GEO DataSets

(Submitter supplied) Drought has become an increasingly important constraint on grapevine sustainability due to global climate change. Vitis riparia, the only grapevine native to the upper Midwest region of the United States, is widely used in scion and rootstock breeding; however, it is not considered drought tolerant. In this study, RNA-Seq data were generated from grapevine root/shoot under WD and well-watered (control (C)) conditions to compare root signaling and shoot responses to water deficit.

Organism:

Vitis riparia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24498

12 Samples

Download data: TXT

(Submitter supplied) Background: Grapevine is a major food crop that is affected by global climate change. Consistent with field studies, dehydration assays of grapevine leaves can reveal valuable information of the plant’s response at physiological, transcript, and protein levels. There are well-known differences in grapevine rootstocks responses to dehydration. We used time-series transcriptomic approaches combined with network analyses to elucidate and identify important physiological processes and network hubs that respond to dehydration in three different grapevine species differing in their drought tolerance. more...

Organism:

Vitis riparia; Vitis vinifera; Vitis x champinii

Type:

Expression profiling by array

Platform:

GPL17894

30 Samples

Download data: PAIR

(Submitter supplied) Background: Abscisic acid (ABA) regulates various developmental processes and stress responses over both short (i.e. hours or days) and longer (i.e. months or seasons) time frames. To elucidate the transcriptional regulation of early responses of grapevine (Vitis vinifera) responding to ABA, different organs of grape (berries, shoot tips, leaves, roots and cell cultures) were treated with 10 μM (S)-(+)-ABA for 2 h. more...

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL17894

10 Samples

Download data: PAIR, TXT, XYS

(Submitter supplied) Salt tolerance in grapevine is associated with the exclusion of chloride ions (Cl–) from the shoot. The rate-limiting step for this process has been identified as the passage of Cl– between the root symplast and the xylem apoplast through membrane integral proteins. To identify candidate genes for these proteins we used a custom microarray to compare the root transcriptomes of three grapevine varieties (Vitis spp.) that differ in their capacity to exclude Cl– from shoots. more...

Organism:

Vitis vinifera; Vitis cinerea var. helleri x Vitis rupestris; Vitis x champinii x Vitis riparia

Type:

Expression profiling by array

Platform:

GPL18706

22 Samples

Download data: TXT

(Submitter supplied) To understand the role of the Arabidopsis type-B Response Regulators ARR1, ARR10 and ARR12 in water stress response, we have carried out comparative expression analysis of the arr1,10,12 mutant and WT plants under dehydration and well-watered (control) conditions. Agilent’s whole Arabidopsis Gene Expression Microarray (G2519F-021169, V4, 4x44K) was used.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by array

Platform:

GPL12621

18 Samples

Download data: TXT

(Submitter supplied) Adventitious root formation at the base of plant cuttings is an innate de novo organogenesis process that allows massive vegetative propagation of many economically and ecologically important species. The early molecular events following shoot excision are not well understood. Using whole-genome microarrays, we detected significant transcriptome remodeling during 48 hours following shoot removal in Populus softwood cuttings in the absence of exogenous auxin, with 27% and 36% of the gene models showing differential abundance between 0 and 6 hours, and 6 and 24 hours, respectively. more...

Organism:

Populus tremula x Populus alba; Populus trichocarpa

Type:

Expression profiling by array

Platform:

GPL7234

39 Samples

Download data: TXT

(Submitter supplied) Grapevine (Vitis vinifera L.) is importantly cultivated worldwide for table grape and wine production. Its cultivation requires irrigation supply, especially in arid and semiarid areas. Water deficiency can affect berry and wine quality mostly depending on the extent of plant perceived stress, which is a cultivar-specific trait. We tested the physiological and molecular responses to water deficiency of two table grape cultivars, Italia and Autumn royal, and we highlighted their different adaptation. more...

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL26142

16 Samples

Download data: TXT

(Submitter supplied) Grapevine (Vitis vinifera L.) is an economically important crop with a wide geographical distribution, reflecting its ability to grow successfully in a range of climates. However, many vineyards are located in regions with seasonal drought, and these are often predicted to be global climate change hotspots. Climate change affects the entire physiology of grapevine, with strong effects on yield, wine quality and typicity, making it difficult to produce berries of optimal enological quality and consistent stability over the forthcoming decades. more...

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL17894

84 Samples

Download data: PAIR

(Submitter supplied) Arbuscular mycorrhizas (AM) are the most common symbiotic associations between plant’s root compartment and fungi. They can provide both nutritional benefit (mostly inorganic phosphate) leading to improved growth and non-nutritional benefits including defense responses to environmental cues throughout the host plant, which in return delivers carbohydrates to the symbiont. However how transcriptional changes occurring in AM leaves differ from those induced by phosphate fertilization is poorly understood. more...

