GEO DataSets

(Submitter supplied) In this study, we used dual RNA-sequencing to profile FHB-resistant AC Emerson, FHB-moderately AC Morley, and FHB-susceptible CDC Falcon winter wheat cultivars prior to and in response to Fusarium graminearum at 7 days post inoculation. Differential expression analyses revealed distinct defense responses between resistant and susceptible wheat cultivars including increased mechanical defense through lignin biosynthesis and increased deoxynivalenol (DON) detoxification through UDP-glycosyltransferase activity in resistant cultivars. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

18 Samples

Download data: TXT

(Submitter supplied) We used dithiothreitol (DTT) and tauroursodeoxycholic acid (TUDCA) to induce or suppress ER stress in wheat cells, respectively, with the aim to reveal the molecular background of ER stress responses using miRNA sequencing. After sequencing, we revealed a total of 1,939 miRNAs involved in the process of ER stress response, including 1,740 known miRNAs and 199 novel miRNAs.

Organism:

Triticum aestivum

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL18862

3 Samples

Download data: XLSX

(Submitter supplied) We used dithiothreitol (DTT) and tauroursodeoxycholic acid (TUDCA) to induce or suppress ER stress in wheat cells, respectively, with the aim to reveal the molecular background of ER stress responses using degradome sequencing. After combined analysis of high-throughput sequencing, a total of 12,453 miRNA-target pairs were verified by degradome sequencing, and among them, 7,484 genes were targeted by 1,233 miRNAs.

Organism:

Triticum aestivum

Type:

Other

Platform:

GPL18862

3 Samples

Download data: XLSX

(Submitter supplied) We present a transcriptomic atlas of abiotic stress tolerance in wheat. We employed a systems biology approach to study physiological, metabolomic and transcriptomic responses associated with heat, drought, salinity and their possible combinations. Our objectives were to (1) rank stress treatments based on the overall physiological and growth impacts, (2) identify the core sets of genes common to a particular stress type, (3) examine pathways that are uniquely expressed in the various stress combinations, (4) detect associations between phenotypic and transcriptomic responses, (5) suggest possible transcription factors for further characterization and use in improving wheat performance in multi-stress environments.

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

32 Samples

Download data: XLSX

(Submitter supplied) Differential gene expression analysis of RNASeq data from flag leaves from Triticum aestivm L. cv Thatcher at different time points and infection statuses upon infection with the leaf rust pathogen Pucinia triticina TBDG (11-180-1).

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL25409 GPL18862

25 Samples

Download data: TSV

(Submitter supplied) We present a high-resolution network of gene expression during meiosis and its regulatory control elements in polyploid wheat. MeioCapture method (Shunmugam et al. 2018 BMC Plant Biology 18: 293) was used for isolating high-purity sporogenous archesporial columns of synchronized male meiocytes from wheat anthers in different meiotic stages. Total RNA extracted from three independent biological replicates per developmental stage of the meiocytes, as well as vegetative flag leaf, young leaves, and reproductive anthers and pollen, was sequenced using Illumina platform, generating 548 million paired-end short mRNA reads. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

45 Samples

Download data: XLSX

(Submitter supplied) This dataset is associated with two publications 1. Elucidating the biochemical basis of trans-16:1 fatty acid change in leaves during cold acclimation in wheat. http://doi.org/10.1002/pei3.10044 In this study, comparative RNA-seq analyses with leaf tissues undergoing cold acclimation reveal concerted transcriptome shifts indicating a reduced chloroplast lipid pathway activity and increased cytosolic ER membrane lipid synthesis. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

24 Samples

Download data: TXT, XLSX

(Submitter supplied) To investigate genome-wide maternal and paternal contributions to polyploid grain development, we produced and analyzed transcriptomes from zygote to mature stage embryos as well as two endosperm stages derived from reciprocal crosses between tetraploid and hexaploid wheats.

Organism:

Triticum aestivum; Triticum turgidum

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18862 GPL26493

144 Samples

Download data: XLSX

(Submitter supplied) We have collected RNA-seq data from the total RNA isolated from the 2-week seedlings of 198 diverse wheat accessions. These accessions were selected among nearly 3,000 lines to represent the broad geographic and genetic diversity of wheat populations. On average, 65.7 million paired-end Illumina reads (2 x 100 bp) were collected for each sample, and after quality trimming were mapped to the wheat reference genome RefSeq v.1.0. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

204 Samples

Download data: TXT

(Submitter supplied) A comparative transcriptomic analysis of the responses arising 24 hours after infection of the susceptible T. aestivum variety ‘Fielder’, by Fg with co-application of either abscisic acid (ABA), gibberellic acid (GA) or the ABA-signaling inhibitor AS6, compared to stand-alone treatments is reported. Relevance of transcriptomic responses were assessed by differential expression feature evaluations (DEFE), highlighting that co-applied GA elicits a relatively strong opposing influence on Fg modulated genes, while co-applied ABA elicits similar responses to Fg. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

