ArticleBMC plant biology2021
Identification of cold tolerance QTLs at the bud burst stage in 211 rice landraces by GWAS.
Article in BMC plant biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 35 citations in OpenAlex.
- Article
- OsMYBAS1 Coordinates ABA/JA Signaling and ROS Homeostasis for Seedling Cold Tolerance of Rice (Oryza sativa L.).Rice (New York, N.Y.) · 2026Article
- Genetic architecture of seedling stage chilling tolerance in United States rice germplasm.Frontiers in plant science · 2026Article
- Identification of submergence tolerance QTLs/genes during seed germination in 432 rice varieties by GWAS.BMC plant biology · 2025Article
- Time-course transcriptome analysis reveals gene co-expression networks and transposable element responses to cold stress in cotton.BMC genomics · 2025Article
- Integrated QTL mapping and candidate gene analysis for yield-related traits and salt tolerance in a rice RIL population.Frontiers in plant science · 2025Article
- Article
- Integrating RNA-Seq and linkage mapping to identify and characterizeFrontiers in plant science · 2025Article
- Article
- Identification of candidate genes controlling cold tolerance at the early seedling stage from Dongxiang wild rice by QTL mapping, BSA-Seq and RNA-Seq.BMC plant biology · 2024Article
- Advances and opportunities in unraveling cold-tolerance mechanisms in the world's primary staple food crops.The plant genome · 2024Review
- Uncovering Novel QTLs and Candidate Genes for Salt Tolerance at the Bud Burst Stage in Rice through Genome-Wide Association Study.Plants (Basel, Switzerland) · 2024Article
- Plant growth regulators mitigate oxidative damage to rice seedling roots by NaCl stress.PeerJ · 2024Article
- Research progress on the physiological response and molecular mechanism of cold response in plants.Frontiers in plant science · 2024Review
- Analysis of quantitative trait loci and candidate gene exploration associated with cold tolerance in rice (Frontiers in plant science · 2024Article
- The grain yield regulatorFrontiers in genetics · 2022Article
- Genome-Wide Association Study Reveals a Genetic Mechanism of Salt Tolerance Germinability in Rice (Frontiers in plant science · 2022Article
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Authors and funding
18 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundRice is a crop that is very sensitive to low temperature, and its morphological development and production are greatly affected by low temperature. Therefore, understanding the genetic basis of cold tolerance in rice is of great significance for mining favorable genes and cultivating excellent rice varieties. However, there have been limited studies focusing on cold tolerance at the bud burst stage; therefore, considerable attention should be given to the genetic basis of cold tolerance at this stage.
resultsIn this study, a natural population consisting of 211 rice landraces collected from 15 provinces in China and other countries was used for the first time to evaluate cold tolerance at the bud burst stage. Population structure analysis showed that this population was divided into two groups and was rich in genetic diversity. Our evaluation results confirmed that japonica rice was more tolerant to cold at the bud burst stage than indica rice. A genome-wide association study (GWAS) was performed with the phenotypic data of 211 rice landraces and a 36,727 SNP dataset under a mixed linear model. Twelve QTLs (P < 0.0001) were identified for the seedling survival rate (SR) after treatment at 4 °C, in which there were five QTLs (qSR2-2, qSR3-1, qSR3-2, qSR3-3 and qSR9) that were colocalized with those from previous studies and seven QTLs (qSR2-1, qSR3-4, qSR3-5, qSR3-6, qSR3-7, qSR4 and qSR7) that were reported for the first time. Among these QTLs, qSR9, harboring the most significant SNP, explained the most phenotypic variation. Through bioinformatics analysis, five genes (LOC_Os09g12440, LOC_Os09g12470, LOC_Os09g12520, LOC_Os09g12580 and LOC_Os09g12720) were identified as candidates for qSR9.
conclusionThis natural population consisting of 211 rice landraces combined with high-density SNPs will serve as a better choice for identifying rice QTLs/genes in the future, and the detected QTLs associated with cold tolerance at the bud burst stage in rice will be conducive to further mining favorable genes and breeding rice varieties under cold stress.
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