A near-complete genome assembly of cucumber line 6457 and identification of candidate gene controlling pedicel length

Yang Xie , Chenhao Zhang , Jiaojiao Zhang , Jianyu Zhao , Xiaofei Song , Xiaoxiao Lei , Lijin Fan , Xiaoli Li , Jianhua Jia , Chen Wang , Xiaolan Zhang , Liying Yan , Xiaoming Song

Horticulture Research ›› 2025, Vol. 12 ›› Issue (11) : 222

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Horticulture Research ›› 2025, Vol. 12 ›› Issue (11) :222 DOI: 10.1093/hr/uhaf222
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A near-complete genome assembly of cucumber line 6457 and identification of candidate gene controlling pedicel length
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Yang Xie, Chenhao Zhang, Jiaojiao Zhang, Jianyu Zhao, Xiaofei Song, Xiaoxiao Lei, Lijin Fan, Xiaoli Li, Jianhua Jia, Chen Wang, Xiaolan Zhang, Liying Yan, Xiaoming Song. A near-complete genome assembly of cucumber line 6457 and identification of candidate gene controlling pedicel length. Horticulture Research, 2025, 12(11): 222 DOI:10.1093/hr/uhaf222

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Acknowledgments

This work was supported by the S&T Program of Hebei (21326309D) and S&T Program of Hebei (22326308D).

Author contributions

X.S., L.Y., and X.Z., conceived the project and was responsible for the initiation of the project. X.S., Y.X., and L.Y., supervised and managed the project and research. Data generation and collection were performed by X.S., J. Zhao., J. Zhang., X. Li., X. Lei., L.F., J.J., and C.W. Bioinformatics analysis was led by X.S. and C.Z. The manuscript was organized, written, and revised by X.S., Y.X., and X.Z. All the authors read and revised the manuscript.

Data availability

The raw BSA-seq data generated in this study have been deposited in the NCBI Sequence Read Archive (SRA) under BioProject accession PRJNA1301951 (https://dataview.ncbi.nlm.nih.gov/object/PRJNA1301951). All genome annotated data related to this study are available in the TVIR database (http://tvir2.bio2db.com).

Conflict of interest statement

The authors declare no competing interests.

References

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Huang S, Li R, Zhang Z. et al. The genome of the cucumber, Cucumis sativus L. Nat Genet. 2009; 41:1275-81

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Woycicki R, Witkowicz J, Gawronski P. et al. The genome sequence of the north-European cucumber (Cucumis sativus L.) unrav-els evolutionary adaptation mechanisms in plants. PLoS One. 2011; 6:e22728

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Li Q, Li H, Huang W. et al. A chromosome-scale genome assembly of cucumber (Cucumis sativus L.). GigaScience. 2019; 8:1-10

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Tian Y, Li K, Li T. et al. The near-complete genome assembly of pickling cucumber and its mutation library illuminate cucum-ber functional genomics and genetic improvement. Mol Plant. 2025; 18:551-4

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