ArticleGenetics, selection, evolution : GSE2015
Linkage disequilibrium in crossbred and pure line chickens.
Article in Genetics, selection, evolution : GSE, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed, 56 citations in OpenAlex.
- Multi-omics integration and artificial intelligence for the conservation and utilization of local chicken genetic resources.Poultry science · 2026Review
- Body-weight variation as a potential indirect indicator of abdominal fat weight with relevance to laying rate in 90-week-old laying hens.Poultry science · 2026Article
- Detection of quantitative trait loci and genetic correlations of lipid reserves and production traits in aging laying hens.Poultry science · 2026Article
- Genomic Analysis of the Columbian Plumage Pattern in Various Chicken Breeds.Animals : an open access journal from MDPI · 2026Article
- Whole-Genome Resequencing Reveals Population Structure and Loci Associated with Growth and Meat-Quality Traits in Meigu Yanying Chickens.Animals : an open access journal from MDPI · 2026Article
- The Effect of Preselection on the Level of Bias and Accuracy in a Broiler Breeder Population, a Simulation Study.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2025Article
- Accuracy of genomic prediction using multiple Atlantic salmon populations.Genetics, selection, evolution : GSE · 2024Article
- Variant calling and genotyping accuracy of ddRAD-seq: Comparison with 20X WGS in layers.PloS one · 2024Article
- The genome of a globally invasive passerine, the common myna, Acridotheres tristis.DNA research : an international journal for rapid publication of reports on genes and genomes · 2024Article
- Further host-genomic characterization of total antibody response to PRRSV vaccination and its relationship with reproductive performance in commercial sows: genome-wide haplotype and zygosity analyses.Genetics, selection, evolution : GSE · 2021Article
- Assessing the Genetic Background and Selection Signatures of Huaxi Cattle Using High-Density SNP Array.Animals : an open access journal from MDPI · 2021Article
- Investigation of allele specific expression in various tissues of broiler chickens using the detection tool VADT.Scientific reports · 2021Article
- RNA-Seq Data for Reliable SNP Detection and Genotype Calling: Interest for Coding Variant Characterization andFrontiers in genetics · 2021Article
- Article
- Linkage Disequilibrium and Effective Population Size of Buffalo Populations of Iran, Turkey, Pakistan, and Egypt Using a Medium Density SNP Array.Frontiers in genetics · 2021Article
- Marker genotyping error effects on genomic predictions under different genetic architectures.Molecular genetics and genomics : MGG · 2021Article
- Genomic Tools for the Conservation and Genetic Improvement of a Highly Fragmented Breed-The Ramo Grande Cattle from the Azores.Animals : an open access journal from MDPI · 2020Article
- Validation of genomic predictions for body weight in broilers using crossbred information and considering breed-of-origin of alleles.Genetics, selection, evolution : GSE · 2019Article
- Genome-Wide Single-Nucleotide Polymorphism Data Unveil Admixture of Chinese Indigenous Chicken Breeds with Commercial Breeds.Genome biology and evolution · 2019Article
- A new chicken 55K SNP genotyping array.BMC genomics · 2019Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundBoth genome-wide association (GWA) studies and genomic selection depend on the level of non-random association of alleles at different loci, i.e. linkage disequilibrium (LD), across the genome. Therefore, characterizing LD is of fundamental importance to implement both approaches. In this study, using a 60K single nucleotide polymorphism (SNP) panel, we estimated LD and haplotype structure in crossbred broiler chickens and their component pure lines (one male and two female lines) and calculated the consistency of LD between these populations.
resultsThe average level of LD (measured by r(2)) between adjacent SNPs across the chicken autosomes studied here ranged from 0.34 to 0.40 in the pure lines but was only 0.24 in the crossbred populations, with 28.4% of adjacent SNP pairs having an r(2) higher than 0.3. Compared with the pure lines, the crossbred populations consistently showed a lower level of LD, smaller haploblock sizes and lower haplotype homozygosity on macro-, intermediate and micro-chromosomes. Furthermore, correlations of LD between markers at short distances (0 to 10 kb) were high between crossbred and pure lines (0.83 to 0.94).
conclusionsOur results suggest that using crossbred populations instead of pure lines can be advantageous for high-resolution QTL (quantitative trait loci) mapping in GWA studies and to achieve good persistence of accuracy of genomic breeding values over generations in genomic selection. These results also provide useful information for the design and implementation of GWA studies and genomic selection using crossbred populations.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.