ArticleRice (New York, N.Y.)2020
Multiple Cold Tolerance Trait Phenotyping Reveals Shared Quantitative Trait Loci in Oryza sativa.
Article in Rice (New York, N.Y.), 2020. 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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Who cites it
17 citing papers in PubMed.
- High-Throughput Phenotyping: Status and Applications in Rice Breeding.Plants (Basel, Switzerland) · 2026Review
- Transcriptome profile of Min pig muscle response to cold stress.Veterinary and animal science · 2026Article
- Integrating Meta-QTL mapping and RNA-seq analysis identifies candidate genes for cold tolerance at rice seedling stage.BMC plant biology · 2026Article
- Genetic architecture of seedling stage chilling tolerance in United States rice germplasm.Frontiers in plant science · 2026Article
- Identification and Candidate Gene Analysis of qCTS11-TK9, a Novel Major Quantitative Trait Locus Associated with Chilling Tolerance in Rice Seedlings.Rice (New York, N.Y.) · 2025Article
- Halo-tolerant plant growth-promoting bacteria-mediated plant salt resistance and microbiome-based solutions for sustainable agriculture in saline soils.FEMS microbiology ecology · 2025Review
- TheGenes · 2025Article
- Divergent genetic architecture of cold stress tolerance inFrontiers in plant science · 2025Article
- Meta-QTL and ortho analysis unravels the genetic architecture and key candidate genes for cold tolerance at seedling stage in rice.Physiology and molecular biology of plants : an international journal of functional plant biology · 2024Article
- Comparative transcriptomics and co-expression networks reveal cultivar-specific molecular signatures associated with reproductive-stage cold stress in rice.Plant cell reports · 2023Article
- Navigating rice seedling cold resilience: QTL mapping in two inbred line populations and the search for genes.Frontiers in plant science · 2023Article
- Biotechnological Advances to Improve Abiotic Stress Tolerance in Crops.International journal of molecular sciences · 2022Review
- Article
- Plant Growth-Promoting Activity of Bacteria Isolated from Asian Rice (Oryza sativa L.) Depends on Rice Genotype.Microbiology spectrum · 2022Article
- Construction of a high-density genetic map and localization of grazing-tolerant QTLs inFrontiers in plant science · 2022Article
- Article
- Population Evolution, Genetic Diversity and Structure of the Medicinal Legume,Frontiers in plant science · 2021Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
backgroundDeveloping chilling tolerant accessions of domesticated Asian rice is a potential source of significant crop improvement. The uniquely chilling sensitive nature of the tropically originating Oryza sativa make it the most important cereal crop that can gain significantly from improved tolerance to low temperatures. However, mechanisms underlying this complex trait are not fully understood. Oryza sativa has two subspecies with different levels of chilling tolerance, JAPONICA and INDICA, providing an ideal tool to investigate mechanistic differences in the chilling stress tolerance responses within this important crop species.
resultsThe Rice Diversity Panel 1 (RDP1) was used to investigate a core set of Oryza sativa accessions. The tools available for this panel allowed for a comprehensive analysis of two chilling tolerance traits at multiple temperatures across a 354-cultivar subset of the RDP1. Chilling tolerance trait values were distributed as mostly subpopulation specific clusters of Tolerant, Intermediate, and Sensitive accessions. Genome-wide association study (GWAS) mapping approaches using all 354 accessions yielded a total of 245 quantitative trait loci (QTL), containing 178 unique QTL covering 25% of the rice genome, while 40 QTL were identified by multiple traits. QTL mappings using subsets of rice accession clusters yielded another 255 QTL, for a total of 500 QTL. The genes within these multiple trait QTL were analyzed for Gene Ontology (GO) term and potential pathway enrichments. Terms related to "carbohydrate biosynthesis", "carbohydrate transmembrane transport", "small molecule protein modification", and "plasma membrane" were enriched from this list. Filtering was done to identify more likely candidate pathways involved in conferring chilling tolerance, resulting in enrichment of terms related to "Golgi apparatus", "stress response", "transmembrane transport", and "signal transduction".
conclusionsTaken together, these GO term clusters revealed a likely involvement of Golgi-mediated subcellular and extracellular vesicle and intracellular carbohydrate transport as a general cold stress tolerance response mechanism to achieve cell and metabolic homeostasis under chilling stress.
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