ArticleBMC genomics2012
Identification of genome-wide copy number variations among diverse pig breeds by array CGH.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed, 50 citations in OpenAlex.
- Mapping copy number variable regions correlated with reproduction and production traits in Karan Fries cattle mammalian genomics.Mammalian genome : official journal of the International Mammalian Genome Society · 2025Article
- Genome-wide adaptive selection and functional annotation of regulatory variation in the Yangxin pig.BMC genomics · 2025Article
- Multi-tool copy number detection highlights common body size-associated variants in miniature pig breeds from different geographical regions.BMC genomics · 2025Article
- Genome-wide identification of copy number variations in wrinkled skin cases of Xiang pigs.Scientific reports · 2024Article
- Identification of Signatures of Positive Selection That Have Shaped the Genomic Landscape of South African Pig Populations.Animals : an open access journal from MDPI · 2024Article
- Article
- Genome-Wide Assessment Characteristics of Genes Overlapping Copy Number Variation Regions in Duroc Purebred Population.Frontiers in genetics · 2021Article
- Genome-Wide Detection of Selection Signatures in Duroc Revealed Candidate Genes Relating to Growth and Meat Quality.G3 (Bethesda, Md.) · 2020Article
- The Association of the Copy Number Variation of theAnimals : an open access journal from MDPI · 2020Article
- About the existence of common determinants of gene expression in the porcine liver and skeletal muscle.BMC genomics · 2019Article
- A genome-wide single nucleotide polymorphism and copy number variation analysis for number of piglets born alive.BMC genomics · 2019Article
- A Survey of Copy Number Variation in the Porcine Genome Detected From Whole-Genome Sequence.Frontiers in genetics · 2019Article
- Dosage sensitivity is a major determinant of human copy number variant pathogenicity.Nature communications · 2017Article
- Article
- Copy number variants in the sheep genome detected using multiple approaches.BMC genomics · 2016Article
- Article
- Evolutionary and Functional Features of Copy Number Variation in the Cattle Genome.Frontiers in genetics · 2016Article
- Improved Detection and Characterization of Copy Number Variations Among Diverse Pig Breeds by Array CGH.G3 (Bethesda, Md.) · 2015Article
- Copy number variations in high and low fertility breeding boars.BMC genomics · 2015Article
- Genome-Wide Copy Number Variations Using SNP Genotyping in a Mixed Breed Swine Population.PloS one · 2015Article
Corrections and comments
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRecent studies have shown that copy number variation (CNV) in mammalian genomes contributes to phenotypic diversity, including health and disease status. In domestic pigs, CNV has been catalogued by several reports, but the extent of CNV and the phenotypic effects are far from clear. The goal of this study was to identify CNV regions (CNVRs) in pigs based on array comparative genome hybridization (aCGH).
resultsHere a custom-made tiling oligo-nucleotide array was used with a median probe spacing of 2506 bp for screening 12 pigs including 3 Chinese native pigs (one Chinese Erhualian, one Tongcheng and one Yangxin pig), 5 European pigs (one Large White, one Pietrain, one White Duroc and two Landrace pigs), 2 synthetic pigs (Chinese new line DIV pigs) and 2 crossbred pigs (Landrace × DIV pigs) with a Duroc pig as the reference. Two hundred and fifty-nine CNVRs across chromosomes 1-18 and X were identified, with an average size of 65.07 kb and a median size of 98.74 kb, covering 16.85 Mb or 0.74% of the whole genome. Concerning copy number status, 93 (35.91%) CNVRs were called as gains, 140 (54.05%) were called as losses and the remaining 26 (10.04%) were called as both gains and losses. Of all detected CNVRs, 171 (66.02%) and 34 (13.13%) CNVRs directly overlapped with Sus scrofa duplicated sequences and pig QTLs, respectively. The CNVRs encompassed 372 full length Ensembl transcripts. Two CNVRs identified by aCGH were validated using real-time quantitative PCR (qPCR).
conclusionsUsing 720 K array CGH (aCGH) we described a map of porcine CNVs which facilitated the identification of structural variations for important phenotypes and the assessment of the genetic diversity of pigs.
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