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Transcriptomic responses in Arabidopsis thaliana to PIPL3 peptide treatment

ABSTRACT: In order to investigate possible roles of IDL and PIP/PIPL peptides, the transcriptomic response of Arabidopsis seedlings to treatment with PIPL3 peptide was analysed. PIPL3 (At4g37295) was chosen, as no functional data was available for this peptide; furthermore, PIPL3 was expressed in leaf tissue during seedling stages. Transcriptomic responses to 3 hours PIPL3 peptide treatment suggested a role in regulation of biotic stress responses and cell wall modification.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE66201 | GEO | 2015/07/10

SECONDARY ACCESSION(S): PRJNA276099

REPOSITORIES: GEO

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Transcriptomic responses in Arabidopsis thaliana to PIPL3 peptide treatment

Project description:In order to investigate possible roles of IDL and PIP/PIPL peptides, the transcriptomic response of Arabidopsis seedlings to treatment with PIPL3 peptide was analysed. PIPL3 (At4g37295) was chosen, as no functional data was available for this peptide; furthermore, PIPL3 was expressed in leaf tissue during seedling stages. Transcriptomic responses to 3 hours PIPL3 peptide treatment suggested a role in regulation of biotic stress responses and cell wall modification. Two weeks old seedlings were treated either with 100 nM PIPL3 peptide (treated) or 100 nM mock peptide (control) and whole rosettes were harvested 3 hours after treatment. 4 biological replicates per treatment.

2015-07-10 | E-GEOD-66201 | biostudies-arrayexpress

RNAseq of Arabidopsis seedlings of either wt or hsl3-1, in response to a 30 minute treatment of 100 nM CTNIP4 relative to mock

Project description:In order to identify novel stress-induced signalling peptides, we searched for Arabidopsis thaliana transcripts encoding short proteins (<150 amino acids) with a predicted signal peptide, which were induced upon biotic elicitor treatment (Bjornson et al., 2021). Through this analysis, we identified an uncharacterised family of peptides with 5 predicted members, which we named CTNIP1 to 5 (pronounced catnip) based on relatively conserved residues within the peptides. CTNIP4 is perceived by Arabidopsis, inducing some hallmark outputs of defence (Pattern-Triggered Immunity) signalling. Mass spectrometric analyses indicated that HSL3 may be the receptor mediating CTNIP recognition. Through assaying transcriptomic responses in wild type and hsl3-1 mutants, we were able to confirm similarity of CTNIP and defence responses at the transcriptional level, and the dependence of these responses on HSL3.

2022-06-13 | E-MTAB-11093 | biostudies-arrayexpress

The IDA-LIKE peptides IDL6 and IDL7 are negative modulators of stress responses in Arabidopsis thaliana

Project description:We present a functional characterisation of two members of the IDA-LIKE (IDL) peptide family in Arabidopsis thaliana, IDL6 and IDL7. They are processed both C- and N-terminally to produce active peptides. Structure analyses of synthesized IDL6 and IDL7 peptides indicate that they lack secondary structure elements. Localisation studies suggest that the peptides require a signal peptide and C-terminally processing to be correctly transported out of the cell. Treatment of plants with synthetic IDL6 and IDL7 peptides resulted in down-regulation of a broad range of stress-responsive genes, including early stress-responsive transcripts, dominated by a large group of ZINC FINGER PROTEINS (ZFPs), WRKYs and genes encoding calcium-dependent proteins. idl6 and idl7 mutants were more tolerant to salt, whereas the respective overexpression lines displayed increased sensitivity to both salt and oxidative stress. Taken together, our results suggest that the putative peptide ligands IDL6 and IDL7 act as suppressors of abiotic stress responses in Arabidopsis. Two weeks old seedlings were treated either with 100 nM IDL6 or IDL7 peptide (treated) or 100 nM mock peptide (control) and whole rosettes were harvested 2 hours after treatment. 4 biological replicaes per treatment. Two color microarray. Biological replicas are dye-swapped between slides.

