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Items: 1 to 20 of 6672

1.

Wheat-RegNet: An encyclopedia of common wheat hierarchical regulatory network

(Submitter supplied) Common wheat is one of the most widely cultivated staple crops worldwide. Elucidating the gene regulatory network will provide essential information for mechanism studies and targeted manipulation of gene activity for breeding. However, detecting cis-regulatory elements and transcription factor (TF) bindings in the extremely large intergenic regions of the wheat genome is challenging. Linking cis-regulatory elements and TF binding to target genes is even more difficult given that enhancers can function irrespective of the strand and distance from target genes. more...
Organism:
Triticum aestivum
Type:
Other
Platform:
GPL25409
1 Sample
Download data: TXT
Series
Accession:
GSE207939
ID:
200207939
2.

Investigation of potential targets of TaSPL6-D in wheat

(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
Series
Accession:
GSE245464
ID:
200245464
3.

Impaired innate and adaptive immune responses to BNT162b2 SARSCoV-2 vaccination in systemic lupus erythematosus [CTD]

(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; Escherichia coli; Spodoptera frugiperda; Bos taurus; Homo sapiens; Sus scrofa
Type:
Protein profiling by protein array
Platform:
GPL34257
102 Samples
Download data: TXT, XLSX
Series
Accession:
GSE260478
ID:
200260478
4.

A circadian transcriptional sub-network and EARLY FLOWERING 3 control timing of senescence and grain nutrition in bread wheat

(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
Series
Accession:
GSE259431
ID:
200259431
5.

The TaSnRK1-TabHLH489 module integrates brassinosteroid and sugar signaling to regulate grain length in bread wheat

(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
Series
Accession:
GSE253343
ID:
200253343
6.

Dual RNA-sequencing of Fusarium Head Blight resistance in winter wheat

(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
Series
Accession:
GSE233409
ID:
200233409
7.

Identify miRNAs involved in ER stress in wheat using miRNA sequencing

(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
Series
Accession:
GSE165109
ID:
200165109
8.

Identify targets of miRNAs involved in ER stress in wheat using degradome sequencing

(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
Series
Accession:
GSE165108
ID:
200165108
9.

Heat stress during male meiosis impairs cytoskeletal organization, spindle assembly and tapetum degeneration in wheat

(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
Series
Accession:
GSE244819
ID:
200244819
10.

Low sucrose availability reduces basal spikelet fertility by inducing abscisic acid and jasmonic acid synthesis in wheat

(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
Series
Accession:
GSE250006
ID:
200250006
11.

Identification of Candidate Master Regulators of the Response to Early Heat Stress in Climate-adapted Wheat Landraces via Transcriptomic and Co-expression Network Analyses

(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
Series
Accession:
GSE232367
ID:
200232367
12.

Temporally-coordinated bivalent histone modifications of BCG1 enable fungal invasion and immune evasion

(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:
GPL23509 GPL32260
37 Samples
Download data: BW
Series
Accession:
GSE213962
ID:
200213962
13.

Bivalent histone modification of BCG1 enables fungal pathogen to evade host immunity (RNA-Seq)

(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:
GPL23509 GPL32260
15 Samples
Download data: XLSX
Series
Accession:
GSE213960
ID:
200213960
14.

Wheat stem rust interaction

(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
Series
Accession:
GSE207175
ID:
200207175
15.

LHP1-mediated conditional repression of subgenome-diversified defenses is responsible for the high plasticity of allopolyploid wheat

(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
Series
Accession:
GSE218538
ID:
200218538
16.

Subgenome-specific usage of transposable element-derived promoters and enhancers in bread wheat development

(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
Series
Accession:
GSE198284
ID:
200198284
17.

Genome-wide Identification of Fusarium graminearum-Responsive lncRNAs in Triticum aestivum

(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
Series
Accession:
GSE158213
ID:
200158213
18.

Transcriptomic profile of wheat seed development under progressive drought conditions

(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
Series
Accession:
GSE227374
ID:
200227374
19.

OsPSTOL1 is prevalent in upland rice and enhances root growth and phosphate sufficiency in wheat

(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
Series
Accession:
GSE185875
ID:
200185875
20.

The genome sequencing of Sitopsis species provide insights into its contribution to the B subgenome in Triticum aestivum

(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
Series
Accession:
GSE197593
ID:
200197593
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