GEO DataSets

(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) Early stages of fruit growth from initial set through exponential growth are critical determinants of size and yield, however, there has been little detailed analysis of this phase of development. In this study we combined morphological analysis with 454 pyrosequencing to study gene expression changes occurring in young cucumber fruit at five ages from anthesis through the end of exponential growth. more...

Organism:

Cucumis sativus var. sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15801

6 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) Cucurbits represent an attractive model to explore the dynamics of fruit set. Here we set out to characterize first fruit inhibition (FFI), i.e. the inhibitory effect of the first fruits on subsequent development of younger ovaries during pollination induced fruit set. After the first fertilized ovaries set fruit, younger ovaries fertilized above them on the main stem remained in a temporary state of inhibition. more...

Organism:

Cucumis sativus var. sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24455

11 Samples

Download data: TXT

(Submitter supplied) We used Bio-Rad laboratories, lnc. PCR assay panel to analyze expression levels of MAPK genes in various tissues or organs. Cucumber plants of the ‘Jinyan No.4’ cultivar were reared in growth chambers at 28 ± 1 °C with a photoperiod of 16 h light/8 h dark and light intensity of 400 μmol m−2 s−1. The roots, leaves, stems, female flower buds (approximately 3 d before anthesis), male flower buds (approximately 1.0 cm in length), and fruits (10 d after pollination) were collected from flowering plants for tissue expression analysis.

Organism:

Cucumis sativus

Type:

Expression profiling by RT-PCR

Platform:

GPL20125

6 Samples

Download data: TXT

(Submitter supplied) We used Bio-Rad laboratories, lnc. PCR assay panel to analyze expression levels of MAPK genes under various stress conditions and plant hormone treatments. Cucumber plants of the ‘Jinyan No.4’ cultivar were reared in growth chambers at 28 ± 1 °C with a photoperiod of 16 h light/8 h dark and light intensity of 400 μmol m−2 s−1. Three-week-old seedlings were used for all abiotic and biotic treatments. more...

Organism:

Cucumis sativus

Type:

Expression profiling by RT-PCR

Platform:

GPL20125

28 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 successful fusion of sperms and eggs need firstly the reception of pollens by stigmatic papillae, and then the unobstructed transmitting tract (TT) providing an extension channel for pollen tubes carrying with sperm cells. However, the genes involved in transmitting tract specification and cavity formation in cucumber remained largely unknown. Here, we characterized the bHLH gene, Cucumis sativus SPATULA (CsSPT) and its redundant function with Cucumis sativus ALCATRAZ (CsALC) in TT development and stigma convergence in cucumber.

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26594

12 Samples

Download data: XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17639 GPL13222

36 Samples

Download data: BW

(Submitter supplied) We report the application of laser capture microdissection (LCM) for high resolution transcriptome profiling of the second internode of the Arabidopsis thaliana inflorescence stem. In this series, we used LCM to determine and compare the transcriptome profiles of the phloem cap, the pith, and the remaining vascular bundle area.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13222

6 Samples

Download data: BW, CSV

(Submitter supplied) We report the Fluorescence Activated Nucleus Sorting (FANS)-based RNA sequencing for high resolution transcriptome profiling of the second internode of the Arabidopsis thaliana inflorescence stem. We compared GFP-positive nuclei and GFP negative nuclei from promoter reporter lines expressing Histone 4-GFP (NST3pro:H4-GFP, SMXL5pro:H4-GFP, APLpro:H4-GFP), and compared GFP positive nuclei from seven lines expressing Histone 4-GFP under the control of different tissue-specific promoters (NST3pro:H4-GFP, VND7pro:H4-GFP, PXYpro:H4-GFP, SMXL5pro:H4-GFP, APLpro:H4-GFP, SCRpro:H4-GFP, LTP1pro:H4-GFP).

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

30 Samples

Download data: BW, CSV

(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) Cucumber fruit wart composed of spine and tubercule is an important appearance quality trait, which affects product classification and market value of cucumber fruit. Although several key genes for initiation and development of spine and tubercule have been cloned, their underlying mechanisms and relationships have not been well studied. Here, we identified a cucumber basic Helix-Loop-Helix (bHLH) gene CsHEC2 that was strongly expressed in spines and tubercules of cucumber peel. more...

Organism:

Cucumis sativus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26594

6 Samples

Download data: XLS

(Submitter supplied) Seed abortion is one of the important reasons for the formation of seedless characters in citrus. However, the molecular mechanism of seed abortion in citrus is still unclear. We identified several genes that may play an important role in seed abortion of 'Huagan 4', such as CrWRKY74. The downstream regulatory network of CrWRKY74 was identified based on DAP seq analysis to gain insight into the molecular mechanism related to seed abortion.

Organism:

Citrus reticulata

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL32748

2 Samples

Download data: BW

(Submitter supplied) Seed developmental arrest is one of the early phenotypes of seed abortion. However, the molecular mechanism underlying seed developmental arrest of citrus is still unclear. In this study, laser capture microdissection (LCM) was used to accurately divide the seeds of seedless Ponkan ‘Huagan No.4’ (Citrus reticulata) (HG) and seeded Ponkan ‘Egan No.1’ (Citrus reticulata) (EG) into nucellus and integument/seed coat tissues. more...

Organism:

Citrus reticulata

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30601

36 Samples

Download data: FA, TXT

(Submitter supplied) In this study, we used vascular specific promoters and a translating ribosome affinity purification strategy to identify phloem associated translatomes in Prunus domestica L. Three different promoter:FLAG-RPL18 lines were used. These included two phloem specific promoters (pSUC2 and pSULTR2;2), as well as the more ubiquitously expressed cauliflower mosaic virus 35S promoter (p35S). Immunopurification of ribosome-mRNA complexes was accomplished by the method described in Reynoso et al. more...

Organism:

Prunus domestica

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24729

27 Samples

Download data: TXT