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Int. J. Mol. Sci. 2018, 19(5), 1493; https://doi.org/10.3390/ijms19051493

Fine Mapping and Candidate Gene Prediction for White Immature Fruit Skin in Cucumber (Cucumis sativus L.)

1
Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Horticulture and Forestry, Huazhong Agricultural University, Wuhan 430070, China
2
Zhejiang Wuwangnong Academy of Seeds Science Co., Ltd., Hangzhou 310020, China
3
Key Laboratory of Horticultural Plant Biology, Ministry of Education, College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
*
Author to whom correspondence should be addressed.
Received: 5 April 2018 / Revised: 7 May 2018 / Accepted: 8 May 2018 / Published: 17 May 2018
(This article belongs to the Section Molecular Plant Sciences)
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Abstract

In this study, a single recessive gene (designated w0) was identified to control the white immature fruit color. Genetic mapping with simple sequence repeats (SSR) markers located the w0 gene in the distal region of cucumber chromosome 3 (Chr.3). Fine mapping was then conducted using the method of draft genome scaffold-assisted chromosome walking with 7304 F2 individuals, which allowed for the assignment of the gene locus to a 100.3 kb genomic DNA region with two flanking markers, Q138 and Q193. Thirteen candidate genes were predicted in the 100.3 kb region. Quantitative real-time polymerase chain reaction (qRT-PCR) analysis showed that the expression of the Csa3G904140 gene, which encodes a two-component response regulator-like protein, was much higher in the immature fruit skin of the green parental line (Q1) than in the white parental line (H4). A coding sequence analysis suggested that a single-base insertion occurred at the ninth exon, resulting in a frameshift mutation in Csa3G904140 of H4, and the mutation was consistent with the phenotype in 17 green/white germplasms. Therefore, Csa3G904140 was taken as the likely candidate gene controlling the immature fruit color of cultivated cucumber. This study will contribute to the cloning of candidate genes and the development of white cucumber cultivars using marker-assisted breeding. View Full-Text
Keywords: cucumber; a single recessive gene; white immature fruit skin color; qRT-PCR cucumber; a single recessive gene; white immature fruit skin color; qRT-PCR
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Tang, H.-Y.; Dong, X.; Wang, J.-K.; Xia, J.-H.; Xie, F.; Zhang, Y.; Yao, X.; Xu, Y.-J.; Wang, Z.-J. Fine Mapping and Candidate Gene Prediction for White Immature Fruit Skin in Cucumber (Cucumis sativus L.). Int. J. Mol. Sci. 2018, 19, 1493.

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