基于RNA-Seqs的乌苏里貉agouti基因结构特征预测及分子进化分析

doi:10.16431/j.cnki.1671-7236.2016.10.003

Abstract

Abstract:

To in-depth analyze the molecular structure characteristics of agouti gene,using bioinformatic methods for RNA-Seqs test to get the complete coding sequence of raccoon dog agouti gene,and its coding protein structure was forecasted and analyzed.The results showed that the length of raccoon dog agouti gene cDNA was 530 bp which contained 396 bp open reading frame (ORF),encoded 131 amino acids.Predicting the weight of the raccoon dog agouti protein molecular was 14.41 ku and isoelectric point (pI) was 9.68,as the unstable hydrophohbic protein;It contained 11 phosphorylation sites,1 glycosylation sites and a long reach 24 amino acid signal peptide;Random coil was the main secondary structure.Phylogenetic tree showed that the raccoon dog had a close genetics distance to vuipe and canis familiaris which was consistent with the traditional animal taxonomy.Through the analysis of the molecular structure characteristics of raccoon dog agouti gene,to provide the oretical basis for revealing the influence of the colour diversity molecular genetics mechanism.

Key words: raccoon dog; agouti gene; agouti signaling protein(ASIP); bioinformatics

CLC Number:

ZHANG Hao, ZHAO Jia-ping, WU Qiong, YANG Ying, DU Zhan-yu, GUO Yue-yue, XING Xiu-mei, XU Chao, ZHANG Lin-bo. Gene Structure Prediction and Molecular Evolution Analysis of Raccoon Dog agouti Gene based on RNA-Seqs[J]. , 2016, 43(10): 2527-2533.

References

[1] Nie W,Wang J,Perelman P,et al.Comparative chromosome painting defines the karyotypic relationships among the domestic dog,Chinese raccoon dog and Japanese raccoon dog[J].Chromosome Res,2003,11(8):735-740.
[2] 朱艳菲,张廷荣,孙金海.红褐色乌苏里貉和吉林白貉KIT基因第二外显子的克隆及多态性分析[J].华北农学报,2013,28(5):80-83.
[3] 范瑞文,董常生,赫晓燕,等.哺乳动物毛色色素Agouti基因位点的研究进展[J].动物医学进展,2004,3:59-61.
[4] Matsunaga N,Virador V,Santis C,et al.In situ localization of agouti signal protein in murine skin using immunohistochemistry with an ASP-specific antibody[J].Biochem Biophys Res Commun,2000,270(1):176-182.
[5] Berryere T G,Kerns J A,Barsh G S,et al.Association of an agouti allele with fawn or sable coat color in domestic dogs[J].Mammalian Genome,2005,16(4):262-272.
[6] 张天,张丽英,李祥龙,等.不同毛色山羊皮肤组织Agouti基因mRNA及其编码ASIP差异表达研究[J].畜牧兽医学报,2014,45(12):1932-1938.
[7] 李英杰,刘铮铸,巩元芳,等.狐狸Agouti基因SNPs筛查及其与毛色关联性分析[J].畜牧兽医学报,2015,46(9):1692-1696.
[8] Vagel D I.A non-epistatic interaction of agouti and extension in the fox,Vulpes vques[J].Nature Genetics,1997,15(3):311-315.
[9] Kristina S W.Genetic variation of ASIP and MC1R in past and present sheep of Gotland[D].Saint Louis University,2015.
[10] Yang C,Ge J,Chen S,et al.Sequence and gene expression analysis of the agouti signalling protein gene in Rex rabbits with different coat colours[J].Italian Journal of Animal Science,2015,14(3):563-565.
[11] Kerns J A,Newton J,Berryere T G,et al.Characterization of the dog agouti gene and a nonagoutimutation in German shepherd dogs[J].Mamm Genome,2004,15(10):798-808.
[12] 杨翠军,葛剑,陈赛娟,等.彩色獭兔agouti位点基因突变及蛋白结构改变对其毛色的影响[J].浙江农业学报,2015,12:2071-2077.
[13] Norris B J,Whan V A.A gene duplication affecting expression of the ovine ASIP gene is responsible for White and Black sheep[J].Genome Research,2008,18(8):1282-1293.
[14] Bultman S J,Klebig M L,Michaud E J,et al.Molecular analysis of reverse mutations from nonagouti (a) to black-and-tan (a(t)) and white-bellied agouti (Aw) reveals alternative forms of agouti transcripts[J].Genes Dev,1994,8(4):481-490.
[15] 杨云青,高丹玫,郭宗圣.Agouti和Agouti相关蛋白的一些生物学内涵[J].动物学杂志,2008,43(5):144-152.
[16] 唐春娟.山羊Agouti基因与毛色表型相关分析及其遗传变异的研究[D].保定:河北农业大学,2008.
[17] 何晓丹.小鼠Agouti基因与毛色表型相关分析及其遗传变异的研究[D].上海:东华大学,2014.
[18] 宋兴超,杨福合,巴恒星,等.赤狐黑色素皮质激素受体-1基因结构特征预测及分子进化分析[J].中国畜牧兽医,2013,40(1):9-13.
[19] Gershony L C,Penedo M C T,Davis B W,et al.Who's behind that mask and cape? The Asian leopard cat's agouti (ASIP) allele likely affects coat colour phenotype in the Bengal cat breed[J].Animal Genetics, 2014,45(6):893-897.
[20] Han J L,Yang M,Yue Y J,et al.Analysis of agouti signaling protein (ASIP) gene polymorphisms and association with coat color in Tibetan sheep (Ovis aries)[J].Genet Mol Res,2015,14(1):1200-1209.
[21] Abitbol M,Legrand R,Tiret L.A missense mutation in melanocortin 1 receptor is associated with the red coat colour in donkeys[J].Animal Genetics,2014,45(6):878-880.
[22] Adefenwa M A,Peters S O,Agaviezor B O,et al.Identification of single nucleotide polymorphisms in the agouti signaling protein (ASIP) gene in some goat breeds in tropical and temperate climates[J].Molecular Biology Reports,2013,40(7):4447-4457.

