Genome-Wide Association Study for Seed Dormancy Using Re-Sequenced Germplasm under Multiple Conditions in Rice

Chen, Dandan; Zou, Wenli; Zhang, Mingpei; Liu, Jindong; Chen, Liang; Peng, Ting; Ye, Guoyou

doi:10.3390/ijms24076117

Cited by 1 publication

(1 citation statement)

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“…enzyme-encoding genes, OsGST3 was specifically shown to respond to various stress hormones (Chen et al, 2023), and OsPDIL1-1 overexpression in transgenic rice was shown to enhance abiotic stress tolerance (Xia et al, 2018), possibly by controlling the production of ROS (Zhao et al, 2023). It was also shown that the aminomethyltransferase gene LOC_Os06g04380 was differentially expressed after arsenic treatment (Norton et al, 2008), that peptidyl-prolyl cis/trans isomerase genes have various functions in response to environmental stresses (Ahn et al, 2010), and that LTPL130 was previously selected as a candidate gene located on chr.…”

Section: Cold Tolerance Trait Mappingmentioning

confidence: 99%

Navigating rice seedling cold resilience: QTL mapping in two inbred line populations and the search for genes

Schläppi,

Jessel,

Jackson

et al. 2023

Front. Plant Sci.

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Due to global climate change resulting in extreme temperature fluctuations, it becomes increasingly necessary to explore the natural genetic variation in model crops such as rice to facilitate the breeding of climate-resilient cultivars. To uncover genomic regions in rice involved in managing cold stress tolerance responses and to identify associated cold tolerance genes, two inbred line populations developed from crosses between cold-tolerant and cold-sensitive parents were used for quantitative trait locus (QTL) mapping of two traits: degree of membrane damage after 1 week of cold exposure quantified as percent electrolyte leakage (EL) and percent low-temperature seedling survivability (LTSS) after 1 week of recovery growth. This revealed four EL QTL and 12 LTSS QTL, all overlapping with larger QTL regions previously uncovered by genome-wide association study (GWAS) mapping approaches. Within the QTL regions, 25 cold-tolerant candidate genes were identified based on genomic differences between the cold-tolerant and cold-sensitive parents. Of those genes, 20% coded for receptor-like kinases potentially involved in signal transduction of cold tolerance responses; 16% coded for transcription factors or factors potentially involved in regulating cold tolerance response effector genes; and 64% coded for protein chaperons or enzymes potentially serving as cold tolerance effector proteins. Most of the 25 genes were cold temperature regulated and had deleterious nucleotide variants in the cold-sensitive parent, which might contribute to its cold-sensitive phenotype.

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