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QTLs of cold tolerance-related traits at the booting stage for NIL-RILs in rice revealed by SSR

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Abstract

QTLs for cold tolerance-related traits at the booting stage using balanced population for 1525 recombinant inbred lines of near-isogenic lines (viz.NIL-RILs for BC5F3 and BC5F4 and BC5F5) over 3 years and two locations by backcrossing the strongly cold-tolerant landrace (Kunmingxiaobaigu) and a cold-sensitive cultivar (Towada) was analyzed. In this study, 676 microsatellite markers were employed to identify QTLs conferring cold tolerance at booting stage. Single marker analysis revealed that 12 markers associated with cold tolerance on chromosome 1, 4 and 5. Using a LOD significance threshold of 3.0,compositive interval mapping based on a mixed linear model revealed eight QTLs for 10 cold tolerance-related traits on chromosomes 1, 4, and 5. They were tentatively designatedqCTB-1-1, qCTB-4-1, qCTB-4-2, qCTB-4-3, qCTB-4-4, qCTB-4-5, qCTB-4-6, andqCTB-5-1. The marker intervals of them were narrowed to 0.3-6.8 cM. Genetic distances between the peaks of the QTL and nearest markers varied from 0 to 0.04 cM. We were noticed in some traits associated cold tolerance, such asqCTB-1-1 for 5 traits (plant height, panicle exsertion, spike length, blighted grains per spike and spikelet fertility),qCTB-4-1 for 8 traits (plant height, node length under spike, leaf length, leaf width, spike length, full grains per spike, total grains per spike and spikelet fertility),qCTB-4-2 for 3 traits (spike length, full grains per spike and spikelet fertility),qCTB-5-1 for 5 traits (plant height, panicle exsertion, blighted grains per spike, full grains per spike and spikelet fertility). The variance explained by a single QTL ranged from 0.80 to 16.80%. Three QTLs (qCTB-1-1, qCTB-4-1, qCTB-4-2) were detected in two or more trials. Our study sets a foundation for cloning cold-tolerance genes and provides opportunities to understand the mechanism of cold tolerance at the booting stage.

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Authors and Affiliations

  1. Biotechnology and Genetic Resources Institute, Yunnan Academy of Agricultural Sciences, 650205, Kunming, China

    Yawen Zeng, Shuming Yang, Juan Du, Xiaoying Pu, Zaiquan Cheng & Xingqi Huang

  2. School of Life Sciences, Yunnan University, 650001, Kunming, China

    Hong Cui

  3. School of Agronomy and Biotechnology, Yunnan Agricultural University, 650201, Kunming, China

    Yawen Zeng & Xiaojuan Yang

  4. China Agricultural University, 100094, Beijing, China

    Liming Xu & Zichao Li

Authors
  1. Yawen Zeng
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  2. Shuming Yang
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  3. Hong Cui
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  4. Xiaojuan Yang
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  5. Liming Xu
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  6. Juan Du
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  7. Xiaoying Pu
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  8. Zichao Li
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  9. Zaiquan Cheng
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  10. Xingqi Huang
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Correspondence to Yawen Zeng.

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Zeng, Y., Yang, S., Cui, H. et al. QTLs of cold tolerance-related traits at the booting stage for NIL-RILs in rice revealed by SSR. Genes & Genomics 31, 143–154 (2009). https://doi.org/10.1007/BF03191147

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  • DOI: https://doi.org/10.1007/BF03191147

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