QTL mapping and validation of a segment responsible for early-seedling cold tolerance in rice

Liu, Wenqiang; Pan, Xi; Xiong, Hui; Huang, Fenglin; Duan, Yonghong; Li, Yongchao; Jiang, Min; Liu, Sanxiong; Liu, Licheng; Wei, Xiucai; Wang, Zhao; Li, Xiaoxiang

doi:10.1007/s10681-019-2524-0

Cited by 5 publications

(3 citation statements)

References 28 publications

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“…We found that qSL2.1 on chromosome 2 overlaps with qESCT-2, qSL3.1 on chromosome 3 is near qESCT-3 and qRL12 on chromosome 12 is near qESCT-12 [11]. For the above QTLs, where the indica rice Katy alleles underlying them showed negative additive effects and decreased early-seedling cold tolerance [11].…”

Section: Relationship Of Mapped Qtls and Previously Identified Genesmentioning

confidence: 80%

“…Therefore, it is suggested that the cold tolerance of indica rice can be improved using genes from japonica rice through molecular breeding. However, it is not so easy to transfer the japonica cold tolerance QTLs (genes) to indica genetic background by molecular breeding, because there exists partial incompatibility between subspecies [11]. If there are favorable QTLs (genes) for cold tolerance in indica, we can transfer these tolerance QTLs (genes) to other indica genetic background to improve indica cold tolerance through molecular breeding.…”

Section: Using Of the Cold Tolerance Qtls Detected By Wfb/cht025 Rilsmentioning

confidence: 99%

“…As a complex abiotic stress trait, the cold tolerance is genetically controlled by numerous quantitative trait loci (QTLs) and is also affected by the environment [6]. Over the past decades, QTL analysis underlying varietals difference for cold tolerance at different development stages in rice was conducted in a number of mapping populations, and the QTLs controlling cold tolerance have been roughly mapped to all the 12 rice chromosomes [7,[8][9][10][11][12]. Among these cold tolerance QTLs, some of them have been cloned [5,[13][14][15][16][17][18].…”

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confidence: 99%

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Genetic basis analysis for indica germinability under low temperature using a new RILs population genotyping by whole-genome resequencing

Wang¹,

Wu²,

Luo³

et al. 2020

Preprint

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Background : Improving the cold tolerance of rice at germination stage is an important objective to maintain rice yields. However, less analyses were carried out to detect the quantitative trait loci (QTLs) associated with cold tolerance using indica/indica population. Therefore, the genetic basis of cold tolerance of the indica varieties should be provided considerable attentionResults: In this study, a recombinant inbred lines (RILs) population comprising 126 lines derived from two widely used double-cropped indica rice varieties Wufeng B (WFB) and Changhui T025 (CHT025) was used to construct a high-density linkage map based on whole-genome resequencing. The high-density genetic map included 2,578 bins on 12 linkage groups and was 1762.80 cM in length, with an average interlocus distance of 0.68 cM. On the basis of newly constructed high-density genetic map, a total of 18 additive QTLs ranging from 34.55 to 315.21 kb on Nipponbare genome and two pairs of epistatic QTLs associated with cold stress at germination stage were detected, which indicated that the genetic basis of cold tolerance of WFB and CHT025 at germination stage is manly due to additive effects of several QTLs. Otherwise, the phylogenetic analysis showed that WFB is a typical indica variety while CHT025 is an interphyletic rice variety. Most of the favorable QTLs harbouring in indica WFB showed different chromosomal region from the QTLs associating with cold stress from japonica rice in previous studies, which indicated that indica might have different cold stress genetic mechanism comparing to japonica subspecies. Furthermore, we can incorporate these favorable QTLs existing in WFB into rice varieties to breed new cold tolerance indica male sterile maintenance line via marker-assisted selection; CHT025 is a better source of these cold tolerance favorable QTLs only only for the improvement of indcia but also for japonica restorer line germinability under low temperature via marker-assisted selection.Conclusion : This population with high density genetic map will serve as better choice for identifying important quantitative traits of these two good indica germplasms, and these favorable QTLs exist in WFB and CHT025 can be used to breed new cold tolerance indica varieties via marker-assisted selection. These authors have contributed equally to this work

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Section: Relationship Of Mapped Qtls and Previously Identified Genesmentioning

confidence: 80%

Section: Using Of the Cold Tolerance Qtls Detected By Wfb/cht025 Rilsmentioning

confidence: 99%

mentioning

confidence: 99%

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Genetic basis analysis for indica germinability under low temperature using a new RILs population genotyping by whole-genome resequencing

Wang¹,

Wu²,

Luo³

et al. 2020

Preprint

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Applying Genomics Resources to Accelerate the Development of Climate Resilient Crops

Saini,

Kumar,

Kaur

2024

Adapting to Climate Change in Agriculture-Theories and Practices

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Climate Change Impact on Rice Production and Breeding for Climate Resilient Rice

Suresh,

Shanmugam,

Viswabharathy

et al. 2024

Climate-Smart Rice Breeding

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QTL mapping and validation of a segment responsible for early-seedling cold tolerance in rice

Cited by 5 publications

References 28 publications

Genetic basis analysis for indica germinability under low temperature using a new RILs population genotyping by whole-genome resequencing

Genetic basis analysis for indica germinability under low temperature using a new RILs population genotyping by whole-genome resequencing

Applying Genomics Resources to Accelerate the Development of Climate Resilient Crops

Climate Change Impact on Rice Production and Breeding for Climate Resilient Rice

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