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Data released on November 12, 2011

Genomic data for the domestic cucumber (Cucumis sativus var. sativus L.).

Fan, W; Fei, Z; Gu, X; Guo, J; He, J; Huang, S; Jia, Z; Jin, W; Kilian, A; Li, G; Li, J; Li, L; Li, R; Lin, K; Lu, Y; Lucas, W, J; Ni, P; Qian, W; Ren, Y; Ren, Y; Ruan, J; Staub, J; Tian, G; van der Vossen, E, A; Wang, X; Wu, Y; Xie, B; Zhang, Z; Zhu, H; Huang, Q; Li, B; Wang, M; Xuan, Z; Cao, J; Asan, ; Wu, Z; Zhang, J; Cai, Q; Bai, Y; Zhao, B; Han, Y; Li, Y; Li, X; Wang, S; Shi, Q; Liu, S; Cho, W, K; Kim, J; Xu, Y; Heller-Uszynska, K; Miao, H; Cheng, Z; Zhang, S; Wu, J; Yang, Y; Kang, H; Li, M; Liang, H; Ren, X; Shi, Z; Wen, M; Jian, M; Yang, H; Zhang, G; Yang, Z; Chen, R; Liu, S; Li, J; Ma, L; Liu, H; Zhou, Y; Zhao, J; Fang, X; Li, G; Fang, L; Li, Y; Liu, D; Zheng, H; Zhang, Y; Qin, N; Li, Z; Yang, G; Yang, S; Bolund, L; Kristiansen, K; Zheng, H; Li, S; Zhang, X; Yang, H; Wang, J; Sun, R; Zhang, B; Jiang, S; Wang, J; Du, Y; Li, S (2011): Genomic data for the domestic cucumber (Cucumis sativus var. sativus L.). GigaScience. RIS BibTeX Text

Here we present genomic data for the domestic cucumber (Cucumis sativus var. sativus L.). The cucumber is a member of the Cucurbitaceae or cucurbit family, a family of great agricultural and horticultural importance that also includes species such as melons, gourds and squashes. A biologically interesting as well as an economically relevant species, it is used as a model system for plant sex determination and vascular biology studies. The domestic cucumber has seven pairs of chromosomes and a haploid genome of 367 Mb, a smaller genome for the Cucurbitaceae family. The genome was sequenced and assembled with N50 contig and scaffold sizes of 19.8 Kb and 1.14 Mb, respectively. Using the genetic map, 72.8% of the assembled sequences were anchored onto the 7 chromosomes. A total of 26,682 genes were predicted in the current cucumber genome.

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Related manuscripts:

doi:10.1159/000151320 (PubMed: 18931490)
doi:10.1038/ng.475 (PubMed: 19881527)
doi:10.1371/journal.pone.0005795 (PubMed: 19495411)

Genome browser:

Accessions (data included in GigaDB):

BioProject: PRJNA33619

Genomic, Transcriptomic

Samples: Table Settings


Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Cucumber869827Cucumber Cucumis sativus var. sativus
Displaying 1-1 of 1 Sample(s).

Files: (FTP site) Table Settings


File Description
Sample ID
File Type
File Format
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
CucumberOtherEXCEL31.5 KB2011-11-12
CucumberOtherEXCEL29.5 KB2011-11-12
CucumberOtherEXCEL42.5 KB2011-11-12
CucumberOtherEXCEL31 KB2011-11-12
CucumberOtherEXCEL41.5 KB2011-11-12
CucumberOtherEXCEL46 KB2011-11-12
CucumberOtherEXCEL33.5 KB2011-11-12
CucumberOtherEXCEL223.5 KB2011-11-12
CucumberSequence assemblyFASTA67.08 MB2011-11-12
CucumberOtherEXCEL864 KB2011-11-12
Displaying 1-10 of 16 File(s).

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