Gene Structure Prediction and Molecular Evolution Analysis of Raccoon Dog agouti Gene based on RNA-Seqs

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

References

Related Articles 15

Recommended Articles

Metrics

Comments

[1]	WANG Saiqiao, ZHAO Lu, ZHAI Zhenhan, ZHANG Binglei, JIA Wanhang, WANG Yuqin. Tissue Expression and Bioinformatics Analysis of miR-449a/b Precursor Sequences in Sheep [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(6): 2175-2184.
[2]	WEI Mingbang, BIANBA Qiongda, XIAO Qingqing, DUAN Mengqi, CHAMBA Yangzom, SHANG Peng. Cloning,Bioinformatics and Expression Analysis of CDKN1B Gene in Tibetan Pigs [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(6): 2196-2206.
[3]	LI Yongbin, YANG Huilin, SONG Zihao, ZHANG Yu, YANG Jin, MENG Jia, CUI Xiaozhen, LYU Xiaoling, ZHENG Mingxue, BAI Rui. Cloning and Bioinformatics Analysis of MIF Gene in Eimeria tenella [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(6): 2450-2459.
[4]	ZHANG Dianqi, MA Xinhao, YANG Zhimei, MEI Chugang, ZAN Linsen. Bioinformatics Analysis of PAI1 Gene and Its Effect on the Proliferation and Differentiation of Intramuscular Adipocytes in Qinchuan Beef Cattle [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1729-1741.
[5]	WANG Haorui, YU Baojun, YANG Jiayi, WEI Rong, FU Xi, WANG Chuanchuan, ZHANG Di, LI Desheng, CAI Zhengyun, GU Yaling, ZHANG Juan. Bioinformatics Analysis and Tissue Expression of DERA Gene in Jingyuan Chickens [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1764-1773.
[6]	CHEN Meiting, ZHENG Congsen, LIANG Zexian, LIN Qiaoer, CHANG Chuanzhe, ZHOU Jun, FENG Jun, LI Linlin, QIN Limei. Cloning and Bioinformatics Analysis of env Gene of Avian Leukosis Virus Subgroup J Strain [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1785-1795.
[7]	PAN Pengcheng, LEI Zongquan, LI Xian, HU Xiangyun, QIN Qiantao, QIN Zhaoxian, GUAN Zhihui, CHEN Baojian, XIE Bingkun. Bioinformatics Analysis,Eukaryotic Expression Vector Construction and Tissue Expression of MYL2 Gene in Luchuan Pigs [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1796-1806.
[8]	LIU Jialong, ZHANG Yiwen, ZHANG Yueran, SUN Qijuan, CHEN Jian, HE Lei, JIA Yanyan, DING Ke, YU Zuhua. Cloning,Prokaryotic Expression and Bioinformatics Analysis of ELAVL1 Gene in Chicken [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1807-1817.
[9]	ZHUO Na, ZHU Zhongwu, LI Jing, HU Shixiang, WANG Jianchang, LIN Hua, CHEN Chaolin, HAN Diangang, AI Jun, CHEN Peifu. Bioinformatics Analysis and Eukaryotic Expression of ORF2 Protein of Swine Hepatitis E Virus [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(5): 1959-1970.
[10]	TAO Qinghua, HUANG Caiyun, CHEN Chao, LIU Wei, SUN Ningning, LI Ang. Cloning and Tissue Expression Difference Analysis of LIF Gene in White Muscovy Duck [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(4): 1296-1306.
[11]	FAN Bingfeng, LI Wen, LIU Lixiang, ZHAO Xiangyuan, SHAO Jing, LIN Lefeng, SUN Huimin, ZHANG Xulin, XU Baozeng. Cloning and Bioinformatics Analysis of AANAT Gene in Mink [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(4): 1307-1318.
[12]	TANG Yu, YANG Yifeng, ZHANG Ying, XUE Hailong, FENG Huailiang, XU Baozeng. Cytological Study on Oocyte Maturation of Raccoon Dog [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(4): 1434-1443.
[13]	JIA Xinyue, MA Jing, ZHANG Yanyan, MA Xun, WANG Zhengrong, BO Xinwen. Bioinformatics Analysis and Prokaryotic Expression of EGR-07243 and EGR-07243 Genes of Echinococcus granulosus [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(3): 847-858.
[14]	LI Dan, ZHANG Haisen, WANG Yiqun, GAO Dengke, ZHAO Hongcong, LI Chao, JIN Yaping, CHEN Huatao. Eukaryotic Expression Vector Construction,Bioinformatics and Tissue Expression Profiles Analysis of CRY1 Gene in Dairy Cows [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(3): 870-881.
[15]	SONG Xingchao, MENG Jinzhu, ZHAO Yuanyuan, WU Zhenyang, AN Qingming. Cloning and Bioinformatics Analysis of MyoG Gene Promoter Region Sequence in Guizhou White Goat [J]. China Animal Husbandry and Veterinary Medicine, 2023, 50(3): 893-903.