Barbhuiya Riazul Islam, Uddin Arif, Chakraborty Supriyo
Department of Biotechnology, Assam University, Silchar, Assam, 788011, India.
Department of Zoology, Moinul Hoque Choudhury Science College, Algapur, Hailakandi, Assam, 788150, India.
Genetica. 2019 Aug;147(3-4):231-248. doi: 10.1007/s10709-019-00067-1. Epub 2019 May 31.
Codon usage bias (CUB) is defined as the usage of synonymous codons unequally for an amino acid in a gene transcript. It is influenced by both mutation pressure and natural selection and is a species-specific property. In our current study, we used bioinformatic methods to investigate the coding sequences of mitochondrial adenosine triphosphate gene (MT-ATP) in different classes of arthropoda to know the codon usage pattern of the gene as no work was described earlier. The analysis of compositional properties suggested that the gene is AT rich. The effective number of codons revealed the CUB of both ATP6 and ATP8 gene was moderate. Heat map showed that the codons ending with AT were negatively associated with GC3 while the codons ending with GC were positively associated with GC3 in all the classes of arthropoda. Correspondence study revealed that the pattern of codon usage of ATP6 and ATP8 genes differed across classes. Neutrality plot suggested the codon usage bias of these two genes in phylum arthropoda was influenced by both mutation pressure and natural selection.
密码子使用偏好（CUB）被定义为在基因转录本中，一种氨基酸的同义密码子使用不均衡。它受到突变压力和自然选择的影响，是一种物种特异性的特性。在我们当前的研究中，我们使用生物信息学方法研究了不同类节肢动物中线粒体三磷酸腺苷基因（MT - ATP）的编码序列，以了解该基因的密码子使用模式，因为之前没有相关研究报道。组成特性分析表明该基因富含AT。有效密码子数显示ATP6和ATP8基因的密码子使用偏好程度适中。热图显示，在所有节肢动物类别中，以AT结尾的密码子与GC3呈负相关，而以GC结尾的密码子与GC3呈正相关。对应性分析表明，ATP6和ATP8基因的密码子使用模式在不同类别之间存在差异。中性绘图表明，这两个基因在节肢动物门中的密码子使用偏好受到突变压力和自然选择的共同影响。