2016-03-31 | E-GEOD-77467 | biostudies-arrayexpress

The IDA-LIKE peptides IDL6 and IDL7 are negative modulators of stress responses in Arabidopsis thaliana

2016-03-31 | GSE77467 | GEO

Response of peripheral blood mononuclear cells to influenza virus, human cytomegalovirus, and candida albicans derived peptide stimulation.

Project description:CD4 T cell responses are characterized based on a limited number of molecular markers selected from exisiting knowledge. The goal of the experiment was to assess antigenic-peptide specific T-cell responses in vitro without bias using microarrays. PBMCs were isolated from 1 healthy donor. The cells were stimulated with peptides derived from influenza virus H1 and H5, human cytomegalovirus, and candida albicans for 24 hours. Unstimulated cells were cultured without the peptides for 24 hours.

2016-08-15 | E-GEOD-72371 | biostudies-arrayexpress

WT1 Trio Peptide-vaccine for Rare Cancers

Project description:Interventions: A patient is vaccinated with Montanide ISA51-adjuvanted WT1 Trio cancer vaccine consisting of two WT1 CTL peptides (WT1-126 and WT1-235) and one WT1 HTL peptide (WT1-332) (2mg each) seven times at the interval of two weeks. Primary outcome(s): Induction of WT1-specific immune responses assessed by WT1-related tests such as WT1-DTH skin reaction and serum levels of WT1 peptide IgG autoantibody at 1M, 2M, and 3M of WT1 Trio vaccine. Study Design: Single arm Non-randomized

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Response of peripheral blood mononuclear cells from patients with allergy to cat and silver birch wood derived antigenic peptide stimulation.

Project description:CD4 T cell responses are characterized based on a limited number of molecular markers selected from exisiting knowledge. The goal of the experiment was to assess antigenic-peptide specific T-cell responses in vitro without bias using microarrays. PBMCs were isolated from 2 donors with allergy. The cells were stimulated with antigenic peptides derived from silver birch wood and cat for 24 hours. Unstimulated cells were cultured without the peptides for 24 hours.

2016-08-15 | E-GEOD-72373 | biostudies-arrayexpress

In situ synthesis of peptide microarrays - shadow mask design [3]

Project description:In this paper several computer programs were used to simulate in situ synthesis of peptides using shadow masks and BOC synthesis. The peptides were designed to be random, or pseudo-random, but fulfill requirements of immunosignaturing. This file contains data from actual 330,000 peptide arrays that used the first iteration of the peptide generation algorithm. Monoclonal antibodies were bound to the microarrays and the total number of peptides that distinguished each monoclonal was measured. This provides a baseline against which to compare purely random sequences. One replicate of each peptide was printed on 1 330k peptide microarray. One microarray were tested for each sample. Image was qualified using in-house metrics for quality assurance.

2014-01-16 | E-GEOD-50571 | biostudies-arrayexpress

Response of fresh or frozen peripheral blood mononuclear cells from 1 healthy donor to influenza virus derived peptide stimulation.

Project description:CD4 T cell responses are characterized based on a limited number of molecular markers selected from exisiting knowledge. The goal of the experiment was to assess antigenic-peptide specific T-cell responses in vitro without bias using microarrays. PBMCs were isolated from 1 healthy donor. The fresh cells or cells thawed from cryopresevation (frozen) were stimulated with peptides derived from influenza virus for 24 hours. Unstimulated cells were cultured without the peptides for 24 hours. Experiments were done in triplicate.

2016-08-15 | E-GEOD-72375 | biostudies-arrayexpress

Response of peripheral blood mononuclear cells to west nile virus (E, NS2a) and type 1 diabetogenic antigens (GAD65, ZnT8) derived peptide stimulation.

Project description:CD4 T cell responses are characterized based on a limited number of molecular markers selected from exisiting knowledge. The goal of the experiment was to assess antigenic-peptide specific T-cell responses in vitro without bias using microarrays. PBMCs were isolated from 3 healthy donors. The cells were stimulated with peptides derived from west nile virus (E, NS2a), type 1 diabetogenic antigens (GAD65, ZnT8) for 24 hours. Unstimulated cells were cultured without the peptides for 24 hours.

2016-08-15 | E-GEOD-72372 | biostudies-arrayexpress

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