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Int. J. Mol. Sci. 2018, 19(10), 3140; https://doi.org/10.3390/ijms19103140

A High-Density EST-SSR-Based Genetic Map and QTL Analysis of Dwarf Trait in Cucurbita pepo L.

1
Beijing Key Laboratory of Growth and Development Regulation for Protected Vegetable Crops, College of Horticulture, China Agricultural University, Beijing 100193, China
2
Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Key Laboratory of Biology and Genetic Improvement of Horticultural Crops of Ministry of Agriculture, Sino-Dutch Joint Lab of Horticultural Genomics, Beijing 100081, China
3
Agricultural Genome Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518120, China
These authors contributed equally to this work.
*
Authors to whom correspondence should be addressed.
Received: 19 September 2018 / Revised: 6 October 2018 / Accepted: 10 October 2018 / Published: 12 October 2018
(This article belongs to the Section Molecular Genetics and Genomics)
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Abstract

As one of the earliest domesticated species, Cucurbita pepo (including squash and pumpkin) is rich in phenotypic polymorphism and has huge economic value. In this research, using 1660 expressed sequence tags-simple sequence repeats (EST-SSRs) and 632 genomic simple sequence repeats (gSSRs), we constructed the highest-density EST-SSR-based genetic map in Cucurbita genus, which spanned 2199.1 cM in total and harbored 623 loci distributed in 20 linkage groups. Using this map as a bridge, the two previous gSSR maps were integrated by common gSSRs and the corresponding relationships around chromosomes in three sets of genomes were also collated. Meanwhile, one large segmental inversion that existed between our map and the C. pepo genome was detected. Furthermore, three Quantitative Trait Loci (QTLs) of the dwarf trait (gibberellin-sensitive dwarf type) in C. pepo were located, and the candidate region that covered the major QTL spanned 1.39 Mb, which harbored a predicted gibberellin 2-β-oxidase gene. Considering the rich phenotypic polymorphism, the important economic value in the Cucurbita genus species and several advantages of the SSR marker were identified; thus, this high-density EST-SSR-based genetic map will be useful in Pumpkin and Squash breeding work in the future. View Full-Text
Keywords: Cucurbita pepo; genetic map; EST-SSR; quantitative trait locus (QTL); dwarf; gibberellin (GA); tetraploid Cucurbita pepo; genetic map; EST-SSR; quantitative trait locus (QTL); dwarf; gibberellin (GA); tetraploid
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited (CC BY 4.0).

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Xiang, C.; Duan, Y.; Li, H.; Ma, W.; Huang, S.; Sui, X.; Zhang, Z.; Wang, C. A High-Density EST-SSR-Based Genetic Map and QTL Analysis of Dwarf Trait in Cucurbita pepo L.. Int. J. Mol. Sci. 2018, 19, 3140.

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