| 普通羊肚菌密码子偏好性分析 |
| |
| 引用本文： | 吕贝贝,吴潇,蒋玮,于海龙,金剑锋,陈雷,谭琦,唐雪明.普通羊肚菌密码子偏好性分析[J].食用菌学报,2016(1):13-17. |
| |
| 作者姓名： | 吕贝贝 吴潇 蒋玮 于海龙 金剑锋 陈雷 谭琦 唐雪明 |
| |
| 作者单位： | 1. 上海市农业科学院生物技术研究所，上海 201106; 上海市农业遗传育种重点实验室，上海 201106;2. 上海市农业科学院食用菌研究所，农业部南方食用菌资源利用重点实验室，国家食用菌工程技术研究中心，国家食用菌加工技术研发分中心，上海市农业遗传育种重点开放实验室，上海 201403;3. 上海市农业科学院农业科技信息技术研究所,上海,201106;4. 南京野生植物综合利用研究院,南京,210000 |
| |
| 基金项目： | 上海市农委项目[沪农青字(2016)第1-16号]、[沪农科攻字(2015)第5-6号]和[沪农科攻字(2015)第(6-1-5)号]资助 |
| |
| 摘 要： | 采用CodonW1.4.2软件和CUSP程序,以普通羊肚菌(Morchella conica)全基因组蛋白质编码序列(coding sequence,CDS)为对象,解析了该菌的有效密码子数(effective number of codon,ENC)、密码子3个位点的 GC含量、相对同义密码子使用度(relative synonymous codon usage,RSCU)和高表达优越密码子。结果表明：普通羊肚菌全基因组密码子第2位密码子的 GC含量明显低于第1位和第3位,第3位密码子与第1位含量差异不大,分别为57.8%和56.8%,RSCU 值大于等于1的密码子总共35个,其中以 G 或 C 结尾的25个,占71.4%,确定了25个高表达优越密码子。
|
| 关 键 词： | 普通羊肚菌 编码序列 密码子偏好性 优越密码子 |
Analysis of Codon Bias in Morchella conica |
| |
| Abstract: | Codon bias in the genome coding sequence of Morchella conica was investigated using bioinformatics codon W1.4.2 software and the CUSP program,and the effective number of codons (ENCs),the GC content of the third codon position (GC3s),relative synonymous codon usage and optimal codons were determined.Analysis of the base composition at each position of every codon in the entire M.conica genome revealed GC distribution to be 57.8%,42.0% and 56.8% at the 1st ,2nd and 3rd positions,respectively. ENC-GC3s plots for coding sequence genes revealed that a small number of genes fell on the standard curve while the majority of points lay below,indicating that most of the observed codon bias of the major genes could be attributed to a product of GC mutation bias.Relative synonymous codon usage (RSCU)of 64 codons revealed 35 high frequency codons (RSCU value≥1 )including 25 codons with G/C in the third position which can be used to study molecular evolution and genetic transformation in M.conica. |
| |
| Keywords: | Morchella conica coding sequence codon usage bias optimal code |
| 本文献已被 万方数据 等数据库收录！ |
|
