Copy Number Variation in SOX6 Contributes to Chicken Muscle Development

文献类型： 外文期刊

第一作者： Lin, Shudai

作者： Lin, Shudai;Lin, Xiran;Zhang, Zihao;Jiang, Mingya;Nie, Qinghua;Zhang, Xiquan;Rao, Yousheng

作者机构：

关键词： chicken;copy number variation;CNV;SOX6;growth;skeletal muscle;disorder region

期刊名称：GENES （ 影响因子：4.096； 五年影响因子：4.339 ）

ISSN： 2073-4425

年卷期： 2018 年 9 卷 1 期

页码：

收录情况： SCI

摘要： Copy number variations (CNVs), which cover many functional genes, are associated with complex diseases, phenotypic diversity and traits that are economically important to raising chickens. The sex-determining region Y-box 6 (Sox6) plays a key role in fast-twitch muscle fiber differentiation of zebrafish and mice, but it is still unknown whether SOX6 plays a role in chicken skeletal muscle development. We identified two copy number polymorphisms (CNPs) which were significantly related to different traits on the genome level in chickens by AccuCopy (R) and CNVplex (R) analyses. Notably, five white recessive rock (CN = 1, CN = 3) variant individuals and two Xinghua (CN = 3) variant individuals contain a CNP13 (chromosome5: 10,500,294-10,675,531) which overlaps with SOX6. There is a disordered region in SOX6 proteins 265-579 aa coded by a partial CNV overlapping region. A quantitative real-time polymerase chain reaction showed that the expression level of SOX6 mRNA was positively associated with CNV and highly expressed during the skeletal muscle cell differentiation in chickens. After the knockdown of the SOX6, the expression levels of IGFIR1, MYF6, SOX9, SHOX and CCND1 were significantly down-regulated. All of them directly linked to muscle development. These results suggest that the number of CNVs in the CNP13 is positively associated with the expression level of SOX6, which promotes the proliferation and differentiation of skeletal muscle cells by up-regulating the expression levels of the muscle-growth-related genes in chickens as in other animal species.

分类号：

  • 相关文献

[1]Characterization of Copy Number Variation's Potential Role in Marek's Disease. Xu, Lingyang,He, Yanghua,Ding, Yi,Sun, Guirong,Carrillo, Jose Adrian,Li, Yaokun,Ghaly, Mona M.,Ma, Li,Song, Jiuzhou,Xu, Lingyang,Liu, George E.,Xu, Lingyang,Sun, Guirong,Li, Yaokun,Ghaly, Mona M.,Zhang, Huanmin. 2017

[2]Copy number variation identification and analysis of the chicken genome using a 60K SNP BeadChip. Rao, Y. S.,Li, J.,Zhang, R.,Lin, X. R.,Xu, J. G.,Xie, L.,Xu, Z. Q.,Wang, L.,Gan, J. K.,Xie, X. J.,He, J.,Zhang, X. Q.,Li, J.,Zhang, R.,Lin, X. R.,Xu, J. G.,Xu, Z. Q.,Wang, L.,Gan, J. K.,Xie, X. J.,He, J.,Zhang, X. Q.,Rao, Y. S.,Xu, J. G..

[3]Circular RNAs are abundant and dynamically expressed during embryonic muscle development in chickens. Ouyang, Hongjia,Chen, Xiaolan,Wang, Zhijun,Yu, Jiao,Jia, Xinzheng,Li, Zhenhui,Luo, Wei,Abdalla, Bahareldin Ali,Jebessa, Endashaw,Nie, Qinghua,Zhang, Xiquan,Ouyang, Hongjia,Chen, Xiaolan,Wang, Zhijun,Yu, Jiao,Jia, Xinzheng,Li, Zhenhui,Luo, Wei,Abdalla, Bahareldin Ali,Jebessa, Endashaw,Nie, Qinghua,Zhang, Xiquan,Ouyang, Hongjia,Chen, Xiaolan,Wang, Zhijun,Yu, Jiao,Jia, Xinzheng,Li, Zhenhui,Luo, Wei,Abdalla, Bahareldin Ali,Jebessa, Endashaw,Nie, Qinghua,Zhang, Xiquan. 2018

