Article3 Biotech2018
Genome-wide association study reveals candidate genes related to low temperature tolerance in rice (
Article in 3 Biotech, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed, 52 citations in OpenAlex.
- Linkage Mapping and Identification of Candidate Genes for Cold Tolerance in Rice (Oryza Sativa L.) at the Bud Bursting Stage.Rice (New York, N.Y.) · 2025Article
- Divergent genetic architecture of cold stress tolerance inFrontiers in plant science · 2025Article
- Analysis of genome-wide association studies of low-temperature germination in Xian and Geng rice.Frontiers in plant science · 2024Article
- Comparative transcriptome analysis reveals candidate genes for cold stress response and early flowering in pineapple.Scientific reports · 2023Article
- Integrative QTL Identification, Fine Mapping and Candidate Gene Analysis of a Major Locus qLTG3a for Seed Low-Temperature Germinability in Rice.Rice (New York, N.Y.) · 2021Article
- Diverse Roles of MAX1 Homologues in Rice.Genes · 2020Article
- The Candidate Genes Underlying a Stably Expressed QTL for Low Temperature Germinability in Rice (Oryza sativa L.).Rice (New York, N.Y.) · 2020Article
- Multiple Cold Tolerance Trait Phenotyping Reveals Shared Quantitative Trait Loci in Oryza sativa.Rice (New York, N.Y.) · 2020Article
- Characterization of a New qLTG3-1 Allele for Low-temperature Germinability in Rice from the Wild Species Oryza rufipogon.Rice (New York, N.Y.) · 2020Article
- Identification of Superior Alleles for Seedling Stage Salt Tolerance in the USDA Rice Mini-Core Collection.Plants (Basel, Switzerland) · 2019Article
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Authors and funding
9 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In this study, relative germination percentage (RGP) and delayed mean germination time (DMGT) were measured in various rice accessions at the germination stage and carried out association analysis to identify candidate genes related to low temperature germination (LTG) using a natural population comprising 137 rice cultivars and inbred lines selected from the Korean rice core set. Genome-wide association study using ~ 1.44 million high-quality SNPs, which were identified by re-sequencing all rice collections, revealed 48 candidate genes on chromosome 10 and 55 candidate genes on chromosome 11 in the high peak SNP sites of associated loci for RGP and DMGT, respectively. By detecting highly associated variations located inside genic regions and performing functional annotation of the genes, we detected 23 candidate genes for RGP and 18 genes for DMGT for LTG. In addition, the haplotype and sequence analysis of the candidate gene (Os10g0371100) with RGP trait and the candidate gene (Os11t0104240-00) with DMGT revealed correlation between sequences of functional variations and phenotypes. Several novel LTG-related candidate genes previously were known for the function during rice germination and uncovered their substantial natural variations. These candidate genes represent valuable resources for molecular breeding and genetic improvement of cold tolerance during rice germination.
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