Abstract
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A QTL for cold tolerance at the booting stage of rice cultivar ‘Kuchum’ was detected and delimited into a 1.36 Mb region, and a cold-tolerant line was developed by QTL pyramiding.
Abstract
Low temperature in summer causes pollen sterility in rice, resulting in a serious loss of yield. The second most widely grown rice cultivar in Japan, ‘Hitomebore’, has been developed as a cultivar highly tolerant to low temperature at the booting stage. However, even ‘Hitomebore’ exhibits sterility at a temperature lower than 18.5 °C. Further improvement of cold tolerance of rice is required. In the present study, QTLs for cold tolerance in a Bhutanese rice variety, ‘Kuchum’, were analyzed using backcrossed progenies and a major QTL, named qCT-4, was detected on chromosome 4. Evaluating cold tolerance of seven types of near isogenic lines having ‘Kuchum’ alleles around qCT-4 with a ‘Hitomebore’ genetic background, qCT-4 was delimited to a region of ca. 1.36 Mb between DNA markers 9_1 and 10_13. Homozygous ‘Kuchum’ alleles at qCT-4 showed an effect of increasing seed fertility by ca. 10 % under cold-water treatment. Near isogenic lines of ‘Hitomebore’ having ‘Silewah’ alleles of Ctb1 and Ctb2 and a ‘Hokkai PL9’ allele of qCTB8 did not exhibit higher cold tolerance than that of ‘Hitomebore’. On the other hand, a qLTB3 allele derived from a Chinese cultivar ‘Lijiangxintuanheigu’ increased cold tolerance of ‘Hitomebore’, and pyramiding of the qCT-4 allele and the qLTB3 allele further increased seed fertility under cold-water treatment. Since NILs of ‘Hitomebore’ with the ‘Kuchum’ allele of qCT-4 were highly similar to ‘Hitomebore’ in other agronomic traits, the qCT-4 allele is considered to be useful for developing a cold-tolerant cultivar.
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This work was supported by a grant from the Ministry of Agriculture, Forestry, and Fisheries of JAPAN (Development of a new rice varieties using genomic breeding technology).
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Supplementary Fig. 1. Plant materials for QTL analysis and NIL having qCT-4 with a ‘Hitomebore’ genetic background. a) Recurrent parent is ‘Chiyohonami’. b) Recurrent parent is ‘Hitomebore’ (PDF 118 kb)
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Supplementary Fig. 2. Substituted segments in NILs having Ctb1, Ctb2, and qCTB8 with a ‘Hitomebore’ genetic background. a) The donor of the cold tolerance QTL in groups from S1 to S6 is ‘Silewah’. b) that in groups H1 and H2 is ‘Hokkai PL9’. Boxes and lines represent chromosomal segments of the donor and those of ‘Hitomebore’, respectively. 4S, 4L, 8S, and 8L indicate the short arm (S) and the long arm (L) of chromosome 4 and 8, respectively (PDF 143 kb)
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Supplementary Fig. 3. Frequency distribution of seed fertility in the F2 and BIL populations. F2 population (CKC1) obtained by a cross between ‘Chiyohonami’ and ‘BI6-12’, which is a backcrossed inbred line between ‘Kuchum’ as a donor with ‘Chiyohonami’ as a recurrent parent. b) EBS6. c) EBS8. EBS6 and EBS8 are BC6F4 populations obtained by backcrossings of ‘Kuchum’ as a donor with ‘Hitomebore’ as a recurrent parent (PDF 163 kb)
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Supplementary Table 2. Cold tolerance evaluation of NILs shown in Supplementary Fig. 4. (PDF 55 kb)
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Supplementary Table 3. NILs having Ctb1, Ctb2 and qCTB8 with a ‘Hitomebore’ genetic background (PDF 68 kb)
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Supplementary Table 4. Agronomic traits of NILs having qCT-4 with a ‘Hitomebore’ genetic background (PDF 67 kb)
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Endo, T., Chiba, B., Wagatsuma, K. et al. Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding. Theor Appl Genet 129, 631–640 (2016). https://doi.org/10.1007/s00122-015-2654-2
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DOI: https://doi.org/10.1007/s00122-015-2654-2