Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Triticum aestivum

ABSTRACT: Wheat (Triticum aestivum L.) transcriptome profiling

OTHER RELATED OMICS DATASETS IN: E-GEOD-58805

PROVIDER: PRJNA253535 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Transcriptome of Triticum aestivum genotypes associated with resistance against the Wheat dwarf virus

Project description:Purpose: Next-generation sequencing (NGS) has revolutionized systems-based analysis of cellular pathways. The goals of this study are to compare NGS-derived Triticum aestivum transcriptome (RNA-seq) profiling methods and to evaluate genotypes associated with resistance against the Wheat dwarf virus. Methods: Triticum aestivum mRNA profiles of genotypes associated with resistance against the Wheat dwarf virus were generated by deep sequencing, in four replicates, using Illumina. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays. Conclusions: Our study represents the first detailed analysis of Triticum aestivum transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that NGS offers a comprehensive and more accurate quantitative and qualitative evaluation of mRNA and miRNA content within a cell or tissue. We conclude that RNA-seq based transcriptome characterization would expedite genetic network analyses and permit the dissection of complex biologic functions.

2023-04-04 | GSE192518 | GEO

Triticum aestivum strain:cultivar Transcriptome or Gene expression

Project description:The pistillody mutant wheat (Triticum aestivum L.) plant HTS-1 exhibits homeotic transformation of stamens into pistils or pistil-like structures. Unlike common wheat varieties, HTS-1 produces three to six pistils per floret, potentially increasing the yield. Thus, HTS-1 is highly valuable in the study of floral development in wheat. In this study, we conducted RNA sequencing of the transcriptomes of the pistillody stamen (PS) and the pistil (P) from HTS-1 plants, and the stamen (S) from the non-pistillody control variety Chinese Spring TP to gain insights into pistil and stamen development in wheat.

2014-03-14 | E-MTAB-4469 | biostudies-arrayexpress

Triticum aestivum L. (Wheat) MS2

Project description:MS2 data for two Indian varieties of Triticum aestivum L. (Wheat). P1 to P5 files represent MS2 data in positive ESI mode whereas N1 to N5 files represent MS2 data in negative ESI mode.

2023-04-23 | MSV000091783 | MassIVE

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

Project description: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. graminearum. Target analysis showed the lncRNAs participated in various biological stress processes.

2023-09-18 | GSE158213 | GEO

The TriMet_DB: a manually curated database of the metabolic proteins of Triticum aestivum

Project description:Mass spectrometry-based wheat proteomics is challenging because the current interpretation of mass spectrometry data relies on public databases that are not exhaustive (UniProtKB/Swiss-Prot) or contain many redundant and poor or un-annotated entries (UniProtKB/TrEMBL). Here we report the development of a manually curated database of the metabolic proteins of Triticum aestivum (hexaploid wheat), named TriMet_DB (Triticum aestivum Metabolic Proteins DataBase). The manually curated TriMet_DB was generated in FASTA format, so that it can be read directly by programs used to interpret the mass spectrometry data. Furthermore, the complete list of entries included in the TriMet_DB is reported in a freely available resource, which includes for each protein the description, the gene code, the protein family,and the allergen name (if any). To evaluate its performance, the TriMet_DB was used to interpret the mass spectrometry data acquired on the metabolic protein fraction extracted from the MEC cultivar of Triticum aestivum.

2023-03-11 | PXD037709 | Pride

Triticum aestivum

Project description:Triticum aestivum (Synthetic Hexaploid Wheat)

| PRJNA433237 | ENA

ISBP mapping in the physical map of the Triticum aestivum chromosome arm 1BL

Project description:To improve the resources for map-based cloning and sequencing of the wheat genome, we established a physical map of the wheat chromosome 1BL with a high density of markers by hybridizing the newly developed INRA GDEC Triticum aestivum NimbleGen 12x17k ISBP microarray (A-MEXP-2312) with BAC pools from the 1BL physical map. Then, we managed to map 3912 ISBP on the wheat chromosome 1BL BACs. The values in the 'Factor Value[individual]' column represent the BAC pool that have been hybridized on the array. For example, the assay 1 correspond to the hybridization of a bulk of all DNA BAC of the plate 1 of the MTP (Minimum Tilling path) BAC library of the chromosome 1BL.

2013-06-01 | E-MTAB-1657 | biostudies-arrayexpress

Triticum aestivum

Project description:wheat (Triticum aestivum L.) Microarray data

| PRJNA718439 | ENA

Metabolism of halauxifen-methyl is regulated by genes on chromosome 5A of wheat (Triticum aestivum L.) [alien substitution lines]

Project description:Metabolism of halauxifen-methyl is regulated by genes on chromosome 5A of wheat (Triticum aestivum L.) [alien substitution lines]

2023-06-30 | MSV000092320 | MassIVE

Metabolism of halauxifen-methyl is regulated by genes on chromosome 5A of wheat (Triticum aestivum L.) [nullisomic-tetrasomic lines]

Project description:Metabolism of halauxifen-methyl is regulated by genes on chromosome 5A of wheat (Triticum aestivum L.) [nullisomic-tetrasomic lines]

2023-06-23 | MSV000092256 | MassIVE

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data