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Identification of QTLs controlling low-temperature germination of the East European rice (Oryza sativa L.) variety Maratteli

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Abstract

Germinability under low temperature is one of the most important traits in seedling establishment in direct-sowing culture of rice. The objective of this study was the identification of genes responsible for higher and faster germination under low temperature, with the aim of breeding new rice varieties for direct-sowing culture. We identified four quantitative trait loci (QTLs) responsible for germination properties under low temperature in an East European rice variety, Maratteli. Maratteli-derived alleles at qLTG3-1 and qLTG3-2 on chromosome 3 and qLTG11-1 on chromosome 11 increased germination rate under low temperature. In contrast, the Maratteli allele at qLTG1-1 on chromosome 1 reduced the rate. Near-isogenic lines (NILs) with the Akitakomachi genetic background harboring qLTG3-1 and qLTG11-1 alleles from Maratteli accelerated germination and a NIL with qLTG1-1 delayed germination under low temperature, resulting in enhanced or suppressed germination rates, respectively. These QTLs altered the germination profile of Akitakomachi. Hence, Maratteli is a better source of genes for the improvement of germination under low temperature. We conclude that the low temperature germinability of various Japanese varieties inferior in this character can be improved by marker-assisted selection without modification of other superior traits. These NILs may also contribute to uncovering the molecular mechanisms of cold tolerance at the germination stage.

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References

  • Akagi H, Yokozeki Y, Inagaki A, Fujimura T (1996) Microsatellite DNA markers for rice chromosomes. Theor Appl Genet 93:1071–1077

    Article  CAS  Google Scholar 

  • Fujino K, Sekiguchi H, Sato T, Kiuchi H, Nonoue Y, Takeuchi Y, Ando T, Lin SY, Yano M (2004) Mapping of quantitative trait loci controlling low-temperature germinability in rice (Oryza sativa L.). Theor Appl Genet 108:794–799

    Article  CAS  Google Scholar 

  • Fujino K, Sekiguchi H, Matsuda Y, Sugimoto K, Ono K, Yano M (2008) Molecular identification of a major quantitative trait locus, qLTG3–1, controlling low-temperature germinability in rice. Proc Natl Acad Sci USA 105:12623–12628

    Article  CAS  Google Scholar 

  • Hospital F (2001) Size of donor chromosome segments around introgressed loci and reduction of linkage drag in marker-assisted backcross programs. Genetics 158:1363–1379

    CAS  PubMed  PubMed Central  Google Scholar 

  • Ikehashi H (1975) Dormancy formation and subsequent changes of germination habits in rice seeds. Japan Agri Res Quar 9:8–12

    Google Scholar 

  • Iwata N, Fujino K (2010) Genetic effects of major QTLs controlling low-temperature germinability in different genetic backgrounds in rice (Oryza sativa L.). Genome 53:763–768

    Article  Google Scholar 

  • Ji SL, Jiang L, Wang YH, Liu SJ, Liu X, Zhai HQ, Yoshimura A, Wan JM (2008) QTL and epistasis for low temperature germinability in rice. Acta Agron Sin 34:551–556

    CAS  Google Scholar 

  • Jiang L, Liu S, Hou M, Tang J, Chen L, Zhai H, Wan J (2006) Analysis of QTLs for seed low temperature germinability and anoxia germinability in rice (Oryza sativa L.). Field Crop Res 98:68–75

    Article  Google Scholar 

  • Kao CH, Zeng ZB, Teasdale RD (1999) Multiple interval mapping for quantitative trait loci. Genetics 152:1203–1216

    CAS  PubMed  PubMed Central  Google Scholar 

  • Kato H, Tezuka K, Feng YY, Kawamoto T, Takahashi H, Mori K, Akagi H (2007) Structural diversity and evolution of the Rf-1 locus in the genus Oryza. Heredity 99:516–524

    Article  CAS  Google Scholar 

  • Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newberg LA (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1:174–181

    Article  CAS  Google Scholar 

  • Li L, Liu X, Xie K, Wang Y, Liu F, Lin Q, Wang W, Yang C, Lu B, Liu S, Chen L, Jiang L, Wan J (2013) qLTG-9, a stable quantitative trait locus for low temperature germination in rice (Oryza sativa L.). Theor Appl Genet 126:2313–2322

    Article  CAS  Google Scholar 

  • Matsumoto S, Masaki S, Kawamoto T, Kodama I (2001) Selection by simple method for improvement of the low temperature emergence ability of rice. Tohoku J Crop Sci 44:49–50

    Google Scholar 

  • McCouch SR, Teytelman L, Xu Y, Lobos KB, Clare K, Walton M, Fu B, Maghirang R, Li Z, Xing Y, Zhang Q, Kono I, Yano M, Fjellstrom R, DeClerck G, Schneider D, Cartinhour S, Ware D, Stein L (2002) Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res 9:199–207

    Article  CAS  Google Scholar 

  • Miura K, Araki H (1996) Low temperature treatment during the imbibition period for the induction of secondary dormancy in rice seeds (Oryza sativa L.). Breed Sci 46:235–239

