Department of Biomedical Engineering, School of Electronics and Information Engineering, Xi'an Technological University, Xi'an, Shaanxi Province, China.
Department of Biomedical Engineering, School of Electronics and Information Engineering, Xi'an Technological University, Xi'an, Shaanxi Province, China.
Infect Genet Evol. 2018 Nov;65:430-435. doi: 10.1016/j.meegid.2018.08.028. Epub 2018 Sep 1.
The influenza A H7N9 virus is a highly contagious virus which can only infect poultry before early 2013. But after that time, it widely caused human infections in China and brought Southeast Asia great threaten in the public health area. The coding gene for polymerase basic protein 2 (PB2) in influenza A H7N9 virus encodes the PB2 protein, which is a part of the RNA polymerase. The enzyme lacks a correction function during its own replication process, so the mutation frequency of the influenza A H7N9 virus gene is high and the PB2 gene is also included. To investigate the codon usages characteristics of PB2 gene, gene sequences of 12 kinds of poultry are downloaded form the gene bank (NCBI) and their codon usage characteristics such as the effective number of codons (ENC), the evolutionary relationship of the sequences, the codon adaptation index (CAI), the correspondence analysis (COA), the relative synonymous codon usage (RSCU) and their PR2-bias are compared and studied. The value of these reults showed that there is a low codon usage bias in the PB2 gene. Then, the differences between the codon usages of PB2 gene from 12 kinds of poultry are compared and their potential applications are discussed. These results could lay a foundation for other further study on the evolution of H7N9.
甲型 H7N9 流感病毒是一种高传染性病毒，仅在 2013 年之前感染家禽。但此后，它在中国广泛引起人类感染，并在公共卫生领域给东南亚带来了巨大威胁。甲型 H7N9 流感病毒聚合酶碱性蛋白 2（PB2）编码基因编码 PB2 蛋白，是 RNA 聚合酶的一部分。该酶在自身复制过程中缺乏校正功能，因此甲型 H7N9 病毒基因的突变频率很高，PB2 基因也包括在内。为了研究 PB2 基因的密码子使用特征，从基因库（NCBI）下载了 12 种家禽的 PB2 基因序列，并比较和研究了它们的密码子使用特征，如有效密码子数（ENC）、序列进化关系、密码子适应指数（CAI）、对应分析（COA）、相对同义密码子使用（RSCU）和 PR2 偏倚。这些结果表明，PB2 基因的密码子使用偏向性较低。然后，比较了 12 种家禽 PB2 基因的密码子使用差异，并探讨了它们的潜在应用。这些结果为进一步研究 H7N9 的进化奠定了基础。