[4]Proteomic Analysis of Chicken Skeletal Muscle during Embryonic Development. Ouyang, Hongjia,Wang, Zhijun,Chen, Xiaolan,Yu, Jiao,Li, Zhenhui,Nie, Qinghua,Ouyang, Hongjia,Wang, Zhijun,Chen, Xiaolan,Yu, Jiao,Li, Zhenhui,Nie, Qinghua,Ouyang, Hongjia,Wang, Zhijun,Chen, Xiaolan,Yu, Jiao,Li, Zhenhui,Nie, Qinghua. 2017

[5]Differentiation of expression profiles of two calcineurin subunit genes in chicken skeletal muscles during early postnatal growth depending on anatomical location of muscles and breed. Shan Yan-ju,Xu Wen-juan,Shu Jing-ting,Zhang Ming,Song Wei-tao,Tao Zhi-yun,Zhu Chun-hong,Li Hui-fang. 2016

[6]Deep Sequencing Analysis of miRNA Expression in Breast Muscle of Fast-Growing and Slow-Growing Broilers. Ouyang, Hongjia,He, Xiaomei,Li, Guihuan,Xu, Haiping,Jia, Xinzheng,Nie, Qinghua,Zhang, Xiquan,Ouyang, Hongjia,He, Xiaomei,Li, Guihuan,Xu, Haiping,Jia, Xinzheng,Nie, Qinghua,Zhang, Xiquan,Ouyang, Hongjia,He, Xiaomei,Li, Guihuan,Xu, Haiping,Jia, Xinzheng,Nie, Qinghua,Zhang, Xiquan. 2015

[7]Effects of mushroom and herb polysaccharides, as alternatives for an antibiotic, on the cecal microbial ecosystem in broiler chickens. Guo, FC,Williams, BA,Kwakkel, RP,Li, HS,Li, XP,Luo, JY,Li, WK,Verstegen, MWA. 2004

[8]Influence of Grape Seed Proanthocyanidin Extract in Broiler Chickens: Effect on Chicken Coccidiosis and Antioxidant Status. Wang, M. L.,Fang, Q.,Wang, X.,Suo, X.,Gu, J. H.,Zhang, W. W.. 2008

[9]Copy number variation detection using SNP genotyping arrays in three Chinese pig breeds. Dong, K.,Pu, Y.,Yao, N.,Shu, G.,Liu, X.,He, X.,Zhao, Q.,Guan, W.,Ma, Y..

[10]Genome-wide detection of autosomal copy number variants in several sheep breeds using Illumina OvineSNP50 BeadChips. Yan, Juncong,Blair, Hugh T.,Dittmer, Keren E.,Biggs, Patrick J.,Dukkipati, Venkata S. R.,Liu, Mingjun,Li, Wenrong,He, Sangang,Chen, Lei,Liu, Mingjun,Li, Wenrong,He, Sangang,Chen, Lei,Garrick, Dorian J..

[11]Analysis of Extreme Phenotype Bulk Copy Number Variation (XP-CNV) Identified the Association of rp1 with Resistance to Goss's Wilt of Maize. Hu, Ying,Ren, Jie,Umana, Arnoldo A.,Le, Ha,Danilova, Tatiana,Liu, Sanzhen,Peng, Zhao,White, Frank F.,Fu, Junjie,Wang, Haiyan,Robertson, Alison,Hulbert, Scot H.,Umana, Arnoldo A.. 2018

[12]Molecular cloning, tissue expression pattern, and copy number variation of porcine SCUBE3. Liu, X.,Wang, L. G.,Zhang, L. C.,Yan, H.,Zhao, K. B.,Liang, J.,Li, N.,Pu, L.,Zhang, T.,Wang, L. X.. 2016

[13]DNA methylation pattern of Photoperiod-B1 is associated with photoperiod insensitivity in wheat (Triticum aestivum). Sun, Han,Guo, Zhiai,Gao, Lifeng,Zhao, Guangyao,Zhang, Wenping,Zhou, Ronghua,Wu, Yongzhen,Jia, Jizeng,Sun, Han,An, Hailong,Wang, Haiyang.

