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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. http://dx.doi.org/10.5524/100025 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:

http://cucumber.genomics.org.cn

Accessions (data included in GigaDB):

GENBANK: ACHR00000000
BioProject: PRJNA33619

Genomic, Transcriptomic

http://gigadb.org/images/data/cropped/100025_Cucumis_sativus.jpg

Samples: Table Settings

Columns:

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

Columns:

File Description
Sample ID
File Type
File Format
Size
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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