Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

46 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparison of SND2-overexpressing and wild type Arabidopsis thaliana Col-0 inflorescence stems

ABSTRACT: Homozygous T4 SND2-overexpressing Arabidopsis plants were grown alongside the wild type and the lower 100 mm of primary inflorescence stems sampled at 4 and 8 weeks of age A direct comparison was used (box plot). Three biological replicates and two technical replicates (dye swaps) were included for each experiment

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Steven Hussey

PROVIDER: E-GEOD-29693 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of Arabidiopsis with NST1 over-expression vs wild type

Project description:In plants, secondary wall thickenings play important roles in various biological processes, although the factors regulating these processes remain to be characterized. We show that expression of chimeric repressors derived from NAC SECONDARY WALL THICKENINGS PROMOTING FACTOR1 (NST1) and NST2 in Arabidopsis resulted in an anther dehiscence defect due to loss of secondary wall thickening in anther endothecium. Plants with double, but not single, T-DNA-tagged lines for NST1 and NST2, had the same anther-indehiscent phenotype as transgenic plants that expressed the individual chimeric repressors, indicating that NST1 and NST2 are redundant in regulating secondary wall thickening in anther walls. The activity of the NST2 promoter was particularly strong in anther tissue, while that of the NST1 promoter was detected in various tissues in which lignified secondary walls develop. Ectopic expression of NST1 or NST2 induced ectopic thickening of secondary walls in various above-ground tissues. Epidermal cells with ectopic thickening of secondary walls had structural features similar to those of tracheary elements. However, among genes involved in the differentiation of tracheary elements, only those related to secondary wall synthesis were clearly upregulated. None of the genes involved in programmed cell death was similarly affected. Our results suggest NAC transcription factors as possible regulators of secondary wall thickening in various tissues. Experiment Overall Design: Total RNA was extracted from rosette leaves of two independent 2-week-old T1 plants over-expressing NST1 driven by 35S promoter and the whole transcriptome was compared with that of wild-type plant.

2008-06-12 | E-GEOD-3363 | biostudies-arrayexpress

Genes Differentially Expressed as a Result of Enforced Pokemon Expression in MCF-7 cell

Project description:Pokmeon is an oncogenic transcription factor involved in cell growth, differentiation, and oncogenesis,but its regulatory network in breast cancer cells remians elusive . We used microarray to determine the down stream target genes of pokemon by using the MCF-7 cell line with stable ectopic expression of pokemon. The MCF-7 cell clones with high ectopic expression of pokemon were screened by the Hygromycin B,and the control cell line was also obtained by introducing empty vector .Both the RNA were extracted and hybridized with 22k cDNA spots from CapitalBio, Chin

2011-02-25 | E-GEOD-27442 | biostudies-arrayexpress

Analysis of fluorophore-labeled human cytochrome b5

Project description:Cytochrome b5 (b5) is a small accessory protein involved in several reactions. The interaction of b5 with its partner proteins, e.g., cytochrome P450 enzymes, has received much attention and has been the subject of numerous studies. In order to obtain further insights into protein-protein interactions of b5, we modified it with a green fluorophore, Alexa 488, which has a maleimide linker. The labeling was applied to both WT (without Cys) and the T70C mutant. This study revealed labeled sites in WT b5 and confirmed the Cys-selective labeling in the T70C mutant.

2024-06-22 | PXD047758 | Pride

ESCRT complexes in Giardia intestinalis (VPS36A)

Project description:To assess ESCRT subunit presence, distribution and main interactors, we performed iterative co-immunoprecipitation on recombinant Giardia subunits.

2021-04-10 | PXD016446 | Pride

ESCRT complexes in Giardia intestinalis (VPS20L)

Project description:To access ESCRT subunit presence, distribution and main interactors, we performed iterative co-immunoprecipitation on recombinant Giardia subunits.

2021-04-10 | PXD016442 | Pride

ESCRT complexes in Giardia intestinalis (VPS25)

Project description:To assess ESCRT subunit presence, distribution and main interactors, we performed iterative co-immunoprecipitation on recombinant Giardia subunits.

2021-04-10 | PXD016448 | Pride

Spironucleus salmonicida endocytic interactors

Project description:We probed interactors of S. salmonicida CHC interactors by the means of native co-IP.

2022-04-14 | PXD020201 | Pride

Transcriptomes profile of Solanum tuberosum (St) and Solanum commersonii (Sc) under cold stress and AtCBF3 overexpression.

Project description:St (common potato) is a freezing sensitive species unable to cold acclimate. The close wild relative Sc is freezing tolerant and able to cold acclimate. Here we compare the cold transcriptome of these two species with different levels of freezing tolerance. We also identify the putative CBF regulons by comparing the transcriptomes of wild type plants with that of 35S::AtCBF3 transgenic lines in both species. Plants were grown in 16:8 photoperiod. Eight hours after dawn, plants were either transfered to cold or kept in the warn. Wild type S. tuberosum and S. commersonii were grown at 2oC for 2h, 24h and 7 days. Wild type plants grown under warm temperatures for 2h was used as control for 2h cold samples; wild type warm grown plants for 24h were used as controls for 24h and 7 days cold samples. Under warm conditions, S. commersonii 35S::AtCBF3 lines were compared to S. commersonii wild type plants (same thing was done for S. tuberosum).

2011-04-30 | E-GEOD-22449 | biostudies-arrayexpress

Search for the interactors of Arabidopsis thaliana myosin receptor MRF7

Project description:This project aims at identifying the binding partners of the Arabidopsis thaliana MRF7 protein and of its truncated form ΔMRF7, which lacks a potential protein binding domain DUF593 at the N-terminus. A.thaliana plants stably overexpressing GFP-MRF7 and GFP-ΔMRF7 were generated by ﬂoral dipping of Col-0 plants. Co-immunoprecipitation was carried out using the GFP-Trap®_A beads technology (Chromotek) and samples thus obtained were analysed through Liquid Chromatography-Mass Spectrometry

2022-02-17 | PXD027155 | Pride

Transcription profiling of Arabidopsis wild type and TROL (AT4G01050) knock-out plants

Project description:Here we describe TROL (thylakoid rhodanese-like protein), a nuclear-encoded component of thylakoid membranes that is required for sustaining efficient linear electron flow in vascular plants. Thus, TROL might represent a missing thylakoid membrane linker for the assembly of a ternary complex between FNR, ferredoxin and NADP+. Such a complex is necessary for maintaining photosynthetic redox poise and balancing between several alternative electron-transport pathways of oxygenic photosynthesis. TROL inactivation modulates the expression of 638 nuclear genes, revealing a novel retrograde signaling pathway. Chloroplasts are the major source of NADPH which is exported to the cytosol where it participates in various redox-dependent processes. TROL is most likely the first element in a metabolic signaling pathway which influences the expression of a large set of stress related genes. Among them are O-methyltransferases and anthocyanin 5-aromatic acyltransferase which are highly upregulated. Microarray analysis was performed in order to identify metabolic networks and pathways regulated by the deficient protein TROL. Comparing ATH1 Affymetrix data results, 317 genes were down-regulated and 321 genes were classified as up-regulated, amongst which mostly affected enzymes were catalyses, oxigenases, monooxygenases and reductases involved in the process of photosynthesis.

2009-08-20 | E-MEXP-1783 | biostudies-arrayexpress

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