[1]曾春涛,梁俊杰,仇学文,等.豇豆GATL基因家族密码子偏好性分析[J].江苏农业学报,2024,(11):2131-2139.[doi:doi:10.3969/j.issn.1000-4440.2024.11.017]
　ZENG Chuntao,LIANG Junjie,QIU Xuewen,et al.Codon usage bias analysis of cowpea GATL gene family[J].,2024,(11):2131-2139.[doi:doi:10.3969/j.issn.1000-4440.2024.11.017]
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豇豆GATL基因家族密码子偏好性分析()
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江苏农业学报[ISSN:1006-6977/CN:61-1281/TN]

卷:
期数:
2024年11期
页码:
2131-2139
栏目:
园艺
出版日期:
2024-11-30

文章信息/Info

Title:
Codon usage bias analysis of cowpea GATL gene family
作者:
曾春涛; 梁俊杰; 仇学文; 张舒悦; 程柳洋; 吴才君
(江西农业大学农学院,江西南昌330000)
Author(s):
ZENG Chuntao; LIANG Junjie; QIU Xuewen; ZHANG Shuyue; CHENG Liuyang; WU Caijun
(College of Agriculture, Jiangxi Agricultural University, Nanchang 330000, China)
关键词:
豇豆; GATL基因家族; 相关性分析; 密码子偏好性
Keywords:
cowpea; GATL gene family; correlation analysis; codon preference
分类号:
S643.4
DOI:
doi:10.3969/j.issn.1000-4440.2024.11.017
文献标志码:
A
摘要:
为明确豇豆类似半乳糖醛酸基转移酶(GATL)基因密码子使用偏好及其影响因素,本研究对32条豇豆GATL基因家族成员进行分析。结果表明,大部分GATL基因家族成员密码子偏好以A/T结尾。豇豆GATL基因家族的有效密码子数（ENc）为39.29～55.77,平均值为51.06,同义密码子第3位G+C的含量（GC3）为34.10%～74.60%,表明豇豆GATL基因家族密码子使用偏好性较弱。相对同义密码子使用度（RSCU）聚类结果与编码序列（CDS）聚类结果基本一致。通过偏倚分析（PR2-plot分析）、ENc-plot分析以及中性绘图分析可以看出,豇豆GATL基因家族密码子使用偏好主要受自然选择的影响。本研究结果可为豇豆GATL的基因表达和功能验证提供理论依据。
Abstract:
To clarify the codon usage bias of galacturonic acid transferase-like (GATL) genes in cowpea and influencing factors, the 32 members of the cowpea GATL gene family were analyzed in this study. The results showed that most of the codons preferred by the GATL gene family ended with A/T. The effective number of codons (ENc) of the cowpea GATL gene family ranged from 39.29 to 55.77, with an average of 51.06, and the contents of G+C at the third position of synony-mous Sodons (GC3) ranged from 34.10% to 74.60%, indicating that the codon usage bias of the cowpea GATL gene family was weak. The relative synonymous codon usage (RSCU) clustering results were basically consistent with the coding sequence (CDS) clustering results. Results of parity rule 2 (PR2)-plot analysis, ENc-plot analysis, and neutral plotting analysis showed that the codon usage bias of cowpea GATL gene family was mainly affected by natural selection. The results of this study provide a theoretical basis for the gene expression and functional verification of GATL in cowpeas.

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备注/Memo

备注/Memo:
收稿日期：2024-03-12基金项目：江西省农作物良种联合攻关项目专项基金[赣财农指(2022)7号]作者简介：曾春涛(2000-),女,贵州贵阳人，硕士研究生,研究方向为蔬菜生理生态与环境调控。(E-mail)schizobucia@126.com通讯作者：吴才君,(E-mail)wucj12@126.com
更新日期/Last Update: 2025-01-20