ArticleBMC genomics2021
Identifying the unique characteristics of the Chinese indigenous pig breeds in the Yangtze River Delta region for precise conservation.
Article in BMC genomics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed, 27 citations in OpenAlex.
- Comparative Analysis of Growth and Feeding Behavior in Four Chinese Indigenous Pig Breeds.Animals : an open access journal from MDPI · 2026Article
- Integrated analysis of transcriptome, metabolome, and lipidome revealed key genes associated with meat quality traits in pigs.BMC genomics · 2026Article
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- Integrating genome-wide association analysis and selection signatures to identify the key genes affecting the primary economic traits of pigs.BMC genomics · 2026Article
- Multi-omics analysis reveals flavor differences between Queshan and Yunong black pigs.BMC genomics · 2025Article
- Latitude-driven adaptive evolution of body length in diverse pig breeds across China.BMC biology · 2025Article
- Muscle Characteristics Comparison Analysis Reveal Differences in the Meat Quality and Nutritional Components of Three Shanghai Local Pig Breeds.Foods (Basel, Switzerland) · 2025Article
- Fermented Cassava Residue Meal Improves Meat Quality by Regulating Muscle Fiber and Enhancing Lipid Metabolism in Huanjiang Mini-Pigs.Animals : an open access journal from MDPI · 2025Article
- rPIMS: a ShinyR package for the precision identification and modelling of livestock breeds using genomic data and machine learning approaches.Bioinformatics advances · 2025Article
- Prevalence and antimicrobial resistance ofFrontiers in veterinary science · 2025Article
- Role of Metabolomics and Metagenomics in the Replacement of the High-Concentrate Diet with a High-Fiber Diet for Growing Yushan Pigs.Animals : an open access journal from MDPI · 2024Article
- Tracing the Dynamical Genetic Diversity Changes of Russian Livni Pigs during the Last 50 Years with the Museum, Old, and Modern Samples.Animals : an open access journal from MDPI · 2024Article
- Pig pangenome graph reveals functional features of non-reference sequences.Journal of animal science and biotechnology · 2024Article
- Article
- Comparative Analyses of Antibiotic Resistance Genes in Jejunum Microbiota of Pigs in Different Areas.Frontiers in cellular and infection microbiology · 2022Article
- Genetic diversity and phylogenetic relationships within local pigs in southern Benin.Tropical animal health and production · 2021Article
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7 authors at 3 institutions in 1 country.
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Abstract
backgroundChina is the country with the most abundant swine genetic resources in the world. Through thousands of years of domestication and natural selection, most of pigs in China have developed unique genetic characteristics. Finding the unique genetic characteristics and modules of each breed is an essential part of their precise conservation.
resultsIn this study, we used the partial least squares method to identify the significant specific SNPs of 19 local Chinese pig breeds and 5 Western pig breeds. A total of 37,514 significant specific SNPs (p < 0.01) were obtained from these breeds, and the Chinese local pig breed with the most significant SNPs was Hongdenglong (HD), followed by Jiaxing black (JX), Huaibei (HB), Bihu (BH), small Meishan (SMS), Shengxian Hua (SH), Jiangquhai (JQ), Mi (MI), Chunan (CA), Chalu (CL), Jinhualiangtouwu (JHL), Fengjing (FJ), middle Meishan (MMS), Shanzhu (SZ), Pudong white (PD), Dongchuan (DC), Erhualian (EH), Shawutou (SW) and Lanxi Hua (LX) pig. Furthermore, we identified the breeds with the most significant genes, GO terms, pathways, and networks using KOBAS and IPA and then ranked them separately. The results showed that the breeds with the highest number of interaction networks were Hongdenglong (12) and Huaibei (12) pigs. In contrast, the breeds with the lowest interaction networks were Shawutou (4) and Lanxi Hua pigs (3), indicating that Hongdenglong and Huaibei pigs might have the most significant genetic modules in their genome, whereas Shawutou and Lanxi Hua pigs may have the least unique characteristics. To some degree, the identified specific pathways and networks are related to the number of genes and SNPs linked to the specific breeds, but they do not appear to be the same. Most importantly, more significant modules were found to be related to the development and function of the digestive system, regulation of diseases, and metabolism of amino acids in the local Chinese pig breeds, whereas more significant modules were found to be related to the growth rate in the Western pig breeds.
conclusionOur results show that each breed has some relatively unique structural modules and functional characteristics. These modules allow us to better understand the genetic differences among local Chinese and Western pig breeds and therefore implement precise conservation methods. This study could provide a basis for formulating more effective strategies for managing and protecting these genetic resources in the future.
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