Copy Number Variation Analysis Revealed the Evolutionary Difference between Chinese Indigenous Pigs and Asian Wild Boars
文献类型: 外文期刊
作者: Fan, Shuhao 1 ; Kong, Chengcheng 1 ; Chen, Yige 1 ; Zheng, Xianrui 1 ; Zhou, Ren 1 ; Zhang, Xiaodong 1 ; Wu, Xudong 3 ; Zhang, Wei 3 ; Ding, Yueyun 1 ; Yin, Zongjun 1 ;
作者机构: 1.Anhui Agr Univ, Coll Anim Sci & Technol, Hefei 230036, Peoples R China
2.Anhui Univ Chinese Med, Sch Pharm, Hefei 230036, Peoples R China
3.Anhui Acad Agr Sci, Inst Anim Husb & Vet Med, Key Lab Pig Mol Quantitat Genet, Anhui Prov Key Lab Livestock & Poultry Prod Safety, Hefei 230031, Peoples R China
关键词: CNV; CNVR; Anqingliubai pig; wild boar; QTL
期刊名称:GENES ( 影响因子:3.5; 五年影响因子:3.9 )
ISSN:
年卷期: 2023 年 14 卷 2 期
页码:
收录情况: SCI
摘要: Copy number variation (CNV) has been widely used to study the evolution of different species. We first discovered different CNVs in 24 Anqingliubai pigs and 6 Asian wild boars using next-generation sequencing at the whole-genome level with 10x depth to understand the relationship between genetic evolution and production traits in wild boars and domestic pigs. A total of 97,489 CNVs were identified and divided into 10,429 copy number variation regions (CNVRs), occupying 32.06% of the porcine genome. Chromosome 1 had the most CNVRs, and chromosome 18 had the least. Ninety-six CNVRs were selected using VST 1% based on the signatures of all CNVRs, and sixty-five genes were identified in the selected regions. These genes were strongly correlated with traits distinguishing groups by enrichment in Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathways, such as growth (CD36), reproduction (CIT, RLN), detoxification (CYP3A29), and fatty acid metabolism (ELOVL6). The QTL overlapping regions were associated with meat traits, growth, and immunity, which was consistent with CNV analysis. Our findings increase the understanding of evolved genome structural variations between wild boars and domestic pigs, and provide new molecular biomarkers to guide breeding and the efficient use of available genetic resources.
- 相关文献
作者其他论文 更多>>
-
Effects of different ages on frozen semen quality and in vitro fertilization efficiency in Wannan black pigs
作者:Xu, Changzhi;Yang, Xianshu;Sui, Heming;Zheng, Xianrui;Cao, Zubing;Zhang, Yunhai;Tong, Xu;Zhang, Dandan;Jiao, Jun;Wang, Chonglong
关键词:pig; aging; frozen semen; sperm quality; fertility
-
OsPML2, a chloroplast envelope localized transporter is involved in manganese homeostasis in rice
作者:Zou, Yu;Xu, Ending;Zhang, Peijiang;Xu, Ending;Fan, Ye;Zhang, Wei;Chen, Xi
关键词:Chloroplast; Envelope; Manganese; Photosynthesis; Rice; Transporter
-
Assessing Population Structure and Signatures of Selection in Wanbei Pigs Using Whole Genome Resequencing Data
作者:Zhang, Wei;Liu, Linqing;Zhou, Mei;Su, Shiguang;Dong, Lin;Meng, Xinxin;Li, Xueting;Wang, Chonglong;Zhang, Wei;Liu, Linqing;Zhou, Mei;Su, Shiguang;Wang, Chonglong;Zhang, Wei;Liu, Linqing;Zhou, Mei;Su, Shiguang;Dong, Lin;Meng, Xinxin;Li, Xueting;Wang, Chonglong
关键词:Wanbei pig; Asian wild boar; selection signatures; fixation index (FST); polymorphism levels (theta pi); whole genome resequencing
-
Genome-wide detection of CNV regions between Anqing six-end-white and Duroc pigs
作者:Qian, Rong;Kong, JuanJuan;Zhang, Wei;Zhou, Xueli;Wang, Chonglong;Xie, Fei;Li, Xiaojin
关键词:Copy number variation; Genome-wide; Anqing six-end-white pigs; Duroc pigs
-
Genome-Wide Detection and Analysis of Copy Number Variation in Anhui Indigenous and Western Commercial Pig Breeds Using Porcine 80K SNP BeadChip
作者:Xu, Chengliang;Zhang, Wei;Zhou, Mei;Liu, Linqing;Su, Shiguang;Li, Xueting;Wang, Chonglong;Xu, Chengliang;Jiang, Yao
关键词:copy number variation; Anhui indigenous pig breeds; Western commercial pig breeds; SNP; immune; meat quality
-
2,5-Hexanedione Affects Ovarian Granulosa Cells in Swine by Regulating the CDKN1A Gene: A Transcriptome Analysis
作者:Chen, Yige;Kong, Chengcheng;Yang, Min;Liu, Yangguang;Han, Zheng;Xu, Liming;Zheng, Xianrui;Ding, Yueyun;Yin, Zongjun;Zhang, Xiaodong;Yang, Min
关键词:2; 5-Hexanedione(2; 5-HD); granulosa cells; CDKN1A; apoptosis; sow
-
Identification and characterization of extrachromosomal circular DNA in Wei and Large White pigs by high-throughput sequencing
作者:Wen, Aiyou;Xu, Jingen;Wang, Kunping;Hu, Hong;Zhang, Wei
关键词:eccDNA; ecDNA; Wei pig; Large White pig; high-throughput sequencing