ArticleFrontiers in plant science2018
Genetic Architecture and Candidate Genes for Deep-Sowing Tolerance in Rice Revealed by Non-syn GWAS.
Article in Frontiers in plant science, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers, 1 of them a synthesis that pooled it.
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Who cites it
39 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Integrated QTL Mapping, Meta-Analysis, and RNA-Sequencing Reveal Candidate Genes for Maize Deep-Sowing Tolerance.International journal of molecular sciences · 2023Pooled it
- Superior haplotypes for transforming crop breeding.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Identifying candidate genes related to rice ML under salt-alkali tolerance.BMC plant biology · 2026Article
- Genome-wide-association-analysis-based identification of genetic loci and candidate genes associated with seedling emergence rate in super-sweet corn (Zea mays L.).BMC plant biology · 2026Article
- Integrated metabolome and transcriptome profiling demonstrates dynamic regulatory roles of hormones in direct-seeding rice.Frontiers in plant science · 2026Article
- Genetic loci and functional genes conferring deep-sowing tolerance across multiple environments in soybean.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Identification of submergence tolerance QTLs/genes during seed germination in 432 rice varieties by GWAS.BMC plant biology · 2025Article
- Identification of key genes associated with mesocotyl length through a genome-wide association study in rice.Frontiers in plant science · 2025Article
- Multi-GWAS reveals significant genomic regions for Mungbean yellow mosaic India virus resistance in urdbean (Vigna mungo (L.) across multiple environments.Plant cell reports · 2024Article
- Genome-Wide Association Study Identifies Quantitative Trait Loci and Candidate Genes Involved in Deep-Sowing Tolerance in Maize (Plants (Basel, Switzerland) · 2024Article
- Article
- Unveiling genetic basis of seedling emergence from deep soil depth under dry direct- seeded conditions in rice (Frontiers in plant science · 2024Article
- Multi-environment GWAS identifies genomic regions underlying grain nutrient traits in foxtail millet (Setaria italica).Plant cell reports · 2023Article
- Genome-Wide Association Study Reveals the Genetic Basis of Total Flavonoid Content in Brown Rice.Genes · 2023Article
- Identification of Genetic Loci for Rice Seedling Mesocotyl Elongation in Both Natural and Artificial Segregating Populations.Plants (Basel, Switzerland) · 2023Article
- Identification of Key Genes Regulating Sorghum Mesocotyl Elongation through Transcriptome Analysis.Genes · 2023Article
- Progress in the study of functional genes related to direct seeding of rice.Molecular breeding : new strategies in plant improvement · 2023Review
- Article
- Screening germplasm and detecting QTLs for mesocotyl elongation trait in rice (Oryza sativa L.) by association mapping.BMC genomic data · 2023Article
- Validation of genes affecting rice mesocotyl length through candidate association analysis and identification of the superior haplotypes.Frontiers in plant science · 2023Article
Corrections and comments
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Authors and funding
15 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Dry direct-seeding of rice is rapidly increasing in China, but variable planting depth associated with machine sowing can lead to low seedling emergence rates. Phenotype analysis of 621 rice accessions showed that mesocotyl length (ML) was induced by deep soil covering and was important in deep-sowing tolerance in the field. Here, we performed and compared GWAS using three types of SNPs (non-synonymous SNP, non-synonymous SNPs and SNPs within promoters and 3 million randomly selected SNPs from the entire set of SNPs) and found that Non-Syn GWAS (GWAS using non-synonyomous SNP) decreased computation time and eliminated confounding by other loci relative to GWAS using randomly selected SNPs. Thirteen QTLs were finally detected, and two new major-effect genes, named
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