[14]Evolution of the cyclin gene family in plants. Jia, Rui-Dong,Guo, Chun-Ce,Xu, Gui-Xia,Shan, Hong-Yan,Kong, Hong-Zhi,Jia, Rui-Dong,Jia, Rui-Dong. 2014

[15]Porcine MAP3K5 analysis: molecular cloning, characterization, tissue expression pattern, and copy number variations associated with residual feed intake. Pu, L.,Zhang, L. C.,Zhang, J. S.,Wang, L. G.,Liang, J.,Zhang, Y. B.,Liu, X.,Yan, H.,Zhang, T.,Yue, J. W.,Wang, L. X.,Song, X.,Li, N.,Wu, Q. Q.. 2016

[16]Analysis of agouti signaling protein (ASIP) gene polymorphisms and association with coat color in Tibetan sheep (Ovis aries). Han, J. L.,Yue, Y. J.,Guo, T. T.,Liu, J. B.,Niu, C. E.,Yang, B. H.,Yang, M.. 2015

[17]A tandem segmental duplication (TSD) in green revolution gene Rht-D1b region underlies plant height variation. Li, Yiyuan,Xiao, Jianhui,Wu, Jiajie,Duan, Jialei,Liu, Yue,Ye, Xingguo,Zhang, Xin,Guo, Xiuping,Zhang, Lichao,Jia, Jizeng,Kong, Xiuying,Li, Yiyuan,Duan, Jialei,Gu, Yongqiang.

[18]High-resolution genetic mapping of maize pan-genome sequence anchors. Lu, Fei,Romay, Maria C.,Glaubitz, Jeffrey C.,Elshire, Robert J.,Buckler, Edward S.,Bradbury, Peter J.,Buckler, Edward S.,Wang, Tianyu,Li, Yu,Li, Yongxiang,Semagn, Kassa,Zhang, Xuecai,Hernandez, Alvaro G.,Mikel, Mark A.,Mikel, Mark A.,Soifer, Ilya,Barad, Omer.

[19]CIDE gene expression in adipose tissue, liver, and skeletal muscle from obese and lean pigs. Qiu, Yue-qin,Yang, Xue-fen,Ma, Xian-yong,Xiong, Yun-xia,Tian, Zhi-mei,Fan, Qiu-li,Wang, Li,Jiang, Zong-yong. 2017

[20]Wnt antagonist, secreted frizzled-related protein 1, is involved in prenatal skeletal muscle development and is a target of miRNA-1/206 in pigs. Yang, Yalan,Sun, Wei,Wang, Ruiqi,Zhou, Rong,Tang, Zhonglin,Li, Kui,Yang, Yalan,Tang, Zhonglin,Li, Kui,Sun, Wei,Lei, Chuzhao. 2015

作者其他论文 更多>>
  • The transmembrane protein TMEM182 promotes fat deposition and alters metabolomics and lipidomics

    作者：Chen, Genghua;Lin, Zetong;Peng, Haoqi;Zhang, Shuai;Zhang, Zihao;Zhang, Xiquan;Nie, Qinghua;Luo, Wen;Chen, Genghua;Lin, Zetong;Peng, Haoqi;Zhang, Shuai;Zhang, Zihao;Zhang, Xiquan;Nie, Qinghua;Chen, Genghua;Lin, Zetong;Peng, Haoqi;Zhang, Shuai;Zhang, Zihao;Zhang, Xiquan;Nie, Qinghua

    关键词：TMEM182; Fat formation; Metabolomics; Lipidomics

  • Using multiomics to explore the weight differences between genders in Muscovy ducks

    作者：Tian, Jinghong;Tan, Liangtian;Wei, Shenghua;Yao, Zipei;Xu, Yibin;Nie, Qinghua;Tian, Jinghong;Tan, Liangtian;Wei, Shenghua;Yao, Zipei;Xu, Yibin;Nie, Qinghua;Tian, Jinghong;Tan, Liangtian;Wei, Shenghua;Yao, Zipei;Xu, Yibin;Nie, Qinghua;Tian, Jinghong;Tan, Liangtian;Wei, Shenghua;Yao, Zipei;Xu, Yibin;Nie, Qinghua;Zhu, Weijian;Ji, Congliang

    关键词：Muscovy duck; sexual dimorphism; growth and development; RNA-seq; 16S rRNA sequencing technology

  • PMAIP1 promotes J subgroup avian leukosis virus replication by regulating mitochondrial function

