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 x champinii; Vitis vinifera; Vitis riparia

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

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 trichocarpa; Populus tremula x Populus alba

Type:

Expression profiling by array

Platform:

GPL7234

39 Samples

Download data: TXT

(Submitter supplied) Aerenchyma is crucial for plant adaptation to stresses like hypoxia, drought, and nutritional deficiency. Although ethylene-mediated signaling cascades are known to regulate aerenchyma formation under hypoxic conditions, the precise mechanisms are still unclear. Moreover, cellular dynamics underlying the process of aerenchyma formation are still not well understood. We investigated the stage-dependent structural dynamics of aerenchyma in Spirodela polyrhiza (S. more...

Organism:

Spirodela polyrhiza

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33527

13 Samples

Download data: TXT

(Submitter supplied) Differences in root transcriptional profile between two grapevine rootstocks (1103P and SO4) showing different tolerance to Mg deficiency were analyzed after 4 and 14 days of growth with (+Mg) or without (-Mg).

Organism:

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

Type:

Expression profiling by array

Platform:

GPL13936

24 Samples

Download data: PAIR, TXT

(Submitter supplied) We performed a transcriptomic analysis on two tomato genotypes, M82 and Tondo, in response to a PEG-mediated osmotic treatment, mimicking water stress. The analysis was conducted separately on leaves and roots to characterize the specific response of these two organs. A total of 6,267 differentially expressed transcripts related to osmotic stress response was detected. The construction of gene co-expression networks defined the metabolic and signaling pathways of the common and specific responses of leaf and root. more...

Organism:

Solanum lycopersicum

Type:

Expression profiling by array

Platform:

GPL33096

24 Samples

Download data: XLSX

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

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL27660 GPL23013

124 Samples

Download data: BW, TSV

(Submitter supplied) Genomic diversity is a source of transcriptomic and phenotypic diversities. Although genomic variations in rice (Oryza sativa) accessions have been extensively analyzed, information of transcriptomic and phenotypic variations, especially for below-ground variations, are limited. Here, we report the diversities of above- and below-ground traits and transcriptomes in highly diversified 61 rice accessions grown in the upland-field. more...

Organism:

Oryza sativa

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23013

2 Samples

Download data: BW

(Submitter supplied) Genomic diversity is a source of transcriptomic and phenotypic diversities. Although genomic variations in rice (Oryza sativa) accessions have been extensively analyzed, information of transcriptomic and phenotypic variations, especially for below-ground variations, are limited. Here, we report the diversities of above- and below-ground traits and transcriptomes in highly diversified 61 rice accessions grown in the upland-field. more...

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27660

122 Samples

Download data: TSV

(Submitter supplied) The eur1-11 which developed by EMS mutation has no ultradian rhythm in excised leaf. This data set was focused on how EUR and eur1-11 effect on de novo root regeneration.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26208

30 Samples

Download data: TXT

(Submitter supplied) Ultradian rhythm of gene expression in excised leaf.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17639

48 Samples

Download data: TXT