Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding

Takashi Endo, Bunya Chiba, Kensuke Wagatsuma, Kenichi Saeki, Tsuyu Ando, Ayahiko Shomura, Tatsumi Mizubayashi, Tadamasa Ueda, Toshio Yamamoto, Takeshi Nishio

Research output: Contribution to journalArticle

17 Citations (Scopus)

Abstract

Key message: 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.

Original languageEnglish
Pages (from-to)631-640
Number of pages10
JournalTheoretical And Applied Genetics
Volume129
Issue number3
DOIs
Publication statusPublished - Mar 1 2016
Externally publishedYes

Fingerprint

cold tolerance
quantitative trait loci
Alleles
alleles
rice
cultivars
isogenic lines
Water Purification
water treatment
Infertility
Temperature
Fertility
Seeds
Oryza
temperature
Chromosomes, Human, Pair 4
seeds
agronomic traits
genetic background
Pollen

ASJC Scopus subject areas

  • Biotechnology
  • Agronomy and Crop Science
  • Genetics

Cite this

Endo, T., Chiba, B., Wagatsuma, K., Saeki, K., Ando, T., Shomura, A., ... Nishio, T. (2016). Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding. Theoretical And Applied Genetics, 129(3), 631-640. https://doi.org/10.1007/s00122-015-2654-2

Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding. / Endo, Takashi; Chiba, Bunya; Wagatsuma, Kensuke; Saeki, Kenichi; Ando, Tsuyu; Shomura, Ayahiko; Mizubayashi, Tatsumi; Ueda, Tadamasa; Yamamoto, Toshio; Nishio, Takeshi.

In: Theoretical And Applied Genetics, Vol. 129, No. 3, 01.03.2016, p. 631-640.

Research output: Contribution to journalArticle

Endo, T, Chiba, B, Wagatsuma, K, Saeki, K, Ando, T, Shomura, A, Mizubayashi, T, Ueda, T, Yamamoto, T & Nishio, T 2016, 'Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding', Theoretical And Applied Genetics, vol. 129, no. 3, pp. 631-640. https://doi.org/10.1007/s00122-015-2654-2
Endo, Takashi ; Chiba, Bunya ; Wagatsuma, Kensuke ; Saeki, Kenichi ; Ando, Tsuyu ; Shomura, Ayahiko ; Mizubayashi, Tatsumi ; Ueda, Tadamasa ; Yamamoto, Toshio ; Nishio, Takeshi. / Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding. In: Theoretical And Applied Genetics. 2016 ; Vol. 129, No. 3. pp. 631-640.
@article{2e35fa534ce749b989f5451e45e2a37e,
title = "Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding",
abstract = "Key message: 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.",
author = "Takashi Endo and Bunya Chiba and Kensuke Wagatsuma and Kenichi Saeki and Tsuyu Ando and Ayahiko Shomura and Tatsumi Mizubayashi and Tadamasa Ueda and Toshio Yamamoto and Takeshi Nishio",
year = "2016",
month = "3",
day = "1",
doi = "10.1007/s00122-015-2654-2",
language = "English",
volume = "129",
pages = "631--640",
journal = "Theoretical And Applied Genetics",
issn = "0040-5752",
publisher = "Springer Verlag",
number = "3",

}

TY - JOUR

T1 - Detection of QTLs for cold tolerance of rice cultivar ‘Kuchum’ and effect of QTL pyramiding

AU - Endo, Takashi

AU - Chiba, Bunya

AU - Wagatsuma, Kensuke

AU - Saeki, Kenichi

AU - Ando, Tsuyu

AU - Shomura, Ayahiko

AU - Mizubayashi, Tatsumi

AU - Ueda, Tadamasa

AU - Yamamoto, Toshio

AU - Nishio, Takeshi

PY - 2016/3/1

Y1 - 2016/3/1

N2 - Key message: 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.

AB - Key message: 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.

UR - http://www.scopus.com/inward/record.url?scp=84958898350&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84958898350&partnerID=8YFLogxK

U2 - 10.1007/s00122-015-2654-2

DO - 10.1007/s00122-015-2654-2

M3 - Article

C2 - 26747044

AN - SCOPUS:84958898350

VL - 129

SP - 631

EP - 640

JO - Theoretical And Applied Genetics

JF - Theoretical And Applied Genetics

SN - 0040-5752

IS - 3

ER -