GEO DataSets

(Submitter supplied) Previous study we have reported the cucumber TEOSINTE BRANCHED1/CYCLOIDEA/PCF (TCP) family gene BRANCHED1 (CsBRC1) as a main transcription factor functions to regulate shoot branching. Here, we found CsBRC1 (CsTCP18b in this study) had a paralogous gene CsTCP18a. To investigate whether the function of CsTCP18a was same as CsTCP18b, we carried out biochemical experiments and genetic transformation. The Real-Time PCR and in situ hybridization showed that CsTCP18a displayed different expression patterns in cucumber compared with CsTCP18b. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: XLSX

(Submitter supplied) Our previous studies have shown that exogenous ethylene (ETH) may induce plant adventitious root development in cucumber. In this study, transcriptome technique was used to explore the key genes in ETH-induced rooting. The results revealed that ETH regulated 1415 diferentially expressed genes (DEGs) during rooting, among which 687 DEGs were up-regulated and 728 DEGs were down-regulated. According to Kyoto encyclopedia of genes and genomes (KEGG) pathway analysis, the critical pathways involved in ETH-induced adventitious root development were selected for further study, including carbon metabolism [starch and sucrose metabolism, glycolysis / gluconeogenesis, citrate cycle (TCA cycle), oxidative phosphorylation, fatty acid biosynthesis and fatty acid degradation], secondary metabolite biosynthesis (phenylalanine metabolism and flavonoid biosynthesis) and plant hormone signal transduction. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

6 Samples

Download data: TXT

(Submitter supplied) Lateral organ development is important for cucumber yield, while the molecular mechanism controlling leaf and floral organ development in cucumber remain elusive. In this report, a novel EMS-mutaginized mutant, round leaf (rl) was distinguished with remarkable round leaf shape, abnormal floral organ and inhibited tendril outgrowth in early development phase. Moreover, the ovule organogenesis disrupted completely in parthenocarpy fruit of rl. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: XLSX

(Submitter supplied) Shoot branching is an important agronomic trait that directly determines plant architecture and affects crop productivity. To promote crop yield and quality, axillary branches need to be manually removed during cucumber production for fresh market and thus are undesirable. Auxin is well known as the primary signal imposing for apical dominance and acts as a repressor for branching outside of the lateral buds. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: XLS

(Submitter supplied) Background. Ovary culture has been a useful way to generate double haploid (DH) plant in cucumber (Cucumis sativus L.). However, the rate of embryo induction and the ability for induced embryo to grow into normal embryo are quite low. Moreover, the s mechanism of cucumber embryogenesis remains ambiguous. In this study, the molecular basis for cucumber embryogenesis was explored to set up basis for a more efficient ovary culture method. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

18 Samples

Download data: TXT

(Submitter supplied) Cucumber (Cucumis sativus L.) is an important vegetable crop bearing fleshy pepo fruits that harvested immature. The fruit length is one of the most important agricultural traits that directly determine the fruit yield and affects fruit quality, but the regulatory mechanism of fruit length variation remains elusive. Here we found a FRUITFULL-like MADS-box gene CsFUL1 functions as a key repressor for fruit length regulation in cucumber. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: TXT

(Submitter supplied) The carpel number (CN) is an important fruit trait affecting fruit shape, size, and internal quality in cucumber. CsCLAVATA3 (CsCLV3) was previously showed to be the simply inherited gene responsible for carpel number variation in cucumber, but the molecular mechanism of CsCLV3 regulating carpel number remains elusive. Here, we found that the expression of CsCLV3 was negatively correlated with carpel number variation in different cucumber lines. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

6 Samples

Download data: TXT

(Submitter supplied) The plant vascular system is essential for the enlarged plant stature and successful colonizzation the land by delivering resources throughout the plants and providing mechanical support. Despite several regulators of vascular patterning have been reported, how vascular system mediates stress resistance remain largely unknown. Here we identified a CsIND transcription factor that is specifically expressed in the xylem and phloem tissues in cucumber. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

8 Samples

Download data: TXT

(Submitter supplied) The cucumber is one of the most important vegetables worldwide and is used as a research model for study of phloem transport, sex determination and temperature-photoperiod physiology. The shoot apex is the most important plant tissue in which the cell fate and organ meristems have been determined. In this study, a series of whole-genome small RNA, degradome and transcriptome analyses were performed on cucumber shoot apical tissues treated with high vs. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing; Other

Platform:

GPL16310

25 Samples

Download data: FA, TXT

(Submitter supplied) DNA methylation is a chemical modification of DNA that can be faithfully inherited across generations in flowering plant genomes. Failure to properly maintain DNA methylation can lead to epigenetic variation and transposon reactivation. Plant genomes are dynamic, spanning large ranges in size and there is an interplay between the genome and epigenome in shaping one another. To understand the variation in genomic patterning of DNA methylation between species, we compared methylomes of numerous diverse angiosperm species. more...

