Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

18 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNAseq data of salt treated date palms (Phoenix dactylifera)

ABSTRACT: Two tissues (root and shoot) of a salt tolerant (Khalas) and a salt sensitive (Nabut Saif) variety of date palm (Phoenix dactylifera) were salt treated and compared to control conditions by RNAseq.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Phoenix dactylifera

SUBMITTER: Maxim Messerer

PROVIDER: E-MTAB-11001 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Transcription profiling of two highly salt-tolerant wheat lines, their parental lines, and a salt-sensitive line in salt stress and control growth conditions

Project description:Comparative expression analysis between two highly salt-tolerant wheat lines, their parental lines, and a salt-sensitive line. The Chinese Spring (CS) line is salt sensitive. AJDAj5 and PhI are the two parental lines (with Chinese Spring background), and both have some salt-tolerance. W4909 and W4910 are two lines derived from crossing AJDAj5 and PhI, and both are more salt tolerant than either parental line.

2007-07-26 | E-MEXP-971 | biostudies-arrayexpress

Unraveling epigenetic changes in A. thaliana calli: Impact of HDAC inhibitors

Project description:The aim was to characterize epigenetic changes in histone proteins during callus formation from roots and shoots of Arabidopsis thaliana seedlings using mass spectrometry-based approach. Increased level of histone H3.3 variant was found to be the most prominent feature of 20-day-old calli, associated with chromatin relaxation. Methylation status in root- and shoot-derived calli reached the same level during long-term propagation, whereas differences in acetylation levels provided a long-lasting imprint of root and shoot origin. On the other hand, epigenetic signs of origin completely disappeared during 20 days of calli propagation in the presence of histone deacetylase inhibitors (HDACi), sodium butyrate and trichostatin A, although each HDACi affected the state of post-translational histone modifications in a specific manner.

2024-01-26 | PXD046788 | Pride

RNA-seq of neonatal mouse ventricular cardiomyocytes treated with novel chemical inhibitor

Project description:This experiment investigated the effects of the novel bromodomain inhibitor 3i-1248 in neonatal mouse ventricular cardiomyocytes with and without neurohormonal stimulation with ET-1.

2023-06-01 | E-MTAB-12741 | biostudies-arrayexpress

Transcription profiling of Medicago truncatula after salt stress treatment to the root tips and untreated control plants

Project description:A Salt stress (100mM) was applied to root tips of Medicago truncatula (Jemalong A17 genotype) for 1h. Microarrays were used to compare the transcriptome of these plants (4 replicates) with the transcriptome of control plants, not submitted to the salt stress (4 replicates)

2009-01-14 | E-MEXP-1441 | biostudies-arrayexpress

Transcription profiling of Populus trichocarpa roots in response to species diversity levels

Project description:Changes in gene expression in P. trichocarpa leaves was measured in response to growth competition by P. x canescens.Square petri dishes (12 x 12 cm) were filled autoclaved sand, 3 plantlets and Woody Plant Medium (WPM). In each petri dish we are growing 3 plantlets. As control 3 plantlets of P. trichocarpa and for the experiment a mixture of P. canescens and P. trichocarpa were P. trichocarpa is all the time the middle plantlet.

2015-05-22 | E-MEXP-3909 | biostudies-arrayexpress

Transcription profiling of Populus trichocarpa leaves in response to species diversity levels

2015-05-22 | E-MEXP-3910 | biostudies-arrayexpress

Short Gradient Multi-CV FAIMSpro BoxCar DIA Facilitates Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana - Abiotic Stress Dataset

Project description:A major limitation in quantitative time-course proteomics is the tradeoff between depth-of-analysis and speed-of-analysis. In high complexity, high dynamic samples such as plant extracts, this is tradeoff is especially apparent. To address this, we evaluate multiple composition voltage (CV) High Field Asymetric Waveform Ion Mobility Spectrometry (FAIMSpro) settings using the latest label-free, single-shot Orbitrap-based DIA acquisition workflows for their ability to deeply-quantify the Arabidopsis thaliana seedling proteome at microliter per minute flow rates. Using a micro-flow BoxCar DIA acquisition workflow with -30, -50, -70 CV FAIMSpro settings we are able to consistently quantify >5000 Arabidopsis seedling proteins over a 21-minute gradient, facilitating the analysis of ~48 samples per day. Utilizing this acquisition approach, we next performed an abiotic stress time-course experiment, whereby we quantified proteome-level changes occurring in Arabidopsis seedling shoots and roots over 24 h of salt and osmotic stress. Here, we successfully quantify over >6400 shoot and >8500 root protein groups, respectively, quantifying nearly 9700 unique protein groups total across the study. Collectively, we pioneer a fast-flow, multi-CV FAIMSpro BoxCar DIA acquisition workflow that represents an exciting new analysis approach for quantitative time-course proteomics experimentation in plants.

2024-01-26 | PXD039004 | Pride

Short Gradient Multi-CV FAIMSpro BoxCar DIA Facilitates Quantitative Time-Course Analysis of Osmotic and Salt Stress in Arabidopsis thaliana – Technical Dataset

2024-01-26 | PXD038989 | Pride

To invesigate the role of autophagy in Arabidopsis shoot cellular protein turnover and proteomstasis (15N Spike-in shoot)

Project description:Protein turnover analysis using partial 15N labelling and protein abundance analysis using 15N spike-in were coupled to investiage the role of autophagy in protein degradation and proteostasis. Our findings show that dysfuncional autophagy due to loss-of-function autophagy components ATG5 and 11 lead to accumulation of protein targets with/without starvation stress. Further protein turnover analysis uncover a subgroup of proteins with retarded degradation. New selective autophagy protein targets involving glycolytic proteins were uncovered by this strategy. Furthermore, we found plasma membrane and cytoskeleton proteins show a general reduction, supporting the cross-interaction between autopahgy and vesicle trafficking pathway. Metabolomics changes in autophagy mutants due to a changed proteostasis was further investigated.

2022-10-13 | PXD010948 | Pride

To invesigate the role of autophagy in Arabidopsis root cellular protein turnover and proteostasis (15N Spike-in root)

2022-07-12 | PXD010992 | Pride

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