A5080450942- Genetic and phenotypic traits in livestock
- Genetic Mapping and Diversity in Plants and Animals
- Cancer-related molecular mechanisms research
- Animal Disease Management and Epidemiology
- Wheat and Barley Genetics and Pathology
- Genetics and Plant Breeding
- Animal Genetics and Reproduction
South China Agricultural University
2022-2025
Abstract To fully unlock the potential of pigs as both agricultural species for animal-based protein food and biomedical models human biology disease, a comprehensive understanding molecular cellular mechanisms underlying various complex phenotypes in how findings can be translated to other species, especially humans, are urgently needed. Here, within Farm animal Genotype-Tissue Expression (FarmGTEx) project, we build PigBiobank (http://pigbiobank.farmgtex.org) systematically investigate...
Abstract Understanding the molecular and cellular mechanisms underlying complex traits in pigs is crucial for enhancing genetic gain via artificial selection utilizing as models human disease biology. Here, we conducted a comprehensive genome-wide association studies (GWAS) followed by cross-breed meta-analysis 232 within-breed 12 traits, using 28.3 million imputed sequence variants 70 328 animals across 14 pig breeds. We identified 6 878 quantitative trait loci (QTL) 139 traits. Leveraging...
RNA sequencing (RNA-seq) is a powerful tool for transcriptome profiling, enabling integrative studies of expression quantitative trait loci (eQTL). As it identifies fewer genetic variants than DNA (DNA-seq), reference panel-based genotype imputation often required to enhance its utility. This study evaluated the accuracy using SNPs called from RNA-seq data (RNA-SNPs). SNP features 6,567 samples across 28 pig tissues were used mask whole genome (WGS) data, with Pig Genomic Reference Panel...
Runs of homozygosity (ROH) are contiguous homozygous genomic segments that provide valuable insights into population history, selection pressures, and inbreeding levels. However, the global distribution ROH their implications for pig domestication breeding not yet fully understood. In this study, we analyzed whole-genome resequencing data from 1203 pigs across 49 breeds to characterize patterns worldwide. European commercial exhibited longer more numerous than Asian indigenous breeds,...
Abstract In livestock, genome‐wide association studies (GWAS) are usually conducted in a single population (single‐GWAS) with limited sample size and detection power. To enhance the power of GWAS, meta‐analysis GWAS (meta‐GWAS) mega‐analysis (mega‐GWAS) have been proposed to integrate data from multiple populations at level summary statistics or individual data, respectively. However, there is lack comparison for these different strategies, which makes it difficult guide best practice...
Growth and carcass traits are of economic importance in the pig production, which affect pork quality profitability finishing production. This study used whole-genome transcriptome sequencing technologies to identify potential candidate genes affecting growth Duroc pigs. The medium (50-60 k) single nucleotide polymorphism (SNP) arrays 4 154 pigs from three populations were imputed sequence data, yielding 10 463 227 markers on 18 autosomes. dominance heritabilities estimated for ranged 0.000...
Abstract Understanding the molecular and cellular mechanisms that underlie complex traits in pigs is crucial for enhancing their genetic improvement program unleashing substantial potentials human biomedicine research. Here, we conducted a meta-GWAS analysis 232 with 28.3 million imputed whole-genome sequence variants 70,328 individuals from 14 pig breeds. We identified total of 6,878 genomic regions associated 139 traits. By integrating Pig Genotype-Tissue Expression (PigGTEx) resource,...
The domestic pig (
Indigenous pig breeds in China have accumulated significant genetic diversity due to regional selection pressures. Investigating the signatures of these populations helps understand their adaptive evolution and contributes improvement programs. We collected whole-genome sequencing data from 133 individuals, including South North indigenous pigs Asian wild boars. After filtering, we retained 31,521,978 high-quality SNPs. Population structure analysis using PCA revealed distinct clustering...
The domestic pig (Sus scrofa) and subfamilies have a long-term extensive gene flow, especially in Southeast Asia. Demographically, as gateway of southern China, Yunnan province with unique geographical location complex climate system, but genomic, genetic introgression indigenous pigs is insufficient. Here, we analyzed population structure, differentiation, adaptive introgression, signature selection function pigs, European commercial other Asia using genomics reference panel (PGRP v1) from...