ArticleFrontiers in plant science2023
Identification of QTNs, QTN-by-environment interactions, and their candidate genes for grain size traits in main crop and ratoon rice.
Article in Frontiers in plant science, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- Genome-wide association study uncovers the genetic loci for yield-related traits in waxy rice.Journal of applied genetics · 2026Article
- Multi-locus GWAS uncovers favorable alleles and candidate genes underlying water stress response in chrysanthemum.BMC plant biology · 2026Article
- A genome-wide association study to elucidate the genetic basis of the cottonseed protein content in Upland cotton (Breeding science · 2026Article
- Detection of QTLs and QTL-environment interactions for fruit branch number in Upland cotton (Gossypium hirsutum L.) using a restricted two-stage multi-locus genome-wide association study.BMC plant biology · 2026Article
- Integration of GWAS and transcriptome and haplotype analyses to identify QTNs and candidate genes controlling oil content in soybean seeds.Scientific reports · 2025Article
- New insights into QTNs and potential candidate genes governing rice yield via a multi-model genome-wide association study.BMC plant biology · 2024Article
- Appropriately Reduced Nitrogen and Increased Phosphorus in Ratooning Rice Increased the Yield and Reduced the Greenhouse Gas Emissions in Southeast China.Plants (Basel, Switzerland) · 2024Article
- Multi-locus genome-wide association study and genomic prediction for flowering time in chrysanthemum.Planta · 2023Article
- Utilization of the Winkler scale of plants using big data temperature presented by the Korea Meteorological Administration.Frontiers in plant science · 2023Article
- Identification of QTNs, QTN-by-environment interactions for plant height and ear height in maize multi-environment GWAS.Frontiers in plant science · 2023Article
- Genome-wide association study of cooking-caused grain expansion in rice (Frontiers in plant science · 2023Article
- Identification of QTN-by-environment interactions for yield related traits in maize under multiple abiotic stresses.Frontiers in plant science · 2023Article
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although grain size is an important quantitative trait affecting rice yield and quality, there are few studies on gene-by-environment interactions (GEIs) in genome-wide association studies, especially, in main crop (MC) and ratoon rice (RR). To address these issues, the phenotypes for grain width (GW), grain length (GL), and thousand grain weight (TGW) of 159 accessions of MC and RR in two environments were used to associate with 2,017,495 SNPs for detecting quantitative trait nucleotides (QTNs) and QTN-by-environment interactions (QEIs) using 3VmrMLM. As a result, 64, 71, 67, 72, 63, and 56 QTNs, and 0, 1, 2, 2, 2, and 1 QEIs were found to be significantly associated with GW in MC (GW-MC), GL-MC, TGW-MC, GW-RR, GL-RR, and TGW-RR, respectively. 3, 4, 7, 2, 2, and 4 genes were found to be truly associated with the above traits, respectively, while 2 genes around the above QEIs were found to be truly associated with GL-RR, and one of the two known genes was differentially expressed under two soil moisture conditions. 10, 7, 1, 8, 4, and 3 candidate genes were found by differential expression and GO annotation analysis to be around the QTNs for the above traits, respectively, in which 6, 3, 1, 2, 0, and 2 candidate genes were found to be significant in haplotype analysis. The gene
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