Genomic data for the domestic cucumber (Cucumis sativus var. sativus L.).
Dataset type: Genomic, Transcriptomic
Data released on November 12, 2011
Huang S; Li R; Zhang Z; Li L; Gu X; Fan W; Lucas WJ; Wang X; Xie B; Ni P; Ren Y; Zhu H; Li J; Lin K; Jin W; Fei Z; Li G; Staub J; Kilian A; van der Vossen EAG; Wu Y; Guo J; He J; Jia Z; Ren Y; Tian G; Lu Y; Ruan J; Qian W; Wang M; Huang Q; Li B; 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 WK; 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
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.
Read the peer-reviewed publication(s):
Han, Y. H., Zhang, Z. H., Liu, J. H., Lu, J. Y., Huang, S. W., & Jin, W. W. (2008). Distribution of the tandem repeat sequences and karyotyping in cucumber (Cucumis sativus L.) by fluorescence in situ hybridization. Cytogenetic and Genome Research, 122(1), 80–88. doi:10.1159/000151320
Huang, S., Li, R., Zhang, Z., Li, L., Gu, X., Fan, W., … Ni, P. (2009). The genome of the cucumber, Cucumis sativus L. Nature Genetics, 41(12), 1275–1281. doi:10.1038/ng.475 (PubMed: 19881527)
Ren, Y., Zhang, Z., Liu, J., Staub, J. E., Han, Y., Cheng, Z., … Huang, S. (2009). An Integrated Genetic and Cytogenetic Map of the Cucumber Genome. PLoS ONE, 4(6), e5795. doi:10.1371/journal.pone.0005795 (PubMed: 19495411)