ArticleGenetics, selection, evolution : GSE2017
Genome-wide scan for runs of homozygosity identifies potential candidate genes associated with local adaptation in Valle del Belice sheep.
Article in Genetics, selection, evolution : GSE, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers.
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80 citing papers in PubMed, 191 citations in OpenAlex.
- Detection of homozygosity and heterozygosity regions in mediterranean sheep breeds revealed by high-density SNP array.Journal of animal science · 2026Article
- Genome-wide assessment of runs of homozygosity and inbreeding in Inner Mongolia cashmere goats reveals candidate genes for economic traits.Frontiers in veterinary science · 2026Article
- Kazakh Tobet dogs in the genomic landscape: refining the history of livestock guardian breeds.BMC biology · 2025Article
- Whole-genome sequencing reveals patterns of runs of homozygosity underlying genetic diversity and selection in domestic rabbits.BMC genomics · 2025Article
- Uncovering genomic diversity and signatures of selection in red Angus × Chinese red steppe crossbred cattle population.Scientific reports · 2025Article
- Single nucleotide polymorphism-based analysis of linkage disequilibrium and runs of homozygosity patterns of indigenous sheep in the southern Taklamakan desert.BMC genomics · 2025Article
- Article
- Genome-wide landscape of genetic diversity, runs of homozygosity, and runs of heterozygosity in five Alpine and Mediterranean goat breeds.Journal of animal science and biotechnology · 2025Article
- Genomic scans for selection and runs of homozygosity in southern Italian turkey populations.Poultry science · 2025Article
- Comparative Analysis of Runs of Homozygosity Islands in Indigenous and Commercial Chickens Revealed Candidate Loci for Disease Resistance and Production Traits.Veterinary medicine and science · 2025Article
- Article
- Genomic and Conventional Inbreeding Coefficient Estimation Using Different Estimator Models in Korean Duroc, Landrace, and Yorkshire Breeds Using 70K Porcine SNP BeadChip.Animals : an open access journal from MDPI · 2024Article
- Genetic diversity and signatures of selection in Icelandic horses and Exmoor ponies.BMC genomics · 2024Article
- Using high-density SNP data to unravel the origin of the Franches-Montagnes horse breed.Genetics, selection, evolution : GSE · 2024Article
- Genomic Characterization of Local Croatian Sheep Breeds-Effective Population Size, Inbreeding & Signatures of Selection.Animals : an open access journal from MDPI · 2024Article
- High-yield hybrid breeding of Camellia oleifolia based on ISSR molecular markers.BMC plant biology · 2024Article
- Genome-wide detection of positive and balancing signatures of selection shared by four domesticated rainbow trout populations (Oncorhynchus mykiss).Genetics, selection, evolution : GSE · 2024Article
- Analysis of ddRAD-seq data provides new insights into the genomic structure and patterns of diversity in Italian donkey populations.Journal of animal science · 2024Article
- Effect of genotyping density on the detection of runs of homozygosity and heterozygosity in cattle.Journal of animal science · 2024Article
- Genome-wide analysis of the Siboney de Cuba cattle breed: genetic characterization and framing with cattle breeds worldwide.Frontiers in genetics · 2024Article
20 more citing papers are in PubMed but not listed here.
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
backgroundBecause very large numbers of single nucleotide polymorphisms (SNPs) are now available throughout the genome, they are particularly suitable for the detection of genomic regions where a reduction in heterozygosity has occurred and they offer new opportunities to improve the accuracy of inbreeding ([Formula: see text]) estimates. Runs of homozygosity (ROH) are contiguous lengths of homozygous segments of the genome where the two haplotypes inherited from the parents are identical. Here, we investigated the occurrence and distribution of ROH using a medium-dense SNP panel to characterize autozygosity in 516 Valle del Belice sheep and to identify the genomic regions with high ROH frequencies.
resultsWe identified 11,629 ROH and all individuals displayed at least one ROH longer than 1 Mb. The mean value of [Formula: see text] estimated from ROH longer than1 Mb was 0.084 ± 0.061. ROH that were shorter than 10 Mb predominated. The highest and lowest coverages of Ovis aries chromosomes (OAR) by ROH were on OAR24 and OAR1, respectively. The number of ROH per chromosome length displayed a specific pattern, with higher values for the first three chromosomes. Both number of ROH and length of the genome covered by ROH varied considerably between animals. Two hundred and thirty-nine SNPs were considered as candidate markers that may be under directional selection and we identified 107 potential candidate genes. Six genomic regions located on six chromosomes, corresponding to ROH islands, are presented as hotspots of autozygosity, which frequently coincided with regions of medium recombination rate. According to the KEGG database, most of these genes were involved in multiple signaling and signal transduction pathways in a wide variety of cellular and biochemical processes. A genome scan revealed the presence of ROH islands in genomic regions that harbor candidate genes for selection in response to environmental stress and which underlie local adaptation.
conclusionsThese results suggest that natural selection has, at least partially, a role in shaping the genome of Valle del Belice sheep and that ROH in the ovine genome may help to detect genomic regions involved in the determinism of traits under selection.
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