ArticleThe plant genome2018
Genome-Wide Association Study Using Historical Breeding Populations Discovers Genomic Regions Involved in High-Quality Rice.
Article in The plant genome, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 34 citations in OpenAlex.
- Discovering common and population-specific QTLs for leaf rust resistance in different Barley populations.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Rice QTL hotspots related with seed grain size, shape, weight, and color based on genome wide association study and linkage mapping.Scientific reports · 2025Article
- Multi-population GWAS detects robust marker associations in a newly established six-rowed winter barley breeding program.Heredity · 2025Article
- Genome-wide association study identifies key F-box genes linked to ethylene responsiveness and root growth in rice (Frontiers in plant science · 2024Article
- Genetic architecture of ear traits based on association mapping and co-expression networks in maize inbred lines and hybrids.Molecular breeding : new strategies in plant improvement · 2023Article
- Genome-Wide Association Study of Starch Properties in Local Thai Rice.Plants (Basel, Switzerland) · 2023Article
- Population size in QTL detection using quantile regression in genome-wide association studies.Scientific reports · 2023Article
- Multi-model genome-wide association studies for appearance quality in rice.Frontiers in plant science · 2023Article
- Genetic architecture of head rice and rice chalky grain percentages using genome-wide association studies.Frontiers in plant science · 2023Article
- Fine Mapping of Two Major Quantitative Trait Loci for Rice Chalkiness With High Temperature-Enhanced Additive Effects.Frontiers in plant science · 2022Article
- Genetic architecture of photosynthesis energy partitioning as revealed by a genome-wide association approach.Photosynthesis research · 2021Article
- Substitution Mapping of Two Closely Linked QTLs on Chromosome 8 Controlling Grain Chalkiness in Rice.Rice (New York, N.Y.) · 2021Article
- Genome-wide association coupled gene to gene interaction studies unveil novel epistatic targets among major effect loci impacting rice grain chalkiness.Plant biotechnology journal · 2021Article
- Article
- Training Population Optimization for Genomic Selection.The plant genome · 2019Article
- Integrating Molecular Markers and Environmental Covariates To Interpret Genotype by Environment Interaction in Rice (G3 (Bethesda, Md.) · 2019Article
Corrections and comments
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Authors and funding
12 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Rice ( L.) is one of the most important staple food crops in the world; however, there has recently been a shift in consumer demand for higher grain quality. Therefore, understanding the genetic architecture of grain quality has become a key objective of rice breeding programs. Genome-wide association studies (GWAS) using large diversity panels have successfully identified genomic regions associated with complex traits in diverse crop species. Our main objective was to identify genomic regions associated with grain quality and to identify and characterize favorable haplotypes for selection. We used two locally adapted rice breeding populations and historical phenotypic data for three rice quality traits: yield after milling, percentage of head rice recovery, and percentage of chalky grain. We detected 22 putative quantitative trait loci (QTL) in the same genomic regions as starch synthesis, starch metabolism, and cell wall synthesis-related genes are found. Additionally, we found a genomic region on chromosome 6 in the population that was associated with all quality traits and we identified favorable haplotypes. Furthermore, this region is linked to the gene that codes for a starch branching enzyme I, which is implicated in starch granule formation. In , we also found two putative QTL linked to , , and . Our study provides an insight into the genetic basis of rice grain chalkiness, yield after milling, and head rice, identifying favorable haplotypes and molecular markers for selection in breeding programs.
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