ArticleBMC genetics2016
Genome-wide association mapping revealed a diverse genetic basis of seed dormancy across subpopulations in rice (Oryza sativa L.).
Article in BMC genetics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers, 1 of them a synthesis that pooled it.
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Who cites it
35 citing papers in PubMed, 1 synthesis or guideline pooled it, 104 citations in OpenAlex.
- Meta-QTL s and haplotypes for efficient zinc biofortification of rice.The plant genome · 2023Pooled it
- An elite RNA-DEPENDENT RNA POLYMERASE3 allele enhances preharvest sprouting resistance in rice.Plant physiology · 2025Article
- The transcription factor CCT30 promotes rice preharvest sprouting by regulating sugar signalling to inhibit the ABA-mediated pathway.Plant biotechnology journal · 2025Article
- Multi-locus genome wide association study uncovers genetics of fresh seed dormancy in groundnut.BMC plant biology · 2024Article
- Comprehensive mapping and modelling of the rice regulome landscape unveils the regulatory architecture underlying complex traits.Nature communications · 2024Article
- Genomic variation in weedy and cultivated broomcorn millet accessions uncovers the genetic architecture of agronomic traits.Nature genetics · 2024Article
- Allantoate Amidohydrolase OsAAH is Essential for Preharvest Sprouting Resistance in Rice.Rice (New York, N.Y.) · 2024Article
- Transposons are important contributors to gene expression variability under selection in rice populations.eLife · 2023Article
- Genome-Wide Association Study for Seed Dormancy Using Re-Sequenced Germplasm under Multiple Conditions in Rice.International journal of molecular sciences · 2023Article
- Exogenous gibberellic acid shortening after-ripening process and promoting seed germination in a medicinal plant Panax notoginseng.BMC plant biology · 2023Article
- Transcriptome analysis of knockout mutants of rice seed dormancy gene OsVP1 and Sdr4.Plant cell reports · 2023Article
- QTL mapping and improvement of pre-harvest sprouting resistance usingFrontiers in plant science · 2023Article
- A meta-QTL analysis highlights genomic hotspots associated with phosphorus use efficiency in rice (Frontiers in plant science · 2023Article
- Selective and comparative genome architecture of Asian cultivated rice (Oryza sativa L.) attributed to domestication and modern breeding.Journal of advanced research · 2022Article
- Understanding of Hormonal Regulation in Rice Seed Germination.Life (Basel, Switzerland) · 2022Review
- Integrating GWAS and transcriptomics to identify genes involved in seed dormancy in rice.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2021Article
- Seed Dormancy and Pre-Harvest Sprouting in Rice-An Updated Overview.International journal of molecular sciences · 2021Review
- Genome-wide association study revealed genetic variations of ABA sensitivity controlled by multiple stress-related genes in rice.Stress biology · 2021Article
- Identification of a major-effect QTL associated with pre-harvest sprouting in cucumber (Cucumis sativus L.) using the QTL-seq method.BMC genomics · 2021Article
- The role of population and quantitative genetics and modern sequencing technologies to understand evolved herbicide resistance and weed fitness.Pest management science · 2021Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundSeed dormancy is an adaptive trait employed by flowering plants to avoid harsh environmental conditions for the continuity of their next generations. In cereal crops, moderate seed dormancy could help prevent pre-harvest sprouting and improve grain yield and quality. We performed a genome wide association study (GWAS) for dormancy, based on seed germination percentage (GP) in freshly harvested seeds (FHS) and after-ripened seeds (ARS) in 350 worldwide accessions that were characterized with strong population structure of indica, japonica and Aus subpopulations.
resultsThe germination tests revealed that Aus and indica rice had stronger seed dormancy than japonica rice in FHS. Association analysis revealed 16 loci significantly associated with GP in FHS and 38 in ARS. Three out of the 38 loci detected in ARS were also detected in FHS and 13 of the ARS loci were detected near previously mapped dormancy QTL. In FHS, three of the association loci were located within 100 kb around previously cloned GA/IAA inactivation genes such as GA2ox3, EUI1 and GH3-2 and one near dormancy gene, Sdr4. In ARS, an association signal was detected near ABA signaling gene ABI5. No association peaks were commonly detected among the sub-populations in FHS and only one association peak was detected in both indica and japonica populations in ARS. Sdr4 and GA2OX3 haplotype analysis showed that Aus and indica II (IndII) varieties had stronger dormancy alleles whereas indica I (IndI) and japonica had weak or non-dormancy alleles.
conclusionThe association study and haplotype analysis together, indicate an involvement of independent genes and alleles contributing towards regulation and natural variation of seed dormancy among the rice sub-populations.
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