35 Samples

Download data: XLSX

(Submitter supplied) Nitrogen (N) is an essential nutrient element for crop productivity. Unfortunately, the nitrogen use efficiency (NUE) of crop plants gradually decreases with the increase of the nitrogen application rate. Nevertheless, little has been known about the molecular mechanisms of differences in NUE among genotypes of wheat. The use of near-isogenic lines (NILs) in transcriptome analysis can reduce genetic background noise. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

12 Samples

Download data: TXT

(Submitter supplied) Wheat seedling root transcritpome under well watered and water limited treatments for two genotypes, Svevo and IL20-2

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

8 Samples

Download data: GFF3, TXT

(Submitter supplied) We have a limited understanding of how the complexity of the wheat genome influences the distribution of chromatin states along the homoeologous chromosomes. Using a differential nuclease sensitivity (DNS) assay, we investigated the chromatin states in the coding and transposon element (TE) -rich repetitive regions of the allopolyploid wheat genome.

Organism:

Triticum aestivum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18862

4 Samples

Download data: BW

(Submitter supplied) In this study, early infection by F. graminearum was characterized in a doubled-haploid population derived from the cross of the moderately FHB resistant wheat genotypes Wuhan 1 and Nyubai. Three significant QTL were identified: 1AL was associated with reduced deoxynivalenol levels, and 4BS and 5A were associated with reduced F. graminearum levels at 2 days after infection. The early resistance alleles for 1AL and 4BS were inherited from Wuhan 1, and those for the 5A QTL were inherited from Nyubai. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

100 Samples

Download data: TXT

(Submitter supplied) we present an atlas of global gene expression as well as the evolutionary divergence covering embryo, endosperm and seed coat development in wheats and their diploid ancestors, providing insights into the evolution of gene expression in embryogenesis and grain development of wheat species.

Organism:

Triticum aestivum; Triticum turgidum; Aegilops speltoides; Aegilops tauschii; Triticum monococcum

Type:

Expression profiling by high throughput sequencing

5 related Platforms

110 Samples

Download data: XLSX

(Submitter supplied) The different parts of wheat grain endosperm at 25 days after anthesis were collected. Transcriptome analysis were conducted to investigate the differentially expressed transcript between inner and puter parts of endosperm. The study provide some useful information for understanding the protein gradient distribution in endosperm.

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

6 Samples

Download data: TXT

(Submitter supplied) Exogenous spermidine promotes starch sugar metabolism in wheat grains, thereby promoting grain filling

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

6 Samples

Download data: TXT

(Submitter supplied) The Reduced Height (Rht) genes formed the basis for the green revolution in wheat by decreasing plant height and increasing productive tillers. There are two current widely used Rht mutant alleles, Rht-B1b and Rht-D1b. Both reduce plant height by 20% and increase seed yield by 5-10%. They are also associated with decreased seed size and protein content. Here we tested the degree to which Rht-B1b impacts flag leaf photosynthetic rates and carbon and nitrogen partitioning to the flag leaf and grain during grain fill under field conditions using near isogenic lines (NILs) that were either standard height (Rht-B1a) or semi-dwarf (Rht-B1b). more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

24 Samples

Download data: ASTAR, XLSX

(Submitter supplied) Purpose: To assess global changes of wheat coleoptiles gene expression in response to fusaoctaxin A which is a linear, C-terminally-reduced and D-amino acid residue-rich octapeptide, as the product of the two non-ribosomal peptide synthetases encoded by Fusarium graminearum fg3_54 cluster. Methods: For RNA seq of wheat coleoptiles, three biological replicates of mock-inoculated coleoptiles, wild-type PH-1 inoculated coleoptiles (3 dpi), ∆fg3_54 inoculated coleoptiles (3 dpi), after 3 hours fusaoctaxin A-treated coleoptiles, after 3 hours control (0.5% Tween-20) treated coleoptiles, after 24 hours fusaoctaxin A-treated coleoptiles and after 24 hours control (0.5% Tween-20) treated coleoptiles were sequenced. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18862 GPL25409

24 Samples

Download data: FA, TXT

(Submitter supplied) To further dissect the molecular basis of tiller generation, we performed an RNA-seq analysis of TaD27-RNAi axillary bud primordia at the three-week old. The axillary buds of wild type KN199 at the same development stage were used as the control. A total of 4,947 differentially expressed genes (DEGs) between the WT and TaD27-RNAi were identified using a fold-change of 2 and FDR<0.05. Among them, 4,124 genes were expressed at a low level, 823 genes were highly expressed in TaD27-RNAi compared to the WT.

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18862

6 Samples

Download data: TXT