ArticlePloS one2014
Identification of selection footprints on the X chromosome in pig.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed.
- Genomic signals on the X chromosome reveal local adaptations in Ethiopian cattle.BMC genomics · 2026Article
- Dissecting the genomic regions of selection on the X chromosome in different cattle breeds.3 Biotech · 2024Article
- Article
- Genome variation in tick infestation and cryptic divergence in Tunisian indigenous sheep.BMC genomics · 2022Article
- Ethiopian indigenous goats offer insights into past and recent demographic dynamics and local adaptation in sub-Saharan African goats.Evolutionary applications · 2021Article
- Analysis of selection signatures on the Z chromosome of bidirectional selection broiler lines for the assessment of abdominal fat content.BMC genomic data · 2021Article
- Large-Scale Genome Scanning within Exonic Regions Revealed the Contributions of Selective Sweep Prone Genes to Host Divergence and Adaptation inMicroorganisms · 2021Article
- A Systematic Review of Genomic Regions and Candidate Genes Underlying Behavioral Traits in Farmed Mammals and Their Link with Human Disorders.Animals : an open access journal from MDPI · 2021Review
- Genomic scans for selective sweeps through haplotype homozygosity and allelic fixation in 14 indigenous sheep breeds from Middle East and South Asia.Scientific reports · 2021Article
- Detection of copy number variation and selection signatures on the X chromosome in Chinese indigenous sheep with different types of tail.Asian-Australasian journal of animal sciences · 2020Article
- Whole genome re-sequencing reveals recent signatures of selection in three strains of farmed Nile tilapia (Oreochromis niloticus).Scientific reports · 2020Article
- Genome-wide scans identify known and novel regions associated with prolificacy and reproduction traits in a sub-Saharan African indigenous sheep (Ovis aries).Mammalian genome : official journal of the International Mammalian Genome Society · 2019Article
- Genome-Wide Scan Identifies Selection Signatures in Chinese Wagyu Cattle Using a High-Density SNP Array.Animals : an open access journal from MDPI · 2019Article
- A genome-wide detection of selection signatures in conserved and commercial pig breeds maintained in Poland.BMC genetics · 2018Article
- Analysis of cross-population differentiation between Thoroughbred and Jeju horses.Asian-Australasian journal of animal sciences · 2018Article
- Assessing genetic architecture and signatures of selection of dual purpose Gir cattle populations using genomic information.PloS one · 2018Article
- Identifying molecular signatures of hypoxia adaptation from sex chromosomes: A case for Tibetan Mastiff based on analyses of X chromosome.Scientific reports · 2016Article
- Detection of genomic signatures of recent selection in commercial broiler chickens.BMC genetics · 2016Article
- Prediction of Genes Related to Positive Selection Using Whole-Genome Resequencing in Three Commercial Pig Breeds.Genomics & informatics · 2015Article
- Detection of Selection Signatures on the X Chromosome in Three Sheep Breeds.International journal of molecular sciences · 2015Article
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Authors and funding
4 authors.
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Abstract
Identifying footprints of selection can provide a straightforward insight into the mechanism of artificial selection and further dig out the causal genes related to important traits. In this study, three between-population and two within-population approaches, the Cross Population Extend Haplotype Homozygosity Test (XPEHH), the Cross Population Composite Likelihood Ratio (XPCLR), the F-statistics (Fst), the Integrated Haplotype Score (iHS) and the Tajima's D, were implemented to detect the selection footprints on the X chromosome in three pig breeds using Illumina Porcine60K SNP chip. In the detection of selection footprints using between-population methods, 11, 11 and 7 potential selection regions with length of 15.62 Mb, 12.32 Mb and 9.38 Mb were identified in Landrace, Chinese Songliao and Yorkshire by XPEHH, respectively, and 16, 13 and 17 potential selection regions with length of 15.20 Mb, 13.00 Mb and 19.21 Mb by XPCLR, 4, 2 and 4 potential selection regions with length of 3.20 Mb, 1.60 Mb and 3.20 Mb by Fst. For within-population methods, 7, 10 and 9 potential selection regions with length of 8.12 Mb, 8.40 Mb and 9.99 Mb were identified in Landrace, Chinese Songliao and Yorkshire by iHS, and 4, 3 and 2 potential selection regions with length of 3.20 Mb, 2.40 Mb and 1.60 Mb by Tajima's D. Moreover, the selection regions from different methods were partly overlapped, especially the regions around 22∼25 Mb were detected under selection in Landrace and Yorkshire while no selection in Chinese Songliao by all three between-population methods. Only quite few overlap of selection regions identified by between-population and within-population methods were found. Bioinformatics analysis showed that the genes relevant with meat quality, reproduction and immune were found in potential selection regions. In addition, three out of five significant SNPs associated with hematological traits reported in our genome-wide association study were harbored in potential selection regions.
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