Organism:

Cannabis sativa; Cucumis sativus; Prunus persica; Manihot esculenta; Panicum virgatum; Fragaria vesca; Eucalyptus grandis; Medicago truncatula; Setaria viridis; Sorghum bicolor; Vitis vinifera; Populus trichocarpa; Erythranthe guttata; Eutrema salsugineum; Beta vulgaris; Panicum hallii; Theobroma cacao; Brassica rapa; Malus domestica; Ricinus communis; Brachypodium distachyon; Lotus japonicus; Citrus x clementina

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

30 related Platforms

34 Samples

Download data: TSV

(Submitter supplied) The timing of flower opening is essential for pollination and thus seed production. Despite flower opening has been a long lasting topic for plant biologists, the underling molecular mechansim remains elusive. Here we used a unique cucumber line ‘6457’ that spontaneously produces super ovary with delayed corolla opening as material, and explored the physiological, cytological, nutritional and transcriptomic reasons for the delayed corolla opening in super ovary. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

33 Samples

Download data: TXT

(Submitter supplied) Phloem is essential for higher plant development and survival by transporting photosynthetic products and systemic signals from source to sink organs. To date, most phloem studies were performed with the phloem exudate for physiological, transcriptomic or proteomic analyses. However, as yet, no transcriptomic profiling was performed to the phloem tissue itself, probably due to the technique difficulties to access the phloem tissue inside the plant body. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

6 Samples

Download data: TXT

(Submitter supplied) We define genome-wide temporal expression patterns of root development genes in seven vascular plants, enabling a detailed comparative analysis of the molecular development of a single organ across diverse species.

Organism:

Oryza sativa; Glycine max; Zea mays; Cucumis sativus; Arabidopsis thaliana; Solanum lycopersicum; Selaginella moellendorffii

Type:

Expression profiling by high throughput sequencing

7 related Platforms

60 Samples

Download data: CSV

(Submitter supplied) We generated 17.6 Gb of high-quality sequencing data (~2 Gb per sample) and catalogued the expression profiles of 12,293 annotated cucumber genes in each sample. The analysis showed differences of transcriptomes between physcion and chrysophanol alone treatment and combination treatment as well as revealed that the combination treatment the most defence-related genes induced expression changes. We identified numerous differentially expressed genes that exhibited distinct expression patterns, and defence-related genes that were highly differentiated between the physcion and chrysophanol alone treatment and combination treatment. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

10 Samples

Download data: TXT

(Submitter supplied) Cucumber (Cucumis sativus L.) fruit is a type of fleshy fruit that is harvested immaturely. Early fruit development directly determines the final fruit length and diameter, and consequently the fruit yield and quality. Different cucumber varieties display huge variations of fruit length, but how fruit length is determined at the molecular level remains poorly understood. To understand the genes and gene networks that regulate fruit length in cucumber, high throughout RNA-seq data were used to compare the transcriptomes of early fruit from two near isogenic lines with different fruit lengths. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: FA, TXT

(Submitter supplied) Nitrogen is the most important mineral nutrient of plant. As a worldwide and economically important vegetable, cucumber (Cucumis sativus L.) has a strong nitrogen-dependence. We took whole transcriptome sequencing approach to compare the gene expression profiles of cucumber leaves and roots grown under sufficient or insufficient nitrate supply. Analysis of the transcriptome data revealed that the root and leaf adapt different response mechanisms to long-term nitrogen deficiency. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

4 Samples

Download data: TXT

(Submitter supplied) Trichomes are the hair-like structures that are widely present on the surface of aerial organs and function in plant defense against biotic and abiotic stresses. Previous studies focus on the single cell trichomes in Arabidopsis and cotton, or multicellular glandular trichomes in tomato, but the developmental process and molecular mechanisms controlling multicellular non-glandular trichome development are largely neglected. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

8 Samples

Download data: TXT

(Submitter supplied) Here we performed a transcriptomic study on the effect of sodium nitroprusside (SNP) on cucumber leaves under alkali stress using Solexa/Illumina's high-throughput digital gene expression (DGE) system. Two DGE libraries (from one NaHCO3-treated sample and one NaHCO3 + SNP-treated sample) were constructed, and the gene expression variations between the two samples were compared. Hundreds of differentially expressed genes were obtained by the comparison, and GO analysis of these genes suggested that many biological processes, molecular function, cellular components were related to SNP’s mitigated effect on alkaline stress. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16310

2 Samples

Download data: TXT