ArticleScientific reports2016
Evaluation of the 2b-RAD method for genomic selection in scallop breeding.
Article in Scientific reports, 2016. 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.
- An Amplicon Panel for High-Throughput and Low-Cost Genotyping of Yesso Scallop Mizuhopecten yessoensis.Marine biotechnology (New York, N.Y.) · 2026Article
- Role of multi-omics in aquaculture genetics and breeding: current status and future perspective.Science China. Life sciences · 2025Review
- Identification of Key Biomarkers of Growth-Related Traits in the Bay Scallop Argopecten irradians irradians via Multi-omics Analysis Strategies.Marine biotechnology (New York, N.Y.) · 2025Article
- Genetic Mechanism Analysis Related to Cold Tolerance of Red Swamp Crayfish, Procambarus clarkii.Marine biotechnology (New York, N.Y.) · 2025Article
- Genomic prediction in a backcross population using relationship matrices.Archives animal breeding · 2025Article
- Deep learning for genomic selection of aquatic animals.Marine life science & technology · 2024Review
- Advances in biotechnology and breeding innovations in China's marine aquaculture.Advanced biotechnology · 2024Review
- Genomic selection for survival under naturally occurring Saprolegnia oomycete infection in farmed European whitefish Coregonus lavaretus.Journal of animal science · 2023Article
- Genomic selection applications can improve the environmental performance of aquatics: A case study on the heat tolerance of abalone.Evolutionary applications · 2022Article
- First genomic prediction and genome-wide association for complex growth-related traits in Rock Bream (Evolutionary applications · 2022Article
- Genomic Selection in Aquaculture Species.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Impact of genotypic errors with equal and unequal family contribution on accuracy of genomic prediction in aquaculture using simulation.Scientific reports · 2021Article
- Genetic Dissection of a Precocious Phenotype in Male Tiger Pufferfish (Takifugu rubripes) using Genotyping by Random Amplicon Sequencing, Direct (GRAS-Di).Marine biotechnology (New York, N.Y.) · 2021Article
- Mating system evolution and genetic structure of diploid sexual populations of Cyrtomium falcatum in Japan.Scientific reports · 2021Article
- Harnessing genomics to fast-track genetic improvement in aquaculture.Nature reviews. Genetics · 2020Review
- High accuracy of pooled DNA genotyping by 2b-RAD sequencing in the Pacific white shrimp, Litopenaeus vannamei.PloS one · 2020Article
- Evaluation of Genomic Selection for Seven Economic Traits in Yellow Drum (Nibea albiflora).Marine biotechnology (New York, N.Y.) · 2019Article
- Article
- Histological and Expression Differences Among Different Mantle Regions of the Yesso Scallop (Patinopecten yessoensis) Provide Insights into the Molecular Mechanisms of Biomineralization and Pigmentation.Marine biotechnology (New York, N.Y.) · 2019Article
- High-density SNP linkage map construction and QTL mapping for flavonoid-related traits in a tea plant (Camellia sinensis) using 2b-RAD sequencing.BMC genomics · 2018Article
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10 authors.
Funding
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Abstract
The recently developed 2b-restriction site-associated DNA (2b-RAD) sequencing method provides a cost-effective and flexible genotyping platform for aquaculture species lacking sufficient genomic resources. Here, we evaluated the performance of this method in the genomic selection (GS) of Yesso scallop (Patinopecten yessoensis) through simulation and real data analyses using six statistical models. Our simulation analysis revealed that the prediction accuracies obtained using the 2b-RAD markers were slightly lower than those obtained using all polymorphic loci in the genome. Furthermore, a small subset of markers obtained from a reduced tag representation (RTR) library presented comparable performance to that obtained using all markers, making RTR be an attractive approach for GS purpose. Six GS models exhibited variable performance in prediction accuracy depending on the scenarios (e.g., heritability, sample size, population structure), but Bayes-alphabet and BLUP-based models generally outperformed other models. Finally, we performed the evaluation using an empirical dataset composed of 349 Yesso scallops that were derived from five families. The prediction accuracy for this empirical dataset could reach 0.4 based on optimal GS models. In summary, the genotyping flexibility and cost-effectiveness make 2b-RAD be an ideal genotyping platform for genomic selection in aquaculture breeding programs.
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