    作者：Zhao, Yongxia;Zhao, Changbin;Pan, Ming;Mo, Guodong;Liao, Zhiying;Zhang, Xiquan;Zhang, Dexiang;Li, Hongmei;Zhao, Yongxia;Zhao, Changbin;Deng, Yuelin;Pan, Ming;Mo, Guodong;Liao, Zhiying;Zhang, Xiquan;Zhang, Dexiang;Li, Hongmei;Zhao, Yongxia;Zhao, Changbin;Deng, Yuelin;Pan, Ming;Mo, Guodong;Liao, Zhiying;Zhang, Xiquan;Zhang, Dexiang;Li, Hongmei;Zhao, Yongxia;Zhao, Changbin;Deng, Yuelin;Pan, Ming;Mo, Guodong;Liao, Zhiying;Zhang, Xiquan;Zhang, Dexiang;Li, Hongmei;Deng, Yuelin

    关键词：ALV-J; PMAIP1; mitochondrial function; immune; DF-1

  • Live chicken body fat measurement technology based on bio-electrical impedance

    作者：Liang, Jinping;Li, Zhenhui;Nie, Qinghua;Zhang, Dexiang;Zhang, Xiquan;Li, Hongmei;Zuo, Jiaming;Cheng, Shangshang;Li, Zhen;Zuo, Jiaming;Cheng, Shangshang;Li, Zhen;Liang, Jinping;Li, Zhenhui;Nie, Qinghua;Zhang, Dexiang;Zhang, Xiquan;Li, Hongmei;Liang, Jinping;Li, Zhenhui;Nie, Qinghua;Zhang, Dexiang;Zhang, Xiquan;Li, Hongmei;Liang, Jinping;Li, Zhenhui;Nie, Qinghua;Zhang, Dexiang;Zhang, Xiquan;Li, Hongmei;Deng, Yuelin

    关键词：BIA; Electrical impedance; Fat content; Broilers

  • Whole-transcriptome sequencing revealed the ceRNA regulatory network during the proliferation and differentiation of goose myoblast

    作者：Zhang, Xiquan;Luo, Wen;Zhang, Xiquan;Luo, Wen;Xiao, Liangchao;Chen, Jiahui;He, Xueying;Zhang, Xiquan;Luo, Wen;Xiao, Liangchao;Chen, Jiahui;He, Xueying;Zhang, Xiquan;Luo, Wen;Xiao, Liangchao;Chen, Jiahui;He, Xueying;Zhang, Xiquan;Luo, Wen

    关键词：Shitou goose; skeletal muscle; whole-transcriptome sequencing; lncRNA; ceRNA network

  • LncEDCH1 g.1703613 T>C regulates chicken carcass traits by targeting miR-196-2-3p

    作者：Yuan, Rongshuai;Cai, Bolin;Ma, Manting;Zhao, Changbin;Xian, Yuanrong;Nie, Qinghua;Zhang, Xiquan;Zhang, Dexiang;Zhang, Dexiang

    关键词：LncEDCH1; miR-196-2-3p; single nucleotide polymorphism; carcass trait; chicken

  • Weighted single-step GWAS identified candidate genes associated with carcass traits in a Chinese yellow-feathered chicken population

    作者：Pan, Rongyang;Qi, Lin;Xu, Zhenqiang;Zhang, Dexiang;Nie, Qinghua;Zhang, Xiquan;Luo, Wen;Pan, Rongyang;Qi, Lin;Xu, Zhenqiang;Zhang, Dexiang;Nie, Qinghua;Zhang, Xiquan;Luo, Wen;Pan, Rongyang;Pan, Rongyang;Qi, Lin;Zhang, Dexiang;Nie, Qinghua;Zhang, Xiquan;Luo, Wen;Pan, Rongyang;Qi, Lin;Xu, Zhenqiang;Zhang, Dexiang;Nie, Qinghua;Zhang, Xiquan;Luo, Wen;Pan, Rongyang;Qi, Lin;Xu, Zhenqiang;Zhang, Dexiang;Nie, Qinghua;Zhang, Xiquan;Luo, Wen

    关键词：Chinese yellow-feathered chicken; weighted single-step GWAS; carcass traits; SNP

微信小程序