Organism:

Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL21767

16 Samples

Download data: TXT

(Submitter supplied) Global transcriptional analysis of loblolly pine (Pinus taeda L.) is challenging due to limited molecular tools. PtGen2, a 26,496 feature cDNA microarray, was fabricated and used to assess drought-induced gene expression in loblolly pine propagule roots. Statistical analysis of differential expression and weighted gene correlation network analysis were used to identify drought-responsive genes and further characterize the molecular basis of drought tolerance in loblolly pine.

Organism:

Pinus taeda

Type:

Expression profiling by array

Platform:

GPL11184

144 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling comparing untreated berries (control) with berries treated with NAA (1-Naphthalene acetic acid, an auxin) at the preveraison stage.

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL15453

13 Samples

Download data: TXT

(Submitter supplied) Bud endodormancy induction response of two genotypes (‘Seyval’ a hybrid white wine grape and V. riparia, PI588259 a native north american species) was compared under long and short photoperiod. Three separate replicates (5 plants/replicate) were treated in each of 2 separate years (2007 and 2008) to generate paradormant (LD) and same aged endodormancy-induced (SD) buds for transcriptomic, proteomic and metabolomic analysis. more...

Organism:

Vitis vinifera; Vitis hybrid cultivar; Vitis riparia

Type:

Expression profiling by array

Platform:

GPL1320

167 Samples

Download data: CEL

(Submitter supplied) Experimental research on the effects of abiotic stress over grapevine has mainly focused on water shortage. The adaptation of plants to stress is a complex response triggered by cascades of molecular networks involved in stress perception, signal transduction, and the expression of specific stress-related genes and metabolites. Approaches such as array-based transcript profiling allow assessing the expression of thousands of genes in control and stress tissues. more...

Organism:

Vitis vinifera

Type:

Expression profiling by array

Platform:

GPL11004

36 Samples

Download data: CEL

(Submitter supplied) The parasitic lifestyle of parasitic plants relies on the development of a haustorium, a specific infectious organ required for attachment to host roots. While haustorium development is initiated upon chemodetection of host-derived molecules in hemiparasitic plants, the induction of haustorium formation remains largely misunderstood in holoparasitic species such as Phelipanche ramosa. This work demonstrates that the root exudates of the host plant Brassica napus contain allelochemicals displaying a haustorium-inducing activity on P. more...

Organism:

Phelipanche ramosa

Type:

Expression profiling by array

Platform:

GPL23512

8 Samples

Download data: TXT

(Submitter supplied) The important parts of the root system are root hairs, which play a role in mineral and water uptake. Here, we present an analysis of the transcriptomic response to water deficiency of the wild-type (WT) barley cultivar ‘Karat’ and its root hairless mutant rhl1.a. A comparison of the transcriptional changes induced by water stress resulted in the identification of genes whose expression was specifically affected in each genotype. more...

Organism:

Hordeum vulgare

Type:

Expression profiling by array

Platform:

GPL14927

44 Samples

Download data: TXT

(Submitter supplied) E3 ligase BRUTUS (BTS), a putative iron sensor, is expressed in both root and shoot tissues in seedlings of Arabidopsis thaliana. The role of BTS in root tissues has been well established. However, its role in shoot tissues has been scarcely studied. Comparative transcriptome analysis with shoot and root tissues revealed that BTS is involved in regulating energy metabolism by modulating expression of mitochondrial and chloroplast genes in shoot tissues. more...

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

2 Samples

Download data: TXT

(Submitter supplied) Transcriptomes for two types of leaves in R. tricophyllus

Organism:

Ranunculus trichophyllus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21571

6 Samples

Download data: FASTA, TXT, XLSX

(Submitter supplied) Legume plants form symbiotic relationships with diazotrophic bacteria called rhizobia. During such symbiosis, plants provide bacteria with preferred carbon sources such as malate and succinate in return for essential reduced nitrogen. Compatible interactions result in a series of plant root modifications that eventually result in nodule formation. Bacteria living in the nodule cells fix nitrogen via the nitrogenase enzyme complex. more...

Organism:

Glycine max

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23486

9 Samples

Download data: TXT

(Submitter supplied) Genotype, climate, soil qualities, and rootstocks are among the main factors that influence grape development as well as fruit and wine composition. In this work, the rootstock/scion interactions were studied using transcriptomic and metabolic approaches on leaves of Gaglioppo variety, grafted onto thirteen different rootstocks growing in the same locations. The experiments were performed in a vineyard in the south of Italy, characterized by the Mediterranean climate with warm and dry summers. more...

Organism:

Vitis vinifera

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19359

15 Samples

Download data: TXT

(Submitter supplied) Plant hormones interact with each other and regulate gene expression to control plant growth and development. To understand the complex network, accumulation of comprehensive and integrative data of gene expression and hormone concentration is important. Using microarray, global gene expression profile was analyzed to compare with plant hormone concentration in 14 parts of rice at reproductive stage. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

35 Samples

Download data: CEL, CHP