Arabidopsis thaliana wild type and PDKO3 mutant mechanical damage (MD) vs herbivore wounding (HW)
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ABSTRACT:
ORGANISM(S): Arabidopsis thaliana
PROVIDER: GSE31268 | GEO | 2018/08/05
REPOSITORIES: GEO
Similar Datasets
Project description:Transcriptional profiling of Arabidopsis thaliana wild type (WT) comparing MD (mechanical damage) and HW (herbivore wounding). The differences in the biochemical responses to herbivory seen prompted us to search for less obvious differences between treatments using gene expression profiling. Biological replicates: 4
2012-09-18 | GSE40923 | GEO
Project description:Transcriptional profiling of Arabidopsis thaliana wild type (WT) comparing MD (mechanical damage) and HW (herbivore wounding). The differences in the biochemical responses to herbivory seen prompted us to search for less obvious differences between treatments using gene expression profiling. Biological replicates: 4 Two-condition experiment, MD vs. HW Arabidopsis leaves of WT plants. Biological replicates: 4 biological replicates.
2012-09-18 | E-GEOD-40923 | biostudies-arrayexpress
Project description:We use Solanum dulcamara subjected to drought or flooding and damaged by Spodoptera exigua to analyze such interactions at multiple levels. Drought and herbivory caused comparable effects on S. dulcamara physiological response, which was reflected by a considerable overlap in S. dulcamara transcriptomic profiles. This included many defense responses and genes involved in biosynthesis of secondary metabolites that were induced by drought and herbivory but repressed by flooding. Furthermore, combination of drought and herbivory additively induced a part of these herbivore-induced responses suggesting that drought-stressed plants were more resistant. Our study provides concrete evidence of how abiotic stresses differentially affect the plant complex hormonal interactions to fine-tune plant responses to insects.
2016-05-27 | GSE69648 | GEO
Project description:In nature, plants are frequently subjected to multiple biotic and abiotic stresses, resulting in a convergence of adaptive responses. We hypothesized that hormonal signalling regulating defences to different herbivores may interact with drought response, causing distinct resistance phenotypes. To test this, we studied hormonal and transcriptomic responses of Solanum dulcamara subjected to drought and herbivory by the generalist Spodoptera exigua (BAW) or the specialist Leptinotarsa decemlineata (CPB). Bioassays showed that plants under drought became more resistant to BAW, but not to CPB. While drought did not alter BAW-induced hormonal responses, it enhanced CPB-induced accumulation of jasmonic acid and salicylic acid (SA) as well as supressed ethylene (ET) emission. Microarray analyses showed that under drought BAW herbivory enhanced several herbivore-induced responses, including cell-wall remodelling and metabolism of carbohydrates, lipids and secondary metabolites. In contrast, CPB herbivory enhanced several photosynthesis-related and pathogen responses in drought-stressed plants. This may divert resources away from the production of effective defences and increase tissue nutritive value. In conclusion, while BAW suffers from the drought-enhanced defences, CPB may benefit from effects of the enhanced SA and reduced ET signalling. This suggests that the fine-tuned interaction between the plant and its specialist herbivore is sustained under drought.
2018-11-26 | GSE122893 | GEO
Project description:Transcriptional profiling of Arabidopsis thaliana wild type (WT) comparing mechanical damage (MD) and Myzus persicae feeding (Myz). The differences in the biochemical responses to insect feeding seen when compared to the control sample prompted us to search for less obvious differences between the treatments using gene expression profiling. Biological replicates: 4 biological replicates
2012-09-18 | GSE40924 | GEO
Project description:Transcriptional profiling of Arabidopsis thaliana wild type (WT) comparing mechanical damage (MD) and Myzus persicae feeding (Myz). The differences in the biochemical responses to insect feeding seen when compared to the control sample prompted us to search for less obvious differences between the treatments using gene expression profiling. Biological replicates: 4 biological replicates Two-condition experiment, MD vs. Myz Arabidopsis leaves of WT plants. Biological replicates: 4 biological replicates.
