Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative proteomics revealed the role of RNase L inhibitor 2 (RLI2) in plant development

ABSTRACT: To understand the phenotypes and elucidate the regulatory function of RLI2, seedlings of 7 days after germination from wild type (WT) and rli2 knockdown (RLI2-RNAi) were harvested for proteomics analysis, each group of samples has two replicates. Using 4D-label-free quantitative proteomics approach to analysis.

ORGANISM(S): Arabidopsis Thaliana

SUBMITTER: Wenhui Lin

PROVIDER: PXD037969 | iProX | Sat Nov 05 00:00:00 GMT 2022

REPOSITORIES: iProX

ACCESS DATA

Json Xml

Similar Datasets

RNA-seq time series of adventitious root development in Populus ussuriensis

Project description:For the RNA-seq experiments, two-week-old seedlings were cutting and harvested the basal ends of stem cuttings (0.5 cm). Samples were collected from two biological replicates (40 cuttings each).

2024-06-01 | GSE133250 | GEO

Transcriptome analysis of embryonic axes of soybean seeds germinating in the presence of the gibberellin (GA) biosynthesis inhibitor paclobutrazol (PBZ)

Project description:Purpose: A time-course transcriptome study to identify probable GA-responsive genes in soybean embryonic axes during seed germination. Methods: Seeds were germinated in the presence or absence of 200 µM PBZ. Seeds were germinated in 28°C temperature and 12/12h photoperiod (dark/light) and harvested at 12, 24 and 36 hours after imbibition (HAI). Three biological replicates were performed. Results: Identification of GA-responsive genes during germination in Glycine max.

2019-07-26 | GSE112872 | GEO

transcriptomic analysis of the effects of low levels of atrazine and by-products-Molecular analysis of signal transduction mechanisms involved in plant – organic pollutant interactions.

Project description:au15-04_xeno - transcriptomic analysis of the effects of low levels of atrazine and by-products - Identification of xenobiotic direct sensing and of low chemical stress transduction networks in Arabidopsis thaliana. - Seeds of Arabidopsis thaliana (Columbia ecotype, Col-0) were surfaced-sterilized in bayrochlore/ethanol (1/1, v/v), rinsed in absolute ethanol and dried overnight. Germination and growth were carried out under axenic conditions in square Petri dishes. After seeds were sowed, Petri dishes were placed in the dark at 4 °C for 72 h in order to break dormancy and homogenize germination, and were then transferred to a control growth chamber at 22 °C/20 °C under a 16 h light (6000 lux)/8 h dark regime. Growth medium consisted of 0.8% (w/v) agar in Hoagland basal salt mix (H2395, Sigma-Aldrich) adjusted to pH 6. After 13 days of growth under optimal conditions, seedlings were transferred to fresh growth medium containing pesticides during 24 h (Control, Atrazine 1µM, Hydroxyatrazine 1µM or Desethylatrazine 1µM). Then control and treated seedlings were harvested and ground in liquid nitrogen until RNA extraction by RNeasy kit (Qiagen) and DNase digestion. RNA was extracted on at least 2 independent biological replicates of 30 pooled plantlets.

2016-11-01 | GSE88788 | GEO

The calmodulin-like protein, CML39, is involved in regulating seed development, germination, and fruit development in Arabidopsis

Project description:In addition to the evolutionarily-conserved Ca2+ sensor, calmodulin (CaM), plants possess a large family of CaM-related proteins (CMLs). Using a cml39 loss-of-function mutant, we investigated the roles of CML39 in Arabidopsis and discovered a range of phenotypes across developmental stages and in different tissues. In mature plants, loss of CML39 results in shorter siliques, reduced seed number per silique, and reduced number of ovules per pistil. We also observed changes in seed development, germination, and seed coat properties in cml39 mutants in comparison to wild-type plants. Using radicle emergence as a measure of germination, cml39 mutants showed more rapid germination than wild-type plants. In marked contrast to wild-type seeds, the germination of developing, immature cml39 seeds was not sensitive to cold-stratification. In addition, germination of cml39 seeds was less sensitive than wild-type to inhibition by ABA or by treatments that impaired gibberellic acid biosynthesis. Tetrazolium red staining indicated that the seed-coat permeability of cml39 seeds is greater than that of wild-type seeds. RNA sequencing analysis of cml39 seedlings suggests that changes in chromatin modification may underlie some of the phenotypes associated with cml39 mutants, consistent with previous reports that orthologs of CML39 participate in gene silencing. Aberrant ectopic expression of transcripts for seed storage proteins in 7-day old cml39 seedlings was observed, suggesting mis-regulation of early developmental programs. Collectively, our data support a model where CML39 serves as an important Ca2+ sensor during ovule and seed development, as well as during germination and seedling establishment.

