ArticleAnimal bioscience2021
Genome-wide scan for runs of homozygosity identifies candidate genes in Wannan Black pigs.
Article in Animal bioscience, 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, 32 citations in OpenAlex.
- Pre-divergence hybridization and adaptive introgression shaped the genetic architecture of East Asian domestic pigs.Science China. Life sciences · 2026Article
- Analysis of the Genetic Diversity and Genetic Structure of Bamei Pig Population Based on Single-Nucleotide Polymorphism Chip.Animals : an open access journal from MDPI · 2026Article
- A genome-structure adaptive framework for ROH-based inbreeding estimation in Penaeus vannamei.Scientific reports · 2026Article
- Genome-wide detection of runs of homozygosity in Ding'an pigs revealed candidate genes relating to meat quality traits.BMC genomics · 2025Article
- The accumulation of harmful genes within the ROH hotspot regions of the Tibetan sheep genome does not lead to genetic load.BMC genomics · 2025Article
- Proteomic analysis reveals the difference between the spermatozoa of young and old Sus scrofa.Scientific reports · 2025Article
- Whole-genome resequencing reveals the genetic diversity, population structure and selection signatures in Chinese indigenous Kele pigs.Frontiers in veterinary science · 2025Article
- Characterisation of runs of homozygosity and inbreeding coefficients in the red-brown Korean native chickens.Animal bioscience · 2024Article
- Genetic assessment and candidate genes identification for breed-specific characteristics of Qingyuan partridge chicken based on runs of homozygosity.BMC genomics · 2024Article
- Runs of Homozygosity Detection and Selection Signature Analysis for Local Goat Breeds in Yunnan, China.Genes · 2024Article
- Genome-Wide Detection for Runs of Homozygosity in Baoshan Pigs Using Whole Genome Resequencing.Genes · 2024Article
- Detection of Runs of Homozygosity and Identification of Candidate Genes in the Whole Genome of Tunchang Pigs.Animals : an open access journal from MDPI · 2024Article
- Detection of Selection Signatures in Anqing Six-End-White Pigs Based on Resequencing Data.Genes · 2022Article
- Article
- Genome-wide detection of genetic structure and runs of homozygosity analysis in Anhui indigenous and Western commercial pig breeds using PorcineSNP80k data.BMC genomics · 2022Article
- Analysis of the Genetic Diversity and Family Structure of the Licha Black Pig Population on Jiaodong Peninsula, Shandong Province, China.Animals : an open access journal from MDPI · 2022Article
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
Abstract
objectiveRuns of homozygosity (ROH) are contiguous lengths of homozygous genotypes that can reveal inbreeding levels, selection pressure, and mating schemes. In this study, ROHs were evaluated in Wannan Black pigs to assess the inbreeding levels and the genome regions with high ROH frequency.
methodsIn a previous study, we obtained 501.52 GB of raw data from resequencing (10×) of the genome and identified 21,316,754 single-nucleotide variants in 20 Wannan Black pig samples. We investigated the number, length, and frequency of ROH using resequencing data to characterize the homozygosity in Wannan Black pigs and identified genomic regions with high ROH frequencies.
resultsIn this work, 1,813 ROHs (837 ROHs in 100 to 500 kb, 449 ROHs in 500 to 1,000 kb, 527 ROHs in >1,000 kb) were identified in all samples, and the average genomic inbreeding coefficient (FROH) in Wannan Black pigs was 0.5234. Sixty-one regions on chromosomes 2, 3, 7, 8, 13, 15, and 16 harbored ROH islands. In total, 105 genes were identified in 42 ROH islands, among which some genes were related to production traits.
conclusionThis is the first study to identify ROH across the genome of Wannan Black pigs, the Chinese native breed of the Anhui province. Overall, Wannan Black pigs have high levels of inbreeding due to the influence of ancient and recent inbreeding due to the genome. These findings are a reliable resource for future studies and contribute to save and use the germplasm resources of Wannan Black pigs.
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