ArticlePlanta2016
Genome wide association mapping for grain shape traits in indica rice.
Article in Planta, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 49 citations in OpenAlex.
- Genome-wide association mapping of distinctness, uniformity and stability traits and varietal identification in rice (Oryza sativa L.).Journal of the science of food and agriculture · 2026Article
- Trehalose-6-phosphate phosphatase-mediated trehalose metabolism shapes sorghum grain domestication for brewing adaptation.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Trait Architecture of Fruit-Panicle Economic Traits inPlants (Basel, Switzerland) · 2026Article
- Morpho-molecular diversity of improved Indonesia's rice varieties based on grain morphology and three types of DNA-based markers.Journal, genetic engineering & biotechnology · 2026Article
- Unveiling the genetic architecture of stripe rust resistance in wheat: a region-specific GWAS in Xinjiang, China.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Cotton genetic mapping for plant biotechnology: from markers to graph pan-genomes and sustainable breeding.Frontiers in plant science · 2026Review
- Unveiling novel QTLs for nitrogen use efficiency in temperate Japonica rice.BMC plant biology · 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
- Agronomic potential of plant-specific Gγ proteins.Physiology and molecular biology of plants : an international journal of functional plant biology · 2024Review
- Article
- Genome-Wide Association Study Reveals Novel Powdery Mildew Resistance Loci in Bread Wheat.Plants (Basel, Switzerland) · 2023Article
- Genetic Diversity and Association Mapping of Grain-Size Traits in Rice Landraces from the Honghe Hani Rice Terraces System in Yunnan Province.Plants (Basel, Switzerland) · 2023Article
- Genetics of spot blotch resistance in bread wheat (Frontiers in plant science · 2022Article
- Genetic diversity and population structure of rice (Oryza sativa L.) landraces from Kerala, India analyzed through genotyping-by-sequencing.Molecular genetics and genomics : MGG · 2022Article
- Superior haplotypes towards development of low glycemic index rice with preferred grain and cooking quality.Scientific reports · 2021Article
- Genome-Wide Association Study Reveals Marker-Trait Associations for Early Vegetative Stage Salinity Tolerance in Rice.Plants (Basel, Switzerland) · 2021Article
- Breeding and biotechnological interventions for trait improvement: status and prospects.Planta · 2020Review
- Genome-wide association studies using 50 K rice genic SNP chip unveil genetic architecture for anaerobic germination of deep-water rice population of Assam, India.Molecular genetics and genomics : MGG · 2020Article
- Genome-Wide Association Study Reveals Novel Marker-Trait Associations (MTAs) Governing the Localization of Fe and Zn in the Rice Grain.Frontiers in genetics · 2020Article
- Mining and genomic characterization of resistance to tan spot, Stagonospora nodorum blotch (SNB), and Fusarium head blight in Watkins core collection of wheat landraces.BMC plant biology · 2019Article
Corrections and comments
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Authors and funding
11 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
MAIN
conclusionUsing genome-wide association mapping, 47 SNPs within 27 significant loci were identified for four grain shape traits, and 424 candidate genes were predicted from public database. Grain shape is a key determinant of grain yield and quality in rice (Oryza sativa L.). However, our knowledge of genes controlling rice grain shape remains limited. Genome-wide association mapping based on linkage disequilibrium (LD) has recently emerged as an effective approach for identifying genes or quantitative trait loci (QTL) underlying complex traits in plants. In this study, association mapping based on 5291 single nucleotide polymorphisms (SNPs) was conducted to identify significant loci associated with grain shape traits in a global collection of 469 diverse rice accessions. A total of 47 SNPs were located in 27 significant loci for four grain traits, and explained ~44.93-65.90 % of the phenotypic variation for each trait. In total, 424 candidate genes within a 200 kb extension region (±100 kb of each locus) of these loci were predicted. Of them, the cloned genes GS3 and qSW5 showed very strong effects on grain length and grain width in our study. Comparing with previously reported QTLs for grain shape traits, we found 11 novel loci, including 3, 3, 2 and 3 loci for grain length, grain width, grain length-width ratio and thousand grain weight, respectively. Validation of these new loci would be performed in the future studies. These results revealed that besides GS3 and qSW5, multiple novel loci and mechanisms were involved in determining rice grain shape. These findings provided valuable information for understanding of the genetic control of grain shape and molecular marker assistant selection (MAS) breeding in rice.
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