2018-05-01 | GSE108898 | GEO

Comparison of isogenic lines differing in vernalization requirement

Project description:Gene expression was assyed in seedlings of isogenic barley lines differing in vernalization requirement. Seedlings were harvested after 5 days germination in darkness at 20 degrees. Seedlings were then subjected to 1 day at 4 degrees after 5 days germination in darkness at 20. Genotypes include the winter barley parent Dairokakku, and isogenic lines carrying a deletion of VRN2, active VRN1 allleles (VRN1-10, or VRN1-8) or an active allele of FT1/VRN3. ****[PLEXdb(http://www.plexdb.org) has submitted this series at GEO on behalf of the original contributor, Ben Trevaskis. The equivalent experiment is BB97 at PLEXdb.]

2016-01-23 | GSE43704 | GEO

RNA-Seq timeseries of Adventitious root development in Populus ussuriensis

Project description:For the RNA-seq experiments two week-old seedlings were cutting and subsequently transfer to 1/2 MS medium with or without 1 μM MeJA at 2 time points over a 1-h period and harvested the basal ends of stem cuttings (0.5 cm). Samples were collected from two biological replicates (40 cuttings each).

2020-07-24 | GSE117619 | GEO

Robust transcriptional indicators of plant immune cell death revealed by spatio-temporal transcriptome analyses

Project description:We aim to monitor global transcriptomic changes during the HR in Arabidopsis Col-0 leaf upon localized infiltration of Pst DC3000 (avrRpm1) (5*107cfu/mL) and mock (10 Mm MgCl2) in a spatio-temporal manner. The infiltrated cells were harvested in parallel with the immediately adjacent uninfected cells. Samples were collected at 0,1,2,4,6 post-inoculation in three biological replicates.

2022-05-23 | GSE198022 | GEO

RNA-seq analysis of gene expression in wild type and rli2 RNAi seedlings

Project description:To investigate the differential gene expression between wild type and rli2 RNAi, we collected samples of the seedlings from WT and rli2 RNAi plants with three biological replicates to perform RNA-seq assay.

2023-06-19 | GSE214800 | GEO

Transcript profiling in Arabidopsis gollum mutant: Role of the Gollum gene in the plant development

Project description:rs07-08_gollum - trancript profiling in arabidopsis gollum mutant. Elucidate the role of Gollum gene in the plant development by a RNAi approach. Seeds of WT and RNAi lines were sowed on soil and conserved 2 days at 4°C. The pots were transferred to the greenhouse under long-day conditions (16h light, 22°C). The leaves of one-month old plants were harvested and total RNA were extracted. Keywords: wt vs mutant comparison

2008-11-01 | GSE13417 | GEO

The Arabidopsis Zinc Finger Protein 3 integrates ABA and light signaling in seed germination and plant development

Project description:ZFP3, a nuclear C2H2 zinc finger protein acts as a negative regulator of ABA- suppressed germination. Regulated over-expression of ZFP3 and closely related ZFP1, ZFP4, ZFP6 and ZFP7 confers ABA insensitivity to seed germination while the zfp3,zfp4 double mutant displays enhanced ABA susceptibility. Reduced expression of a large set of ABA-induced genes such as RAB18 and transcription factors ABI3, ABI4, ABI5 and RGL2 in ZFP3ox seedling suggests that ZFP3 indeed negatively regulates ABA signaling. Analysis of ZFP3ox plants revealed multiple phenotypic alterations such as semidwarf growth habit, defects in fertility and enhanced sensitivity of hypocotyl elongation to red but not to far-red or blue light. Analysis of genetic interactions with phytochrome and abi mutants suggested that ZFP3 amplifies red light signals perceived by photoreceptors other than phyB, and controlled by ABI5 downstream of ZFP3. Comparison of ZFP3 overexpressing and wild type Arabidopsis seedlings

2014-01-01 | E-GEOD-48661 | 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