绵羊骨代谢相关基因VDR密码子偏好性分析

doi:10.16431/j.cnki.1671-7236.2022.08.005

Abstract

Abstract: 【Objective】 This study was aimed to understand the codon usage characteristic and explore the evolution pattern of vitamin D receptor (VDR) gene in Ovis aries,and provide reference basis for establishing animal model related to bone metabolism diseases.【Method】 The relative synonymous codon usage (RSCU),codon composition,effective number of codons (ENc),codon bias index (CBI) and several parameters were analyzed using CodonW,EMBOSS,Usage Codon and DNAMAN softwares,and compared these parameters among multiple species,meanwhile,ENc-Plot and neutrality plot were used to analyze the main influencing factors of codon bias use of VDRgene.The internal relationship between codon use patterns and biological evolution was explored by means of relative synonymous codon usage of multiple species and cluster analysis.【Result】 There were 23 codons of VDRgene in Ovis ariespreferred to use codons ending with G/C.The other 14 species,such as Gorilla gorilla gorilla,Dromaius novaehollandiaeand Rattus norvegicusshowed similar characteristics in codon usage with Ovis aries.While,some species,such as Dromaius novaehollandiae,Rattus norvegicusand Passer montanus showed unique characteristics in the coding of Cys,Gly,His,Ser and Pro.ENc-Plot and neutrality plot analysis showed that selection pressure was stronger than mutation pressure on the codon usage bias of VDR gene.【Conclusion】 The codon ending with G/C was the dominant codon of VDR gene,the natural selection was the main force leading to the phenomenon.Meanwhile,the codon usage bias was species-specific,and there was a correlation with the evolution of genetic relationship.

Key words: Ovis aries; VDR gene; codon bias; bone metabolism

CLC Number:

MA Jianqing, YANG Qingfang, SONG Zhanfeng, JIA Dingding, WU Dongwei, MO Xiufang, XU Zengnian, YANG Ke, WU Zhanyong, JI Ying, ZHOU Rongyan. Analysis of Codon Usage Bias of VDR Gene Related to Bone Metabolism in Ovis aries[J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(8): 2888-2898.

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Analysis of Codon Usage Bias of VDR Gene Related to Bone Metabolism in Ovis aries

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