牛科物种FSHβ基因密码子偏好性分析  

Codon Usage Bias Analysis of FSHβ Gene among Bovine Species

作　　者：周芳廷 保志鹏[2] 赵学成 李卫真[1] 杜平 康定富 董书承 余选富 苗永旺[1] ZHOU Fangting;BAO Zhipeng;ZHAO Xuecheng;LI Weizhen;DU Ping;KANG Dingfu;DONG Shucheng;YU Xuanfu;MIAO Yongwang(Faculty of Animal Science and Technology, Yunnan Agricultural University, Kunming 650201, China;Department of Animal Husbandry ＆Veterinary Medicine, Yunnan Agricultural College of Vocational Education, Kunming 650212, China;Livestock Breeding Guidance Station of Dali Prefecture, Dali 671000, China;BaFuLe Binglangjiang Buffalo Stock-breeding Company of Tengchong, Tengchong 679118, China)

机构地区：[1]云南农业大学动物科学技术学院,云南昆明650201 [2]云南农业职业技术学院畜牧兽医学院,云南昆明650212 [3]云南省大理州家畜繁育指导站,云南大理671000 [4]腾冲市巴福乐槟榔江水牛良种繁育有限公司,云南腾冲679118

出　　处：《云南农业大学学报（自然科学版）》2018年第1期47-55,共9页Journal of Yunnan Agricultural University:Natural Science

基　　金：国家自科学基金项目(31460582;31760659;31460649);云南省应用基础研究重点项目(2014FA032;2007C0003Z);云南省应用基础研究计划面上项目(2006C0034M;2010ZC243)

摘　　要：【目的】为了确定牛科物种FSHβ基因密码子使用上的偏好性及差异。【方法】采用PCR产物直接测序法对36头槟榔江水牛、32头滇东南水牛、26头大额牛和29头中甸牦牛的FSHβ基因编码区序列进行了群体变异检测,并结合已发表的普通牛、野牛、山羊和绵羊的同源序列,对牛科物种FSHβ基因同义密码子使用的偏好性及其差异进行了深入分析。【结果】各牛科物种共同偏好使用UUC、CUG、AUC、GUG、UCC、AGC、CCC、CCA、ACC、ACG、GCA、UAC、CAG、ACC、GAC、GAG、UGC、AGA、AGG、GGC等20种密码子。除CCA、GCA和AGA之外,其余密码子均以G/C结尾。编码His的两个同义密码子CAU、CAC在沼泽型水牛中无偏好性,在河流型水牛中则偏好使用CAU。编码Lys的两个密码子AAA、AAG在河流型和沼泽型水牛中无偏好性,在野牛和山羊中偏好使用AAG,而牦牛、普通牛、大额牛和绵羊则偏好使用AAA。基于密码子的RSCU值构建的聚类树显示:河流型与沼泽型水牛聚为一类,牦牛、普通牛、大额牛和绵羊聚为一类,野牛与山羊聚为一类。【结论】各牛科物种FSHβ基因在密码子使用上均存在一定的偏好性,但差异较小,且都偏好性使用以G/C结尾的密码子,其中河流型与沼泽型水牛的偏好性最相似。[Purpose]In order to know codon usage bias of FSHβ gene and its differences among bovine species.[Method]Polymorphisms in the coding region of FSHβ gene in 36 Binglangjiang buffalo, 32 Diandongnan buffalo, 26 gayal and 29 Zhongdian yak were detected by using the method of PCR direct sequencing. Combined with published homologous sequences of cattle, bison, goat and sheep together, the data obtained in this study was analyzed to make clear the synonymous codon usage bias of FSHβ gene and its differences among bovine species. [Result]There were 20 shared preferred codons among bovine species, viz. codon UUC, CUG, AUC, GUG, UCC, AGC, CCC,CCA, ACC, ACG, GCA, UAC, CAG, ACC, GAC, GAG, UGC, AGA, AGG and codon GGC. Except for codon CCA, GCA and AGA, other codons ended with G/C. Codon CAU and CAC which encode His were different in two types of buffalo： codon CAU was preferred in river buffalo, whereas they had no usage bias in swamp buffalo. Codon AAA and AAG which encode Lys had no usage bias in river and swamp buffalo, but codon AAG was preferred in bison and goat, while codon AAA was preferred in cattle, gayal, yak and sheep. Clustering analysis based on RSCU values revealed that river and swamp buffalo clustered together, and cattle, gayal, yak and sheep clustered together, and bison and goat clustered together. [ Conclusion] There are some synonymous codon usage bias among the FSHβ gene of different bovine species, but the difference was small. Furthermore, river and swamp buffalo was most similar. All bovine species prefer codons ended with G/C.

关 键 词：牛科物种 槟榔江水牛 FSHΒ基因 密码子偏好性 RSCU值 聚类分析 

分 类 号：S823.2[农业科学—畜牧学]