ArticleFrontiers in genetics2023
Evaluation of low-density SNP panels and imputation for cost-effective genomic selection in four aquaculture species.
Article in Frontiers in genetics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Local Enrichment of Multi-SNP Markers Improves Genomic Prediction from Low-Density Genotyping in Pacific White Shrimp.International journal of molecular sciences · 2026Article
- Moderate-high heritability and QTL associated with Manila clam Ruditapes philippinarum resistance to the parasite Perkinsus olseni.BMC genomics · 2026Article
- Pedigree-assisted genotype imputation enables cost-effective genomic prediction in Penaeus vannamei.Scientific reports · 2026Article
- Assessing kinship detection: single nucleotide polymorphism array density and estimator comparison in white-tailed deer.G3 (Bethesda, Md.) · 2026Article
- Genomic prediction using a cost-effective mid-density SNP platform in spring wheat.Frontiers in plant science · 2026Article
- Evaluation of Low-Coverage Sequencing Strategies for Whole-Genome Imputation in Pacific AbaloneInternational journal of molecular sciences · 2025Article
- Advancing genetic improvement in the omics era: status and priorities for United States aquaculture.BMC genomics · 2025Review
- Accuracy of genotype imputation of a low-density SNP array for the Amazon fish Colossoma macropomum.Genetics and molecular biology · 2024Article
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Authors and funding
8 authors.
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Abstract
Genomic selection can accelerate genetic progress in aquaculture breeding programmes, particularly for traits measured on siblings of selection candidates. However, it is not widely implemented in most aquaculture species, and remains expensive due to high genotyping costs. Genotype imputation is a promising strategy that can reduce genotyping costs and facilitate the broader uptake of genomic selection in aquaculture breeding programmes. Genotype imputation can predict ungenotyped SNPs in populations genotyped at a low-density (LD), using a reference population genotyped at a high-density (HD). In this study, we used datasets of four aquaculture species (Atlantic salmon, turbot, common carp and Pacific oyster), phenotyped for different traits, to investigate the efficacy of genotype imputation for cost-effective genomic selection. The four datasets had been genotyped at HD, and eight LD panels (300-6,000 SNPs) were generated
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