ArticleRice (New York, N.Y.)2019
Genome-wide association analysis of panicle exsertion and uppermost internode in rice (Oryza sativa L.).
Article in Rice (New York, N.Y.), 2019. 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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Who cites it
12 citing papers in PubMed.
- Genome-Wide Association Analysis of Gibberellin Sensitivity for Panicle Exsertion Length in Rice and Candidate Gene Identification.Plants (Basel, Switzerland) · 2026Article
- BloomSight: An ultra-high-frequency phenotyping framework for diurnal flowering dynamics inPlant phenomics (Washington, D.C.) · 2026Article
- Engineering non-coding DNA Elements in Rice: an Elegant Approach To fine-tune Agronomical Advantageous Traits.Rice (New York, N.Y.) · 2025Review
- Transcriptome analysis of two photo-thermo-sensitive genic male-sterile lines reveal GA-mediated regulatory mechanism for rice panicle exsertion.BMC genomics · 2025Article
- Directed mutagenesis in fruit crops.3 Biotech · 2025Review
- Elite Alleles of EPE1 Identified via Genome-wide Association Studies Increase Panicle Elongation Length in Rice.Rice (New York, N.Y.) · 2025Article
- Prohexadione Calcium Improves Rice Yield Under Salt Stress by Regulating Source-Sink Relationships During the Filling Period.Plants (Basel, Switzerland) · 2025Article
- Stripping off the rice panicle: induced genetic variation awakens the sheathed spikelet for a better yield.Journal of experimental botany · 2024Article
- Combined strategy employing MutMap and RNA-seq reveals genomic regions and genes associated with complete panicle exsertion in rice.Molecular breeding : new strategies in plant improvement · 2023Article
- Genome-Wide Association Study Reveals Novel QTLs and Candidate Genes for Grain Number in Rice.International journal of molecular sciences · 2022Article
- Identification of OsPK5 involved in rice glycolytic metabolism and GA/ABA balance for improving seed germination via genome-wide association study.Journal of experimental botany · 2022Article
- Gene Expression Dynamics in Rice Peduncles at the Heading Stage.Frontiers in genetics · 2020Article
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Authors and funding
10 authors.
Funding
Abstract
backgroundRice (Oryza sativa L.) yield is seriously influenced by panicle exsertion (PE) and the uppermost internode (UI) through panicle enclosure or energy transport during grain-filling stages. We evaluated the traits of PE and UI of 205 rice accessions in two independent environments and performed genome-wide association (GWAS) to explore the key genes controlling PE and UI, which could be used to improve panicle enclosure in rice breeding.
resultsIn this study, extensive genetic variation was found in both PE and UI among the 205 rice accessions, and 10.7% of accessions had panicle enclosure (PE/UI ≤ 0). Correlation analysis revealed that PE was significantly positively correlated with 1000-grain weight (1000-GW) but negatively correlated with heading date (HD), and UI was significantly positively correlated with HD but no significantly correlated with 1000-GW. A total of 22 and 24 quantitative trait loci (QTLs) were identified for PE and UI using GWAS, respectively. Eight loci for PE and nine loci for UI were simultaneously detected both in 2015 and in 2016, seven loci had adjacent physical positions between PE and UI, and ten loci for PE and seven loci for UI were located in previously reported QTLs. Further, we identified the CYP734A4 gene, encoding a cytochrome P450 monooxygenase, and the OsLIS-L1 gene, encoding a lissencephaly type-1-like protein, as causal genes for qPE14 and qUI14, and for qPE19, respectively. PE and UI were both significantly shorter in these two genes' mutants than in WT. Allelic Hap.1/2/4 of CYP734A4 and Hap.1/2/4 of OsLIS-L1 increased PE, UI, PE/UI, and 1000-GW, but Hap.3 of CYP734A4 and Hap.3 of OsLIS-L1 reduced them. In addition, six candidate genes were also detected for four key novel loci, qPE16, qPE21, qUI1, and qUI18, that seemed to be related to PE and UI.
conclusionsOur results provide new information on the genetic architecture of PE and UI in rice, confirming that the CYP734A4 and OsLIS-L1 genes participate in PE and UI regulation, which could improve our understanding of the regulatory mechanism of PE and UI for rice breeding in the future.
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