GEO DataSets

(Submitter supplied) Here, we performed the cleavage under targets and tagmentation (CUT&Tag) assay, a recently developed technology for protein-DNA interaction, in protoplasts extracted from wheat root tissues to genome-widely identity the potential targets of TaSPL6-D. Using CUT-Tag-seq, we obtained 7,403 confidential peaks from two biological replicates, with which 2688 genes was associated. Zooming in the promoter region, GTAC motif was significantly enriched in the peaks. more...

Organism:

Triticum aestivum

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25409

3 Samples

Download data: NARROWPEAK

(Submitter supplied) We measued IgG autoantibodies associated with Connective Tissue Diseases (CTDs) and Anti-Cytokine Antibodies (ACA) in SLE and healthy controls who received the BNT162b2 vaccine.

Organism:

Triticum aestivum; Capra hircus; Homo sapiens; Sus scrofa; Escherichia coli; Spodoptera frugiperda; Bos taurus

Type:

Protein profiling by protein array

Platform:

GPL34257

102 Samples

Download data: TXT, XLSX

(Submitter supplied) Bread wheat (Triticum aestivum cv. Mace) mature and senescent flag leaves were collected over a 48 h time course in continuous conditions to investigate changes in circadian clock regulation that occur during leaf senescence.

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23509

96 Samples

Download data: TSV

(Submitter supplied) Regulation of grain size is a crucial strategy for improving crop yield and is also a fundamental aspect of developmental biology. However, the underlying molecular mechanisms governing grain development in wheat remain largely unknown. In this study, we identified a wheat atypical basic helix-loop-helix (bHLH) transcription factor, TabHLH489, which is tightly associated with grain length through genome-wide association study and map-based cloning. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26077

6 Samples

Download data: TXT

(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 demonstrate here that heat stress severely alters the cytoskeletal configuration, cell structure, and global gene expression in male meiocytes and the tapetum layer, in a genotype-dependent manner. ‘Ellvis’, a heat-tolerant winter wheat cultivar, showed high fertility and only scarce structural aberrations upon exposure to high temperature. In addition, heat shock genes and genes involved in the alleviation of reactive oxygen species were significantly upregulated in ‘Ellvis’ and the expression of meiosis-specific and important developmental genes showed high stability in this cultivar. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25409

12 Samples

Download data: TXT

(Submitter supplied) Within a spike of wheat, the central spikelets usually generate three to four fertile florets, while the basal spikelets hardly achieve this. The physiological and transcriptional mechanism behind the difference in fertility between the basal and central spikelets is unclear. This study reports a high temporal-resolution investigation of transcriptomes, number and morphology of floret primordia, and physiological traits. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25409

34 Samples

Download data: TXT

(Submitter supplied) Climate change is not only causing a rise of global temperature but also more variable climates. In major wheat-producing countries, spring temperatures have increased up to 40°C in recent years. Considering the wheat optimal growth temperature of around 20°C, wheat is particularly prone to damage by heat stress. To combat this threat, it is imperative to understand the response of wheat to early heat stress. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25409

30 Samples

Download data: TXT

(Submitter supplied) Bivalent histone modifications, including functionally opposite H3K4me3 and H3K27me3 marks simultaneously on the same nucleosome, control various cellular processes by fine-tuning the gene expression in eukaryotes. However, the role of bivalent histone modifications in fungal virulence remains elusive. Here, we report that bivalent chromatin modification of BCG1 (bivalent chromatin-marked gene1) is critical for Fusarium graminearum (Fg) successfully invading the host plant. more...

Organism:

Triticum aestivum; Fusarium graminearum PH-1

Type:

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

Platforms:

GPL32260 GPL23509

37 Samples

Download data: BW

(Submitter supplied) Bivalent chromatin modification containing opposing H3K4me3 and H3K27me3 marks controls various biological processes by fine-tuning gene expression in animals and plants, however how this bivalent modification regulates pathogenicity of fungal pathogen remains exclusive. Here, we provided a genome-wide landscape of H3K4me3 and H3K27me3 of wheat head blight fungus Fusarium graminearum (Fg), leading to the identification of infection-induced bivalent chromatin-marked genes (BCGs). more...