2012-09-18 | E-GEOD-40924 | biostudies-arrayexpress
Project description:We examined the effects of loss of su(Hw) on gene expression in both carefully staged 3rd instar larvae (selected at the soft white pre-pupae stage) and wing imaginal discs from these animals. su(Hw) null animals were generated by crossing su(Hw)v mutants with a deficiency (Df(3R)ED5644), homozygous individuals were recognised be the lack of the dominat Tb marker carried on the TM6B marker. Keywords: ChIP-chip
2007-07-31 | GSE7682 | GEO
Project description:There is considerable evidence that insulator elements are likely to play a key role in the organisation of the regulatory architecture of the genome. In Drosophila, one of the best studied insulator elements is the gypsy insulator in the gypsy retrotransposon whose function is dependent on the Su(Hw) Zn-finger DNA binding protein. Although there are several hundred Su(Hw) sites in the genome which are proposed to act as endogenous insulator elements, analysis of the role of the Su(Hw) protein has focussed on the gypsy insulator and few endogenous sites have yet been identified. We have used chromatin immunopurification coupled to genomic microarray analysis to identify Su(Hw) binding sites within a representative region of the Drosophila genome; the 3MB Adh region on chromosome 2L. We have located about 60 Su(Hw) binding sites across this region and this has enabled us to construct a robust new Su(Hw) binding site consensus based on these in vivo sites. In contrast to the gypsy insulator which contains 12 Su(Hw) binding sites within 340bp, the endogenous sites are not present in clusters. We identify two key features of these endogenous Su(Hw) sites. Firstly, in contrast to most analyses of DNA binding protein specificity, we find that strong matches to the binding consensus are good predictors of binding site occupancy. Secondly, examination of Su(Hw) binding site occupancy in 0-20hr embryos, 3rd larval instar brains or 3rd larval imaginal discs reveals a constant pattern of Su(Hw) binding indicating that most , if not all Su(Hw) sites are constitutively occupied. These two features support a constant genomic architectural role for the Su(Hw) protein. Keywords: ChIP-chip
2006-06-20 | GSE4691 | GEO
Project description:Suppressor of Hairy wing (Su(Hw)) is an insulator protein that participates in regulating chromatin architecture and gene repression in Drosophila. In previous studies we have shown that Su(Hw) is also required for pre-replication complex (pre-RC) recruitment on Su(Hw)-bound sites (SBSs) in Drosophila S2 cells and pupa. Here, we describe the effect of Su(Hw) on developmentally regulated amplification of 66D and 7F Drosophila amplicons in follicle cells (DAFCs), widely used as models in replication studies. We show Su(Hw) binding co-localizes with all known DAFCs in Drosophila ovaries, whereas disruption of Su(Hw) binding to 66D and 7F DAFCs causes a two-fold decrease in the amplification of these loci. The complete loss of Su(Hw) binding to chromatin violates pre-RC recruitment to all amplification regulatory regions of 66D and 7F loci at early oogenesis (prior to DAFCs amplification). These changes coincide with a considerable Su(Hw)-dependent condensation of chromatin at 66D and 7F loci. Although we observed the Brm, ISWI, Mi-2, and CHD1 chromatin remodelers at SBSs genome wide, their remodeler activity does not appear to be responsible for chromatin decondensation at the 66D and 7F amplification regulatory regions. We have discovered that, in addition to the CBP/Nejire and Chameau histone acetyltransferases, the Gcn5 acetyltransferase binds to 66D and 7F DAFCs at SBSs and is dependent on Su(Hw). We propose that the main function of Su(Hw) in developmental amplification of 66D and 7F DAFCs is to establish a chromatin structure that is permissive to pre-RC recruitment.
2021-08-22 | GSE168894 | GEO
Project description:Insulator-binding proteins (IBPs) play a critical role in genome architecture by forming and maintaining contact domains. While the involvement of several IBPs in organising chromatin architecture in Drosophila has been described, the specific contribution of the Suppressor of Hairy wings (Su(Hw)) IBP to genome topology remains unclear. In this study, we provide evidence for the existence of long-range interactions (LRIs) between Su(Hw) and Combgap ChIP-Seq peaks, reflected in the indirect binding of these proteins to chromatin in ChIP experiments. Loss of Su(Hw) binding results in the disappearance of Su(Hw)-Combgap LRIs and a decrease in spatial self-interactions among a subset of Su(Hw) sites. Our findings suggest that Su(Hw)-Combgap LRIs are associated with active chromatin rather than Polycomb-directed repression. Furthermore, we observe that the majority of transcription start sites that are down-regulated upon loss of Su(Hw) binding to chromatin are located within 2 kb of Combgap peaks and exhibit Su(Hw)-dependent changes in Combgap and transcriptional regulators’ binding.
2024-05-24 | GSE231576 | GEO