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Fine mapping SPP1, a QTL controlling the number of spikelets per panicle, to a BAC clone in rice (Oryza sativa)

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Abstract

Near isogenic lines (NILs) can be used to efficiently handle a target quantitative trait locus (QTL) by blocking genetic background noise. One QTL, SPP1, which controls the number of spikelets per panicle (SPP), was located on chromosome 1, near Gn1a, a cloned gene for rice production in a recombinant inbred line population. NILs of the SPP1 regions were quickly obtained by self-crossing recombinant inbred line 30 which is heterozygous around SPP1. Using a random NIL-F2 population of 210 individuals, we mapped SPP1 to a 2.2-cM interval between RM1195 and RM490, which explained 51.1% of SPP variation. The difference in SPP between the two homozygotes was 44. F2-1456, one NIL-F2 plant, was heterozygous in the SPP1 region but was fixed in the region of Gn1a gene. This plant F3 family showed a very wide variation in SPP, which suggested that it was SPP1 but Gn1a affected the variation of SPP in this population. In a word, SPP1 is a novel gene distinct from Gn1a. Four newly developed InDel markers were used for high-resolution mapping of SPP1 with a large NIL-F2 population. Finally, it was narrowed down to a bacterial artificial chromosome clone spanning 107 kb; 17 open reading frames have been identified in the region. Of them, LOC_Os01g12160, which encodes an IAA synthetase, is the most interesting candidate gene.

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Acknowledgments

This work was supported by a grant from the National Key Program on Basic Research and Development of China, a grant from National Natural Science Foundation of China, and a grant for New Century Excellent Talents from the Education Ministry of China.

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Authors and Affiliations

  1. National Key Laboratory of Crop Genetic Improvement and National Center of Plant Gene Research (Wuhan), Huazhong Agricultural University, 430070, Wuhan, China

    Touming Liu, Donghai Mao, Shengpeng Zhang, Caiguo Xu & Yongzhong Xing

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  1. Touming Liu
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  2. Donghai Mao
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  3. Shengpeng Zhang
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  4. Caiguo Xu
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  5. Yongzhong Xing
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Correspondence to Yongzhong Xing.

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Communicated by H. H. Geiger.

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Liu, T., Mao, D., Zhang, S. et al. Fine mapping SPP1, a QTL controlling the number of spikelets per panicle, to a BAC clone in rice (Oryza sativa). Theor Appl Genet 118, 1509–1517 (2009). https://doi.org/10.1007/s00122-009-0999-0

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