物种均体现出GC_(1)的含量大于GC_(2)和GC_(3),表明独蒜兰属植物同一物种的GC含量在不同密码子位置分布上存在不均匀性,且倾向于以A/U作为密码子的结尾。此外,所有物种的ENC值均超过35,说明独蒜兰属的密码子偏好性较弱。由此可见,独蒜兰属植物叶绿体基因组中密码子的使用偏好主要受到自然选择的影响。通过相对使用度(RSCU)和ENC值的筛选,识别出10~22个最优密码子,其中大多数以A/U结尾。To clarify the usage pattern of codons in the chloroplast genome of Pleione,16 species of Pleione were used as study materials,and Codon W 1.4.2 and online software CUSP were used to obtain GC,RSCU,ENC and other relevant parameters of codons in Pleione,and neutral mapping,PR2-plot and optimal codon analysis were also carried out.The results showed that the contents of codons GC_(1),GC_(2),GC_(3) and GC_(all) were similar in 16 species,and each species showed the following pattern:GC_(1)>GC_(2)>GC_(3),which indicated that the GC contents in the same species of Pleione were not uniformly distributed in different positions of the codons,and the codons preferred to end in A/U;the ENC values were all more than 35,which indicated that the codon preferences of Pleione were weak.It is evident that the formation of codon preferences in the chloroplast genomes of Pleione was mainly influenced by natural selection. The relative sequence usage(RSCU) and ENC values were used to identify the 10-22 optimal codons, most of which ended in A/U.

关 键 词：独蒜兰属 叶绿体 基因组 密码子 偏好性 

分 类 号：S682.31[农业科学—观赏园艺]