Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Arabidopsis thaliana

ABSTRACT: Identification of microRNA targets in Arabidopsis by transcriptome profiling of wild-type and ago1-27 mutant plants

PROVIDER: PRJNA309714 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR3116230.fastq.gz	Fastqsanger.gz
	SRR3116231.fastq.gz	Fastqsanger.gz
	SRR3116226.fastq.gz	Fastqsanger.gz
	SRR3116227.fastq.gz	Fastqsanger.gz
	SRR3116228.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Identification of microRNA targets in Arabidopsis by transcriptome profiling of wild-type and ago1-27 mutant plants

Project description:The goal of this study is to establish the global gene expression profiles of Arabidopsis wild type and ago1-27 mutant plants, and identify novel potential miRNA targets.

2016-01-30 | GSE77211 | GEO

Arabidopsis thaliana

Project description:Identification of microRNA targets in Arabidopsis by transcriptome profiling of wild-type and ago1-36 mutant plants

| PRJNA319770 | ENA

Arabidopsis thaliana

Project description:Degradome sequencing of Arabidopsis ago1-27 mutant

| PRJNA330956 | ENA

Identification of microRNA targets in Arabidopsis by transcriptome profiling of wild-type and ago1-36 mutant plants

Project description:The goal of this study is to establish the global gene expression profiles of Arabidopsis wild type and ago1-36 mutant plants, and identify novel potential miRNA targets.

2016-04-27 | GSE80712 | GEO

Transcriptome comparison of Col-0, se-1, ago1-27 and se-1 35S::MIR156 in Arabidopsis thaliana.

Project description:Microarray analysis of wild type plants and plants with reduced (ago1-27 and se-1) or increased miR156 levels (se-1 p35S:MIR156). Shoot apices were dissected from 20-day-old, short-day grown plants.

2009-06-12 | GSE16061 | GEO

Degradome sequencing of Arabidopsis ago1-27 mutant

Project description:The goal of this study is to globally identify miRNA/siRNA cleavage sites on mRNAs in Arabidopsis wild type and ago1-27 mutant.

2017-10-23 | GSE84728 | GEO

Alternaria brassicicola infection regulates miRNAs in Arabidopsis thaliana [sRNA]

Project description:Plant microRNAs (miRNAs) have been implicated in plant immunity. These mainly focusing Arabidopsis thaliana threatened by (hemi-)biotrophic pathogens such as the bacterial pathogen Pseudomonas syringae. Here, we show that the Arabidopsis miRNA pathway is important for defense responses against the necrotrophic fungus Alternaria brassicicola. The miRNA pathway mutant ago1 exhibits an exaggerated response when treated with A. brassicicola, proposing that AGO1 is positive regulator. We found a subset of Arabidopsis miRNAs that quickly change their expression and their abundance in AGO1 complexes in plants exposed to A. brassicicola. The miRNAs responding to pathogen treatment are mainly targeting genes encoding metabolic enzymes, proteins involved protein degradation or transposons. In case of miR163, A. brassicicola infection results in increased levels of miRNA precursors and preferential accumulation of an unspliced form of pri-miR163, suggesting that A. brassicicola infection changes the transcriptional and post-regulation of pri-miRNAs. miR163 acts as a negative regulator of plant defense because mir163 mutants are more resistant when treated with A. brassicicola. Taken together, our results reveal the existence of positively and negatively acting Arabidopsis miRNA modulating the defense responses against A. brassicicola and highlight the importance of host miRNAs in the interaction between plants and necrotrophic pathogens.

2019-06-17 | GSE83487 | GEO

Alternaria brassicicola infection regulates miRNAs in Arabidopsis thaliana [mRNA]

2019-06-17 | GSE83478 | GEO

Functional analysis of Arabidopsis ARGONAUTE1 using a slicer-defective mutant: Small RNA immunoprecipitation

Project description:The Arabidopsis ARGONAUTE (AGO) protein AGO1 associates with microRNA (miRNA) and specific classes of short-interfering RNA (siRNA). AGO1-small RNA complexes recognize target RNA transcripts through base-pairing interactions and inhibit translation of target RNAs through endonucleolytic cleavage (slicing) or non-degradative mechanisms. The PIWI domain of AGO1 contains a metal-coordinating triad [Asp-Asp-His] (DDH) that is required for slicer activity. Here, we compared the activities of wild type (DDH) and slicer active-site defective (DAH) forms of AGO1 by sequencing small RNA and target transcript RNAs that co-immunoprecipitated with hemagglutinin (HA)-tagged AGO1 proteins. We found that the population of miRNA that associated with both AGO1-DDH and AGO1-DAH proteins largely overlapped, suggesting that cleavage activity does not affect miRNA maturation. In contrast, slicer-defective AGO1-miRNA complexes associated with target RNA more effectively than did wild type AGO1-miRNA. These data indicate that slicer-defective AGO proteins can be used as an approach to capture AGO-small RNA-target RNA ternary complexes more efficiently for genome-wide analyses. AGO1-DDH (wild type) AGO1-DAH (slicer mutant) proteins were immunoprecipitated (N-terminal 3xHA) from Arabidopsis (Columbia) flower (stages 1-12) lysate. Immunoprecipitations were also done from control plants transformed with vector only. Small RNA from immunoprecipitate fractions of vector, AGO1-DDH and AGO1-DAH were sequenced.

2012-09-28 | E-GEOD-40258 | biostudies-arrayexpress

Arabidopsis thaliana mutant sr45-1 inflorescence protein TMT-6

Project description:Arabidopsis thaliana mutant sr45-1 has an altered flower shape. sr45 is a splicing regulator. In this study, we examined the proteins from inflorescence of sr45-1 mutant plants and wild-type. Wild type TMT labels: 126, 128, 130. sr45-1 TMT labels: 127, 129, 131.

2019-04-26 | MSV000083728 | MassIVE

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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