Breeding for Low Temperature Germinability in Temperate Japonica Rice Varieties: Analysis of Candidate Genes in Associated QTLs

In temperate areas, rice deals with low temperatures that can affect plant growth and crop yield. Rapid germination is required for adequate plant establishment in the field, therefore obtaining cultivars that maintain this phenotype under suboptimal temperature conditions is a challenge for rice breeders. Our study aimed to investigate temperature-induced expression changes in genes underlying quantitative trait loci (QTLs) associated to this trait (low temperature germinability, LTG) that were detected in a previous genome wide association study (GWAS). In the context of a breeding program for japonica rice cultivars adapted to cultivation in Spain, we obtained two biparental families of lines derived from hybridization with two cold tolerant Italian cultivars, and we have studied the effect on the LTG phenotype of introgressing these QTLs. A wide region in chromosome 3 was related to significant increases in seedling growth rate at 15 °C, although the extent of the effect depended on the analyzed family. In parallel, we studied the pattern of expression during germination at different temperatures of 10 genes located in the LTG-associated QTLs, in five japonica rice cultivars and in a biparental family of recombinant inbred lines (RILs). Cold induced changes in the expression of the 10 analyzed genes, with significant differences among genotypes. Variation in LTG phenotype was consistently associated with changes in the pattern of expression of five genes from the tagged regions in rice chromosome 3, which encoded for enzymes implicated in phytohormone metabolism (OsFBK12, Os3Bglu6), oxidative stress (SPL35, OsSRO1c) and Mn homeostasis maintenance (OsMTP8.1). Differential expression induced by cold in two regulatory genes (Os02g0824000 and Os06g06400) also contributed to explain low temperature tolerance during rice germination. In conclusion, introgression in defective cultivars of favorable alleles for these genes would contribute to the genetic improvement of LTG in japonica rice varieties.

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Importance of anther dehiscence for low-temperature tolerance in rice at the young microspore and flowering stages

Crop and Pasture Science ◽

10.1071/cp18212 ◽

2019 ◽

Vol 70 (2) ◽

pp. 113 ◽

Cited By ~ 2

Author(s):

Zuziana Susanti ◽

Peter Snell ◽

Shu Fukai ◽

Jaquie H. Mitchell

Keyword(s):

Low Temperature ◽

Field Experiments ◽

Recombinant Inbred Lines ◽

Temperature Tolerance ◽

Screening Methods ◽

Genotypic Differences ◽

Anther Dehiscence ◽

Low Temperature Tolerance ◽

Temperature Exposure ◽

Low Temperature Exposure

Low temperature, particularly during the reproductive stage in rice (Oryza sativa L.), leads to reduced fertility and yield and is a major constraint faced in temperate rice ecology. The floral trait anther dehiscence length has not been quantified in relation to low-temperature tolerance in rice. Two controlled-temperature glasshouse experiments evaluated 120 genotypes from BC1F6 recombinant inbred lines when exposed to low air temperature at the booting (young microspore) and flowering stages. Genotypic differences existed for spikelet sterility (SS) after low-temperature exposure at booting and flowering stages, and a significant positive correlation (R2=0.22**) was found between SS of individual genotypes at booting and flowering stages. Number of dehisced anthers had the highest correlation with SS, and accounted for 58% and 44% of variation in SS with exposure to low temperature at booting and flowering, respectively. Anther dehiscence length and number of dehisced anthers were highly correlated (r=0.90**). After low-temperature exposure at booting, pollen number in the anther as well as the pollen’s capacity to germinate effectively further differentiated low-temperature-tolerant and -susceptible genotypes. Positive relationships (r=0.56** and 0.46*) between SS in the glasshouse and in field experiments in 2015 and 2016 seasons, respectively, provided validation of the phenotypic glasshouse screening methods utilised for low-temperature tolerance in relation to target production environments. This repeatable phenotyping system in combination with improved understanding of underlying floral traits will lead to increased efficiency in breeding for low-temperature tolerance in rice.

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Cold tolerance in rice varieties at different growth stages

Crop and Pasture Science ◽

10.1071/cp09006 ◽

2009 ◽

Vol 60 (4) ◽

pp. 328 ◽

Cited By ~ 34

Author(s):

C. Ye ◽

S. Fukai ◽

I. Godwin ◽

R. Reinke ◽

P. Snell ◽

...

Keyword(s):

Low Temperature ◽

Cold Tolerance ◽

High Elevation ◽

Temperature Tolerance ◽

Seedling Stage ◽

Growth Stages ◽

Rice Varieties ◽

Low Temperature Tolerance ◽

Wide Range ◽

Different Growth Stages

Low temperature is a common production constraint in rice cultivation in temperate zones and high-elevation environments, with the potential to affect growth and development from germination to grain filling. There is a wide range of genotype-based differences in cold tolerance among rice varieties, these differences often reflecting growth conditions in the place of origin, as well as breeding history. However, improving low temperature tolerance of varieties has been difficult, due to a lack of clarity of the genetic basis to low temperature tolerance for different growth stages of the rice plant. Seeds or plants of 17 rice varieties of different origins were exposed to low temperature during germination (15°C), seedling, booting, and flowering stages (18.5°C), to assess their cold tolerance at different growth stages. Low temperature at the germination stage reduced both the percentage and speed of germination. Varieties from China (B55, Banjiemang, and Lijianghegu) and Hungary (HSC55) were more tolerant of low temperature than other varieties. Most of the varieties showed moderate levels of low temperature tolerance during the seedling stage, the exceptions being some varieties from Australia (Pelde, YRL39, and YRM64) and Africa (WAB160 and WAB38), which were susceptible to low temperature at the seedling stage. Low temperature at booting and flowering stages reduced plant growth and caused a significant decline in spikelet fertility. Some varieties from China (B55, Bangjiemang, Lijiangheigu), Japan (Jyoudeki), the USA (M103, M104), and Australia (Quest) were tolerant or moderately tolerant, while the remaining varieties were susceptible or moderately susceptible to low temperature at booting and flowering stages. Three varieties from China (B55, Lijianghegu, Banjiemang) and one from Hungary (HSC55) showed consistent tolerance to low temperature at all growth stages. These varieties are potentially important gene donors for breeding and genetic studies. The cold tolerance of the 17 rice varieties assessed at different growth stages was correlated. Screening for cold tolerance during early growth stages can therefore potentially be an effective way for assessing cold tolerance in breeding programs.

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