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Mapping of quantitative trait loci controlling seedling vigor in rice (Oryza sativa L.) under submergence

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Abstract

Submergence-induced suppression of seedling vigor is a serious constraint particularly in the direct seeding rice cultivation system. To identify quantitative trait loci (QTLs) associated with seedling vigor in rice under submergence, a mapping population of 98 Backcross Inbred Lines derived from a cross of Nipponbare/Kasalath//Nipponbare was used. Phenotypic evaluation of seedling vigor under submergence was based on shoot length (SHL), root length (RTL) and shoot fresh weight (SFW) using a test tube bioassay method. Thirty-two putative QTLs were detected among which 7 were for SHL, 11 for RTL and 14 for SFW. Phenotypic evaluation was also made of the parental lines and a set of 54 chromosome segment substitution lines in which Nipponbare segments were substituted for by their homologous Kasalath segments covering the entire rice genome. Two QTLs with more than 10 % contribution to the total phenotypic variance were verified for SHL, and at least one for RTL and six for SFW on chromosomes 1, 3, 4, 6 and 7 at the 1 % significance level. Among these, all but two showed reductions in one, two or all three traits. Our present and previous results suggest that the Nipponbare genome has a potential to improve seedling vigor under submergence and that japonica germplasms can be used to breed for this important trait in indica rice.

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Acknowledgments

This work was supported in part by the Ministry of Education, Culture, Sports, Science and Technology, Japan. We thank the National Institute of Agrobiological Sciences, Tsukuba, Japan for kindly providing us with BILs and CSSLs. The experiments comply with the current laws of Japan in which they were performed.

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Authors and Affiliations

  1. Plant Breeding and Biotechnology Division, Philippine Rice Research Institute, Maligaya, Science City of Munoz, Nueva Ecija, Philippines

    O. E. Manangkil

  2. Department of Molecular Biology, Agricultural and Genetics Institute, Pham Van Dong Street, Tuliem, Hanoi, Vietnam

    H. T. T. Vu

  3. Laboratory of Plant Genetics, Department of Biological and Environmental Science, Faculty of Agriculture, and Graduate School of Agricultural Science, Kobe University, 1-1 Rokkodai-cho, Nada-ku, Kobe, 657-8501, Japan

    N. Mori & C. Nakamura

  4. Hyogo Institute of Agriculture, Forestry and Fishery, Kasai, Hyogo, 679-0198, Japan

    S. Yoshida

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  1. O. E. Manangkil
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  2. H. T. T. Vu
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  3. N. Mori
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  4. S. Yoshida
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  5. C. Nakamura
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Correspondence to C. Nakamura.

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Manangkil, O.E., Vu, H.T.T., Mori, N. et al. Mapping of quantitative trait loci controlling seedling vigor in rice (Oryza sativa L.) under submergence. Euphytica 192, 63–75 (2013). https://doi.org/10.1007/s10681-012-0857-z

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  • DOI: https://doi.org/10.1007/s10681-012-0857-z

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