A genome-wide scan for copy number variations using high-density single nucleotide polymorphism array in Simmental cattle
文献类型: 外文期刊
第一作者: Wu, Yang
作者: Wu, Yang;Fan, Huizhong;Xia, Jiangwei;Chen, Yan;Zhang, Lupei;Gao, Xue;Li, Junya;Gao, Huijiang;Jing, Shengyun;Ren, Hongyan
作者机构:
关键词: bovine genome;Illumina Bovine HD BeadChip;quantitative PCR;single nucleotide polymorphism
期刊名称:ANIMAL GENETICS ( 影响因子:3.169; 五年影响因子:3.058 )
ISSN:
年卷期:
页码:
收录情况: SCI
摘要: Copy number variations (CNVs) have recently been identified as promising sources of genetic variation, complementary to single nucleotide polymorphisms (SNPs). As a result, detection of CNVs has attracted a great deal of attention. In this study, we performed genome-wide CNV detection using Illumina Bovine HD BeadChip (770k) data on 792 Simmental cattle. A total of 263 CNV regions (CNVRs) were identified, which included 137 losses, 102 gains and 24 regions classified as both loss and gain, covering 35.48Mb (1.41%) of the bovine genome. The length of these CNVRs ranged from 10.18kb to 1.76Mb, with an average length of 134.78kb and a median length of 61.95kb. In 136 of these regions, a total of 313 genes were identified related to biological functions such as transmembrane activity and olfactory transduction activity. To validate the results, we performed quantitative PCR to detect nine randomly selected CNVRs and successfully confirmed seven (77.6%) of them. Our results present a map of cattle CNVs derived from high-density SNP data, which expands the current CNV map of the cattle genome and provides useful information for investigation of genomic structural variation in cattle.
分类号: Q953
- 相关文献
作者其他论文 更多>>
-
Sublethal effects of lambda-cyhalothrin on the biological characteristics, detoxification enzymes, and genes of the papaya mealybug, Paracoccus marginatus
作者:Li, Jian-Yu;Chen, Yan-Ting;Chen, Yan;Zhao, Jian-Wei;Shi, Meng-Zhu;Fu, Jian-Wei;Shi, Meng-Zhu
关键词:Paracoccus marginatus; Lambda-cyhalothrin; Two-sex life table; P450; GST; Transcriptome
-
Antimicrobial Lobophorins from Endophytic Strain Streptomyces sp. R6 Obtained from Azadirachta indica
作者:Chen, Xinyuan;Du, Ying;Ma, Yunlong;Liu, Peibin;Chen, Yan
关键词:antimicrobial activity; Lobophorins; Polyketides; plant disease;
Streptomyces sp. R6 -
Estimation Model for Cotton Canopy Structure Parameters Based on Spectral Vegetation Index
作者:Qi, Yaqin;Chen, Xi;Chen, Zhengchao;Zhang, Hao;Qi, Yaqin;Zhang, Xin;Shen, Congju;Chen, Bing;Wang, Qiong;Liu, Taijie;Qi, Yaqin;Chen, Yan;Peng, Yuanying
关键词:spectral vegetation index; cotton canopy information; estimation model
-
Rapid and equipment-free identification of papaya mealybug Paracoccus marginatus based on RPA-CRISPR/Cas12a
作者:Chen, Yan-Ting;Shi, Meng-Zhu;Chen, Yan;Zhao, Jian-Wei;Yang, Xiu-Juan;Li, Jian-Yu;Shi, Meng-Zhu;Fu, Jian-Wei;Shi, Meng-Zhu;Desneux, Nicolas;Li, Jian-Yu
关键词:papaya mealybug; recombinase polymerase amplification (RPA); CRISPR/Cas12a; fluorescence visualization; lateral flow strip
-
Transcriptomic and metabolomic analysis of recalcitrant phosphorus solubilization mechanisms in Trametes gibbosa
作者:Chen, Yulan;Farooq, Akasha;Wei, Xieluyao;Qin, Leitao;Wang, Yong;Zhang, Lingzi;Xiang, Quanju;Zhao, Ke;Yu, Xiumei;Chen, Qiang;Penttinen, Petri;Gu, Yunfu;Gao, Xue;Nyima, Tashi
关键词:phosphate solubilizing fungi; transcriptomic analysis; metabolomic analaysis; phosphorus solubilization mechanism; bio-phosphate fertilizer
-
Optimization of CRISPR/Cas9 Gene Editing System in Sheep (Ovis aries) Oocytes via Microinjection
作者:Wang, Haitao;Yang, Hengqian;Li, Tingting;Chen, Yan;Chen, Jieran;Zhang, Yuting;Zhang, Na;Ma, Runlin;Huang, Xun;Liu, Qiuyue;Yang, Hengqian;Zhang, Xiaosheng;Zhang, Jinlong;Zhang, Xiaosheng;Zhang, Jinlong
关键词:CRISPR/Cas9; microinjection; gene editing; sheep
-
Genome-Wide Scans for Selection Signatures in Ningxia Angus Cattle Reveal Genetic Variants Associated with Economic and Adaptive Traits
作者:Yin, Haiqi;Wang, Yaxuan;Peng, Ruiqi;Wang, Yahui;Zhao, Tong;Zheng, Caihong;Xu, Lingyang;Gao, Xue;Gao, Huijiang;Li, Junya;Wang, Zezhao;Zhang, Lupei;Feng, Yuan;Wang, Yu;Jiang, Qiufei;Zhao, Jie;Zhang, Juan;Chen, Yafei
关键词:Angus cattle; whole-genome resequencing; selection signatures; iHS; immune-related gene; economic trait