Organism:

Triticum aestivum; Fusarium graminearum PH-1

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL32260 GPL23509

15 Samples

Download data: XLSX

(Submitter supplied) Stem rust of wheat is a deleterious fungal disease across the globe causing severe yield losses. Although, many stem rust resistance genes (Sr) are being used in wheat breeding programs, new emerging stem rust pathotypes are a challenge to important Sr genes. In recent years, multiple studies on leaf and yellow rust molecular mechanism have been done, however, for stem rust such studies are lacking. more...

Organism:

Triticum aestivum

Type:

Expression profiling by array

Platform:

GPL13636

12 Samples

Download data: TXT

(Submitter supplied) High plasticity of common wheat is attributed to the captured and polyploidization-promoted diversity. However, uncontrolled subgenome diversification can lead to hybrid conflict and dysgenesis, resulting in decreased diversity. How genomic diversity is maintained and interpreted to increase plasticity is unclear. By data-mining from the binding of 193 genome-wide trans-factors and genetic perturbations in common wheat, we identified LHP1 as a major regulator of subgenome-diversified defense genes, enhancer RNAs, and metabolite synthesis-related gene clusters via H3K27me3. more...

Organism:

Triticum aestivum

Type:

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

Platform:

GPL25409

21 Samples

Download data: BW, TXT, XLS

(Submitter supplied) Transcription start site (TSS) is the hub integrating regulatory input from promoters and enhancers. Common wheat converged three subgenomes adapted to different environment and established as a major crop worldwide. Detection of more precise and new TSS of both genes and enhancers in common wheat is the basis in interpreting transcriptional regulatory networks as well as the subgenome divergent regulation in their entirety.

Organism:

Triticum aestivum; Triticum urartu

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing; Other; Non-coding RNA profiling by high throughput sequencing

4 related Platforms

56 Samples

Download data: BED, BW, TXT

(Submitter supplied) We identified the long non-coding RNAs (lncRNAs) in Triticum aestivum infected with Fusarium graminearum by high-throughput RNA sequencing. More than 393 million clean reads were obtained from Illumina Hiseq 4000 system and 126,391 transcripts was identified as high-confidence lncRNAs in T. aestivum against F. graminearum by an integrated approach. Already well over 4,130 of the total 4,276 differentially expressed lncRNAs were specifically expressed at 12 h post-inoculation (hpi), but only 89 of these were specifically expressed at 24 hpi, indicating that the initial stage was the crucial stage for lncRNA-mediated gene regulation of wheat defense against F. more...

Organism:

Triticum aestivum

Type:

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

Platform:

GPL23509

4 Samples

Download data: FA, TXT

(Submitter supplied) To investigate how progressive drought stress affected gene expression during seed development

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25409

83 Samples

Download data: TAR

(Submitter supplied) Improvement of phosphorus (P) uptake by crops is a prerequisite for sustainable agriculture. Rice (Oryza sativa L.) PHOSPHORUS-STARVATION TOLERANCE 1 (OsPSTOL1) increases root growth and total P uptake. Here, a biogeographic survey of rice demonstrates OsPSTOL1 loss in a subset of japonica rice after the temperate-tropical split and frequent absence in paddy varieties of east Asia. OsPSTOL1 absence or loss-of-function alleles prevail in landraces from regions with fertilizer use and controlled irrigation, suggesting it is an adaptive genetic variant in low nutrient rainfed ecosystems. more...

Organism:

Triticum aestivum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26889

72 Samples

Download data: XLSX

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

Organism:

Aegilops speltoides; Amblyopyrum muticum; Triticum dicoccoides; Aegilops bicornis; Aegilops searsii; Aegilops longissima; Triticum aestivum; Aegilops sharonensis

Type:

Expression profiling by high throughput sequencing; Other

8 related Platforms

122 Samples

Download data: TXT, VCF

(Submitter supplied) To reveal the origin of the wheat B sub-genome, we performed the whole genome sequencing of sitopsis species. Besides, we also conducted the RNA seq of Ae.speltoides and hexaploid wheat Chinese Spring.

Organism:

Triticum aestivum; Aegilops speltoides

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL31956 GPL25409

75 Samples

Download data: TXT