    Google Scholar 

  • Miura K, Araki H (1999) Effect of temperature during the ripening period on the induction of secondary dormancy in rice seeds (Oryza sativa L.). Breed Sci 49:7–10

    Article  Google Scholar 

  • Miura K, Lin SY, Yano M, Nagamine T (2001) Mapping quantitative trait loci controlling low temperature germinability in rice (Oryza sativa L.). Breed Sci 51:293–299

    Article  CAS  Google Scholar 

  • Miura K, Lin SY, Yano M, Nagamine T (2002) Mapping quantitative trait loci controlling seed longevity in rice (Oryza sativa L.). Theor Appl Genet 104:981–986

    Article  CAS  Google Scholar 

  • Miura K, Lin SY, Araki H, Nagamine T, Kuroki M, Shimizu H, Ando I, Yano M (2004) Gentical studies on germination of seed and seedling establishment for breeding of improved rice varieties suitable for direct seeding culture. Japan Agric Res Q 38:1–5

    Article  Google Scholar 

  • Panaud O, Chen X, McCouch SR (1995) Frequency of microsatellite sequences in rice (Oryza sativa L.). Genome 38:1170–1176

    Article  CAS  Google Scholar 

  • Temnykh S, Park WD, Ayres NM, Cartinhour S, Hauck N, Lipovich L, Cho YG, Ishii T, McCouch SR (2000) Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor Appl Genet 100:697–712

    Article  CAS  Google Scholar 

  • Tezuka K, Miyadate H, Kato K, Kodama I, Matsumoto S, Kawamoto T, Masaki S, Satoh H, Yamaguchi M, Sakurai K, Takahashi H, Satoh-Nagasawa N, Watanabe A, Fujimura T, Akagi H (2010) A single recessive gene controls cadmium translocation in the cadmium hyperaccumulating rice variety Cho-Ko-Koku. Theor Appl Genet 120:1175–1182

    Article  CAS  Google Scholar 

  • Wang S, Basten CJ, Zeng ZB (2004) Windows QTL cartographer 2.5. North Carolina State University, Raleigh

  • Wang Z, Wang F, Zhou R, Wang J, Zhang H (2011) Identification of quantitative trait loci for cold tolerance during the germination and seedling stages in rice (Oryza sativa L.). Euphytica 181:405–413

    Article  Google Scholar 

  • Wu KS, Tanksley SD (1993) Abundance, polymorphism and genetic mapping of microsatellites in rice. Mol Gene Genet 241:225–235

    Article  CAS  Google Scholar 

  • Yamamoto T, Yonemaru J, Yano M (2009) Towards the understanding of complex traits in rice: substantially or superficially? DNA Res 16:141–154

    Article  CAS  Google Scholar 

  • Yoshida S (1981) Fundamentals of Rice Crop Science. International Rice Research Institute, Los Baños

  • Zhang ZH, Qu XS, Wan S, Chen LH, Zhu YG (2005) Comparison of QTL controlling seedling vigor under different temperature conditions using recombinant inbred lines in rice (Oryza sativa). Ann Bot 95:423–429

    Article  CAS  Google Scholar 

Download references

Acknowledgments

We thank Dr. Hisanori Ohta of National Agriculture and Food Research Organization, Agricultural Research Center, for providing seeds of Maratteli rice. This research was supported by a grant from Akita Prefectural University in the industry-academia joint research program.

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Authors and Affiliations

  1. Graduate School of Bioresource Sciences, Akita Prefectural University, Kaidoubata-Nishi 241-438, Shimoshinjyo-Nakano, Akita, 010-0195, Japan

    Tomohiro Satoh & Kouichi Tezuka

  2. Akita Agricultural Experiment Station, Genpachizawa 34-1, Aikawa, Yuwa, Akita, 010-1231, Japan

    Tomohiko Kawamoto & Shinichi Matsumoto

  3. Faculty of Bioresource Sciences, Akita Prefectural University, Kaidoubata-Nishi 241-438, Shimoshinjyo-Nakano, Akita, 010-0195, Japan

    Namiko Satoh-Nagasawa, Kenji Ueda, Kenji Sakurai, Akio Watanabe, Hidekazu Takahashi & Hiromori Akagi

Authors
  1. Tomohiro Satoh
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  2. Kouichi Tezuka
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  3. Tomohiko Kawamoto
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  4. Shinichi Matsumoto
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  5. Namiko Satoh-Nagasawa
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  6. Kenji Ueda
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  7. Kenji Sakurai
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  8. Akio Watanabe
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  9. Hidekazu Takahashi
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  10. Hiromori Akagi
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Correspondence to Hiromori Akagi.

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Satoh, T., Tezuka, K., Kawamoto, T. et al. Identification of QTLs controlling low-temperature germination of the East European rice (Oryza sativa L.) variety Maratteli. Euphytica 207, 245–254 (2016). https://doi.org/10.1007/s10681-015-1531-z

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  • DOI: https://doi.org/10.1007/s10681-015-1531-z

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