ArticleFrontiers in plant science2022
Genome-Wide Association Study of Pericarp Color in Rice Using Different Germplasm and Phenotyping Methods Reveals Different Genetic Architectures.
Article in Frontiers in plant science, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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10 citing papers in PubMed, 18 citations in OpenAlex.
- Novel genome editing approaches to manipulate apical meristem activity for crop yield.Frontiers in plant science · 2026Review
- Spinach (Foods (Basel, Switzerland) · 2025Article
- Rice QTL hotspots related with seed grain size, shape, weight, and color based on genome wide association study and linkage mapping.Scientific reports · 2025Article
- Advances and Future Prospects of Pigment Deposition in Pigmented Rice.Plants (Basel, Switzerland) · 2025Review
- Uncovering genetic determinants of antioxidant properties in Thai landrace rice through genome-wide association analysis.Scientific reports · 2025Article
- Maternal effect on the inheritance of pericarp colour and grain dimension in rice (Journal of genetics · 2025Article
- Population genomic analysis unravels the evolutionary roadmap of pericarp color in rice.Plant communications · 2024Article
- Deciphering the Genetic Architecture of Color Variation in Whole Grain Rice by Genome-Wide Association.Plants (Basel, Switzerland) · 2023Article
- Genome-wide association mapping and gene expression analysis reveal candidate genes for grain chalkiness in rice.Frontiers in plant science · 2023Article
- Transcriptome and Metabolome Analyses Reveal New Insights into the Regulatory Mechanism of Head Milled Rice Rate.Plants (Basel, Switzerland) · 2022Article
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13 authors at 2 institutions in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Pericarp colors (PC) in rice are determined by the types and content of flavonoids in the pericarp. The flavonoid compounds have strong antioxidant activities and are beneficial to human health. However, the genetic basis of PC in rice is still not well-understood. In this study, a genome-wide association study (GWAS) of PC was performed in a diverse rice collection consisting of 442 accessions using different phenotyping methods in two locations over 2 years. In the whole population consisting of white and colored pericarp rice, a total of 11 quantitative trait loci (QTLs) were identified using two phenotyping methods. Among these QTLs, nine were identified using the phenotypes represented by the presence and absence of pigmentation in pericarp, while 10 were identified using phenotypes of the degree of PC (DPC), in which eight are common QTLs identified using the two phenotyping methods. Using colored rice accessions and phenotypes based on DPC, four QTLs were identified, and they were totally different from the QTLs identified using the whole population, suggesting the masking effects of major genes on minor genes. Compared with the previous studies, 10 out of the 15 QTLs are first reported in this study. Based on the differential expression analysis of the predicted genes within the QTL region by both RNA-seq and real-time PCR (RT-PCR) and the gene functions in previous studies,
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