ArticlePloS one2018
Haplotype-based genome-wide association study identifies loci and candidate genes for milk yield in Holsteins.
Article in PloS one, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed.
- Genetic Diversification and Population Admixture Signatures in Yunnan Native Cattle.Animals : an open access journal from MDPI · 2026Article
- Predicting productive, health, and reproductive traits in Mexican Holstein cattle using single nucleotide polymorphisms, haplotypes, and runs of homozygosity.JDS communications · 2026Article
- SNPs with High Linkage Disequilibrium Increase the Explained Genetic Variance and the Reliability of Genomic Predictions.Animals : an open access journal from MDPI · 2026Article
- Genome-wide analyses reveal intricate genetic mechanisms underlying egg production efficiency in chickens.Journal of animal science and biotechnology · 2025Article
- Selection Signature Analysis of Whole-Genome Sequences to Identify Genome Differences Between Selected and Unselected Holstein Cattle.Animals : an open access journal from MDPI · 2025Article
- Genetic and Functional Dissection of the NFKB2 Gene: Implications for Milk Fatty Acid Biosynthesis in Dairy Cattle.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2025Article
- DCMS analysis revealed differential selection signatures in the transboundary Sahiwal cattle for major economic traits.Scientific reports · 2025Article
- Genomic Prediction of Milk Fat Percentage Among Crossbred Cattle in the Indian Subcontinent.Animals : an open access journal from MDPI · 2025Article
- Selective sweep and mammary transcriptomics identify breed-specific lactation drivers in East Friesian dairy sheep.Journal of animal science · 2025Article
- Genome-wide selection signatures address trait specific candidate genes in cattle indigenous to arid regions of India.Animal biotechnology · 2024Article
- Genome-wide selection reveals candidate genes associated with multiple teats in Hu sheep.Animal biotechnology · 2024Article
- Whole Genome Scan Uncovers Candidate Genes Related to Milk Production Traits in Barka Cattle.International journal of molecular sciences · 2024Article
- A comparison of five sets of overlapping and non-overlapping sliding windows for semen production traits in the Thai multibreed dairy population.Animal bioscience · 2024Article
- Article
- Genome-Wide Association Study of Fiber Diameter in Alpacas.Animals : an open access journal from MDPI · 2023Article
- Genomic Characterization and Initial Insight into Mastitis-Associated SNP Profiles of Local LatvianAnimals : an open access journal from MDPI · 2023Article
- Resequencing of a Pekin duck breeding population provides insights into the genomic response to short-term artificial selection.GigaScience · 2023Article
- Discriminant canonical tool for inferring the effect of αS1, αS2, β, and κ casein haplotypes and haplogroups on zoometric/linear appraisal breeding values in Murciano-Granadina goats.Frontiers in veterinary science · 2023Article
- Genome-Wide Association Study for Body Conformation Traits and Fitness in Czech Holsteins.Animals : an open access journal from MDPI · 2022Article
- Genetic parameters and genome-wide association for milk production traits and somatic cell score in different lactation stages of Shanghai Holstein population.Frontiers in genetics · 2022Article
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Authors and funding
5 authors.
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Abstract
Since milk yield is a highly important economic trait in dairy cattle, the genome-wide association study (GWAS) is vital to explain the genetic architecture underlying milk yield and to perform marker-assisted selection (MAS). In this study, we adopted a haplotype-based empirical Bayesian GWAS to identify the loci and candidate genes for milk yield. A total of 1 092 Holstein cows were sequenced by using the genotyping by genome reducing and sequencing (GGRS) method. After filtering, 164 312 high-confidence SNPs and 13 476 haplotype blocks were identified to use for GWAS. The results indicated that 17 blocks were significantly associated with milk yield. We further identified the nearest gene of each haplotype block and annotated the genes with milk-associated quantitative trait locus (QTL) intervals and ingenuity pathway analysis (IPA) networks. Our analysis showed that four genes, DLGAP1, AP2B1, ITPR2 and THBS4, have relationships with milk yield, while another three, ARHGEF4, TDRD1 and KIF19, were inferred to have potential relationships. Additionally, a network derived from the IPA containing one inferred (ARHGEF4) and all four confirmed genes likely regulates milk yield. Our findings add to the understanding of identifying the causal genes underlying milk production traits and could guide follow up studies for further confirmation of the associated genes, pathways and biological networks.
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