GEO DataSets

(Submitter supplied) Changes in the gene expression during exposure to salinity stress were compared among nodal roots, S-type lateral roots, and L-type lateral roots.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19290

6 Samples

Download data: FPKM_TRACKING, TXT

(Submitter supplied) Changes in the gene expression during exposure to salinity stress were compared among nodal roots, S-type lateral roots, and L-type lateral roots.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19290

6 Samples

Download data: FPKM_TRACKING, TXT, XLSX

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

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL13160

8 Samples

Download data

(Submitter supplied) Soil salinity is one of the primary causes of yield decline in rice. Pokkali (Pok) is a highly salt-tolerant landrace whereas IR29, is salt-sensitive but a widely cultivated cultivar. Comparative analysis of these genotypes may offer better understandings of the salinity tolerance mechanism. The published reports largely underscored the importance of transcriptional regulation during salt stress in these genotypes, while, the regulation at translational level is also critically important. more...

Organism:

Oryza sativa

Type:

Other

Platform:

GPL13160

4 Samples

Download data: XLSX

(Submitter supplied) Soil salinity is one of the primary causes of yield decline in rice. Pokkali (Pok) is a highly salt-tolerant landrace whereas IR29, is salt-sensitive but a widely cultivated cultivar. Comparative analysis of these genotypes may offer better understandings of the salinity tolerance mechanism. The published reports largely underscored the importance of transcriptional regulation during salt stress in these genotypes, while, the regulation at translational level is also critically important. more...

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13160

4 Samples

Download data: XLSX

(Submitter supplied) In this study, we aim to present a global view of transcriptome dynamics in different rice cultivars (IR64, Nagina 22 and Pokkali) under control and stress conditions. More than 50 million high quality reads were obtained for each tissue sample using Illumina platform. Reference-based assembly was performed for each rice cultivar. The transcriptome dynamics was studied by differential gene expression analyses between stress treatment and control sample.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9316

7 Samples

Download data: TXT

(Submitter supplied) Dongxiang wild rice (Oryza rufipogon Griff.) is the progenitor of cultivated rice (Oryza sativa L.) and is well known for its superior level of tolerance against cold, drought and diseases. To date, however, little is known about the salt-tolerant character of Dongxiang wild rice. To elucidate the molecular genetic mechanisms of salt-stress tolerance in Dongxiang wild rice, the Illumina HiSeq 2000 platform was used to analyze the transcriptome profiles of the leaves and roots at the seedling stage under salt stress compared with those under normal conditions. more...

Organism:

Oryza rufipogon

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15800

4 Samples

Download data: TXT

(Submitter supplied) Crown and growing point tissue was used for expression analysis in control and salt stressed samples. Targets from biological replicates of both genotypes were generated and the expression profiles were determined using Affymetrix Rice Genome arrays. Keywords: repeat

Organism:

Oryza sativa; Oryza sativa Indica Group

Type:

Expression profiling by array

Dataset:

GDS1383

Platform:

GPL2025

11 Samples

Download data

Analysis of crown and growing point of salt-tolerant (FL478) and salt-sensitive (IR29) genotypes under control and salinity-stressed conditions during vegetative growth. Results provide insight into the genetic basis of salt tolerance in rice.

Organism:

Oryza sativa; Oryza sativa Indica Group

Type:

Expression profiling by array, count, 2 genotype/variation, 2 stress sets

Platform:

GPL2025

Series:

GSE3053

11 Samples

Download data

(Submitter supplied) Purpose:Identification of genes and miRNAs responsible for salt tolerance in upland cotton (Gossypium hirsutum L.) would help reveal the molecular mechanisms of salt tolerance. We performed physiological experiments and transcriptome sequencing (mRNA-seq and small RNA-seq) of cotton leaves under salt stress using Illumina sequencing technology. And quantitative reverse transcription polymerase chain reaction (qRT–PCR) methods and to evaluate protocols for optimal high-throughput data analysis Methods:We investigated two distinct salt stress phases—dehydration (4 h) and ionic stress (osmotic restoration; 24 h)—that were identified by physiological changes of 14-day-old seedlings of two cotton genotypes, one salt tolerant and the other salt sensitive, during a 72-h NaCl exposure. more...

Organism:

Gossypium hirsutum

Type:

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

Platform:

GPL16485

12 Samples

Download data

(Submitter supplied) Analysis of root gene expression of salt-tolerant genotypes FL478, Pokkali and IR63731, and salt-sensitive genotype IR29 under control and salinity-stressed conditions during vegetative growth. Results provide insight into the genetic basis of salt tolerance in indica rice. Keywords: stress response

Organism:

Oryza sativa; Oryza sativa Indica Group

Type:

Expression profiling by array

Platform:

GPL2025

23 Samples

Download data: CEL

(Submitter supplied) With the growing limitations on arable land, alfalfa (a widely cultivated, low-input forage) is now being selected to extend cultivation into saline lands for low-cost biofeedstock purposes. Here, minerals and transcriptome profiles were compared between two new salinity-tolerant North American alfalfa breeding populations and a more salinity-sensitive Western Canadian alfalfa population grown under hydroponic saline conditions. more...

Organism:

Medicago sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22234

27 Samples

Download data: DIFF, FASTA

(Submitter supplied) We report the application of small RNA sequencing (Illumina) technology for the identification of miRNA from root and leaf and flower tissues of pusa basmati rice cultivar grown under normal and salt stress conditions. We used this data to predict and identify known and novel miRNAs.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9316

9 Samples

Download data: TXT

(Submitter supplied) We report the application of small RNA sequencing (Illumina) technology for the identification of miRNA from root and leaf tissues of pokkali rice cultivar grown under normal and salt stress conditions. We used this data to predict and identify known and novel miRNAs.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13160 GPL9316

4 Samples

Download data: TXT

(Submitter supplied) Salinity tolerance is a complex trait and, despite many efforts to obtain rice plants resistant to salt, few results have been achieved since a deeper understanding of the tolerance mechanisms is still needed. We used imaging of photosynthetic parameters, ion analysis and transcriptomic approaches to unveil differences between two rice varieties differing in salt sensitivity. Moreover, we analysed H2O2 production in roots, using a fluorescent probe, and the ensuing gene regulation. more...

Organism:

Oryza sativa Japonica Group

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13834

24 Samples

Download data: TXT

(Submitter supplied) Rice is sensitive to chilling stress, especially at the seedling stage. To elucidate the molecular genetic mechanisms of chilling tolerance in rice, comprehensive gene expressions of two rice genotypes (chilling-tolerant LTH and chilling-sensitive IR29) with contrasting responses to chilling stress were comparatively analyzed. Results revealed distinct global transcription reprogramming between the two rice genotypes under time-series chilling stress and subsequent recovery conditions. more...

Organism:

Oryza sativa

Type:

Expression profiling by array

Platform:

GPL2025

36 Samples

Download data: CEL

(Submitter supplied) Purpose: The goals of this study are to compare differentially expressed transcripts in seedlings of watermelon during salt stress using transcriptome profiling (RNA-seq)

Organism:

Citrullus lanatus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28123

6 Samples

Download data: XLSX

(Submitter supplied) The aim of this study is to assess natural variation in transcriptional responses to salt stress in rice. We utilized a diversity panel (RDP1) described in Zhao et al 2011. Eight day old rice seedlings were subjected to a gradual 6 dS·m-1 salt stress for a period of 24h. RNA seqeuncing was performed on shoot tissue using Illumina HiSeq 2500.

Organism:

Oryza sativa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19290

368 Samples

Download data: TXT