The animal genetics and breeding team of Huazhong Agricultural University has made new progress in the identification of pig regulatory elements
By: Date: 2021-04-16 Categories: foodtechnology Tags: ,
  Recently, the team of Professor Shuhong Zhao and Professor Li Xinyun of Huazhong Agricultural University drew a detailed map of porcine genome promoters, enhancers, open chromatin regions and three-dimensional genomes that currently cover the widest range of breed information and tissue types, and identified cis-forms on a large scale. Regulatory elements and mutation sites in regulatory regions reveal the potential regulatory mechanisms that affect pig phenotypic variation, laying a foundation for the application of functional SNP sites to improve pig genome breeding efficiency. Related research results are published in the international journal Nature Communications.

The detailed mapping of    genome regulatory elements provides a new tool for pig functional genome research
   The Encyclopedia of DNA Elements (ENCODE) project aims to comprehensively annotate the functional elements in the genome, and the functional annotation of regulatory elements is an important basis for analyzing phenotypic variation and gene regulation mechanisms. Although the completion of the domestic pig genome sequencing project has opened a new era in pig genetics and breeding research, there are few studies on the function of non-coding regions that account for 98%of the genome, and the annotation of regulatory elements is still unclear, which severely restricts the analysis of the molecular mechanism of pig economic traits and the genome Breeding technology innovation.
  In order to overcome this bottleneck, Associate Researcher Zhao Yunxia, ​​Dr. Hou Ye, and PhD student Xu Yueyuan, etc. have jointly built an independent set of omics research technologies such as ChIP-seq, ATAC-seq, RNA-seq and Hi-C The research technology system for epigenetic regulation of pig tissues, with 4 lean large white pigs, Duroc pigs, fat Enshi black pigs and Meishan pigs as the research objects, 199 sets of epigenetic regulation data containing 12 tissues have been obtained . The study identified more than 220,000 pig genome regulatory elements and 3316 new pig genome transcripts, and further analyzed the characteristics of the pig genome’s super enhancer, active promoter and other regulatory elements, and clarified the tissue specificity of the pig genome regulatory elements The impact of its three-dimensional structure on gene expression regulation provides new information for the study of pig functional genome and trait regulation mechanisms.
The animal genetics and breeding team of Huazhong Agricultural University has made new progress in the identification of pig regulatory elementsimage
  Different pig breeds genome cis-regulatory elements and three-dimensional chromatin structure
The mining of    regulatory elements and functional mutations is the basis of innovative pig genome breeding technology
  Because the pig genome regulatory elements and functional region mutations are lagging behind, the functional sites and molecular markers of the pig genome cannot be distinguished. The information of functional regions and functional sites cannot be fully utilized when designing genome breeding chips, which affects the efficiency of genome breeding. Promote. The study analyzed the distribution characteristics of GWAS sites of porcine important traits around the regulatory elements by integrating regulatory elements, three-dimensional genome and genome-wide association analysis (GWAS) information, and identified some candidate causal mutations for important traits. Genome mutations, epigenetic modifications, three-dimensional genomes and gene expression variations among varieties have identified a number of important SNPs with potential regulatory functions. The above results provide a wealth of data and information for technological innovation and efficiency improvement of genomic breeding, and open up a new path for accelerating the genetic improvement of pig economic traits.
The animal genetics and breeding team of Huazhong Agricultural University has made new progress in the identification of pig regulatory elementsimage(1)
The distribution of   GWAS sites near the pig genome enhancers
   link to the original text:https://www.nature.com/articles/s41467-021-22448-x