文献类型： 外文期刊
第一作者： Xu, Quanming
作者： Xu, Quanming;Cao, Jie;Wan, Chunhe;Rai, Kul Raj;Zhu, Binling;Liu, Dan
作者机构：
关键词： goose circovirus; codon usage bias; natural selection; mutation; host adaptability
期刊名称：POULTRY SCIENCE （ 影响因子：4.4； 五年影响因子：4.4 ）
ISSN： 0032-5791
年卷期： 2024 年 103 卷 7 期
页码：
收录情况： SCI
摘要： Goose circovirus ( GoCV ), a potential immunosuppressive virus possessing a circular singlestranded DNA genome, is widely distributed in both domesticated and wild geese. This virus infection causes signi ficant economic losses in the waterfowl industry. The codon usage patterns of viruses re flect the evolutionary history and genetic architecture, allowing them to adapt quickly to changes in the external environment, particularly to their hosts. In this study, we retrieved the coding sequences (Rep and Cap) and the genome of GoCV from GenBank, conducting comprehensive research to explore the codon usage patterns in 144 GoCV strains. The overall codon usage of the GoCV strains was relatively similar and exhibited a slight bias. The effective number of codons ( ENC ) indicated a low overall extent of codon usage bias ( CUB ) in GoCV. Combined with the base composition and relative synonymous codon usage ( RSCU ) analysis, the results revealed a bias toward Aand G-ending codons in the overall codon usage. Analysis of the ENC-GC 3s plot and neutrality plot suggested that natural selection plays an important role in shaping the codon usage pattern of GoCV, with mutation pressure having a minor in fluence. Furthermore, the correlations between ENC and relative indices, as well as correspondence analysis ( COA ), showed that hydrophobicity and geographical distribution also contribute to codon usage variation in GoCV, suggesting the possible involvement of natural selection. In conclusion, GoCV exhibits comparatively slight CUB, with natural selection being the major factor shaping the codon usage pattern of GoCV. Our research contributes to a deeper understanding of GoCV evolution and its host adaptation, providing valuable insights for future basic studies and vaccine design related to GoCV.
分类号：
- 相关文献
作者其他论文 更多>>
-
Genome-wide association studies dissect low-phosphorus stress response genes underling field and seedling traits in maize
作者：Luo, Bowen;Gao, Shibin;Luo, Bowen;Zhang, Guidi;Yu, Ting;Zhang, Chong;Yang, Guohui;Luo, Xianfu;Zhang, Shuhao;Guo, Jianyong;Zhang, Haiying;Zhang, Xiao;Liu, Dan;Wu, Ling;Gao, Duojiang;Gao, Shiqiang;Gao, Shibin;Luo, Bowen;Zhang, Guidi;Yu, Ting;Zhang, Chong;Yang, Guohui;Luo, Xianfu;Zhang, Shuhao;Guo, Jianyong;Zhang, Haiying;Zhang, Xiao;Liu, Dan;Wu, Ling;Gao, Duojiang;Gao, Shiqiang;Gao, Shibin;Zheng, Hao;Tang, Zirui;Li, Qile;Lan, Yuzhou;Ma, Peng;Ma, Peng;Nie, Zhi;Su, Shunzong;Guo, Jia
关键词：
-
Genome assembly and resequencing shed light on evolution, population selection, and sex identification in Vernicia montana
作者：Li, Wenying;Cao, Jie;Liu, Meilan;Long, Hongxu;Lin, Hai;Zhang, Lin;Li, Wenying;Dong, Xiang;Cao, Jie;Liu, Meilan;Long, Hongxu;Lin, Hai;Zhang, Lin;Li, Wenying;Zhang, Xingtan;Zhou, Xu;Cao, Heping
关键词：
-
Production of haploid plants in wax gourd through parthenogenesis induced by gamma-irradiated pollen
作者：Liu, Dan;Xie, Lingling;Xiao, Wei;Xie, Tao;Mi, Baobin;Wu, Fangfang
关键词：Wax gourd; Gamma ray; Irradiated pollen; Parthenogenesis; Haploid
-
Fine mapping and identification of two NtTOM2A homeologs responsible for tobacco mosaic virus replication in tobacco (Nicotiana tabacum L.)
作者：Wang, Xuebo;Shen, Zhan;Li, Caiyue;Bai, Yalin;Jiang, Caihong;Cheng, Lirui;Yang, Aiguo;Liu, Dan;Wang, Xuebo;Li, Yangyang;Zhang, Wenhui;Zhang, Wenhui;Li, Zunqiang
关键词：Tobacco; Tobacco mosaic virus; Map-based cloning; Tobamovirus multiplication protein 2A; Virus replication; Tobacco germplasms; Breeding
-
Transcriptomics and virus-induced gene silencing identify defence-related genes during Ralstonia solanacearum infection in resistant and susceptible tobacco
作者：Xiao, Zhiliang;Liu, Zhengwen;Zhang, Huifen;Yang, Aiguo;Cheng, Lirui;Liu, Dan;Jiang, Caihong;Ren, Min;Geng, Ruimei;Yu, Shizhou;Yang, Zhixiao
关键词：Tobacco; Ralstonia solanacearum; Transcriptome; VIGS
-
Genetic dissection and identification of stripe rust resistance genes in the wheat cultivar Lanhangxuan 121, a cultivar selected from a space mutation population
作者：Wu, Qimeng;Liu, Lei;Zhang, Dandan;Li, Chenchen;Nie, Ruiqi;Duan, Jiangli;Wan, Jufen;Zhao, Jiwen;Cao, Jianghao;Liu, Dan;Liu, Shengjie;Wang, Qilin;Zheng, Weijun;Han, Dejun;Wang, Changfa;Wu, Jianhui;Li, Chunlian;Kang, Zhensheng;Zhang, Wentao;Du, Jiuyuan;Yao, Qiang
关键词：Stripe rust resistance gene; Bulked segregant analysis; Puccinia striiformis; QTL mapping; Triticum aestivum
-
Genome-wide atlas of rust resistance loci in wheat
作者：Tong, Jingyang;Liu, Dan;Jambuthenne, Dilani T.;Dinglasan, Eric;Periyannan, Sambasivam K.;Hickey, Lee T.;Hayes, Ben J.;Zhao, Cong;Sun, Mengjing;Periyannan, Sambasivam K.;Periyannan, Sambasivam K.
关键词：
