Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

42 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional changes in potato in response to defence hormones

ABSTRACT: Phytohormones are involved in diverse aspects of plant life including the regulation of plant growth, development and reproduction, as well as governing stress and defence responses. We have generated a comprehensive transcriptional reference map of the early potato responses to exogenous application of the defence hormones abscisic acid, brassinosteroid, ethylene, salicylic acid and jasmonic acid. Amongst microarray probes representing the 39000 predicted genes, a total of 3175 and 2873 probes were significantly differentially expressed at 1 h and 6 h after hormone treatment, respectively. Marker genes identified for the early hormone responses in potato include: a homeodomain 20 transcription factor (DMG400000248) for abscisic acid; a SAUR gene (DMG400016561) induced in Epibrassinolide treated plants at 6 hours; an osmotin gene (DMG400003057) specifically enhanced by the ethylene precursor aminocyclopropanecarboxylic acid; a gene weakly similar to AtWRKY40 (DMG402007388) that was induced by salicylic acid and; a jasmonate ZIM-domain protein 1 (DMG400002930) which was specifically activated by methyl jasmonate. An online database has been set up to query the expression patterns of potato genes represented on the microarray that can also incorporate future microarray or RNAseq-based expression studies.

INSTRUMENT(S): Agilent G2505B scanner.

ORGANISM(S): Solanum tuberosum

SUBMITTER: Pete Hedley

PROVIDER: E-MTAB-3542 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Defense signaling in potato

Project description:Potato cultivar Russet Norkotah was grown in a growth chamber at 16 hour light/8 hour dark at 22°C fertilized with Osmocote. Plants were from tissue culture, transplanted to soil and used approximately 4 weeks after transplanting. RNA was extracted from leaves using Trizol. Plants were sprayed with one of four treatments, either 1mM salicylic acid, 100 µM methyl jasmonate, 1 mg/ml arachidonic acid or 100 µM methyl jasmonate plus 1 mM salicylic acid together. Samples were harvested at 3, 24 and 72 hours after spraying. Each salicylic acid or arachidonic acid treatment has 3 biological replicates done in parallel, using leaves pooled from 2 plants. The control for SA or AA treated plants were water sprayed plants, from which leaves of 3 different plants were pooled at each timepoint, done side-by-side with the treated samples. Methyl jasmonate or MJ+SA treatments had 2 biological replicates each, using leaves pooled from 2 plants. A separate set of water sprayed plants (from the SA and AA control treatments) were used as controls, and pooled leaves from 3 plants were used at each time-point, and done in parallel with the treated samples. Keywords: Direct comparison

2007-09-01 | GSE8208 | GEO

BABA-induced pathogen resistance: a multi-omics analysis of the tomato response reveals a hyper-receptive status strongly involving ethylene

Project description:Prior exposure to microbial-associated molecular patterns or specific chemical compounds can promote plants into a primed state with stronger defence responses. b-aminobutyric acid (BABA) is an endogenous stress metabolite that induces resistance protecting various plants towards diverse stresses. In this study, by integrating BABA-induced changes in selected metabolites with transcriptome and proteome data, we generated a global map of the molecular processes operating in BABA-induced resistance (BABA-IR) in tomato. BABA significantly restricts the growth of the pathogens Oidium neolycopersici and Phytophthora parasitica but not Botrytis cinerea. A cluster analysis of the upregulated processes showed that BABA acts mainly as a stress factor in tomato. The main factor distinguishing BABA-IR from other stress conditions was the extensive induction of signalling and perception machinery playing a key role in defence priming. Interestingly, the signalling processes and immune response activated during BABA-IR in tomato differed from those in Arabidopsis with substantial enrichment of genes associated with jasmonic acid and ethylene signalling and no change in Asp levels. Our results revealed key differences between the effect of BABA on tomato and other model plants studied until now. Surprisingly, salicylic acid is not involved in BABA downstream signalization whereas ethylene and jasmonic acid play a crucial role.

2023-07-20 | PXD038074 | Pride

Arabidopsis thaliana gene expression changes upon treatment with green peach aphid saliva

Project description:Myzus persicae (green peach aphid) feeding on Arabidopsis thaliana induces a defense response, quantified as reduced aphid progeny production, in infested leaves but not in other parts of the plant. Similarly, infiltration of aphid saliva into Arabidopsis leaves causes only a local increase in aphid resistance. Further characterization of the defense-eliciting salivary components indicates that Arabidopsis recognizes a proteinaceous elicitor with a size between 3 to 10 kD. Genetic analysis using well-characterized Arabidopsis mutant shows that saliva-induced resistance against M. persicae is independent of the known defense signaling pathways involving salicylic acid, jasmonate, and ethylene. Among 78 Arabidopsis genes that were induced by aphid saliva infiltration, 52 had been identified previously as aphid-induced, but few are responsive to the well-known plant defense signaling molecules salicylic acid and jasmonate. Quantitative PCR analysis confirms expression of saliva-induced genes. In particular, expression of a set of O-methyltransferases, which may be involved in the synthesis of aphid-repellent glucosinolates, was significantly up-regulated by both M. persicae feeding and treatment with aphid saliva. However, this did not correlate with increased production of 4-methoxyindol-3-ylmethylglucosinolate, suggesting that aphid salivary components trigger an Arabidopsis defense response that is independent of this aphid-deterrent glucosinolate. Experiment Overall Design: 3 biological replicates (control and treatment). Total number of samples: 6.

2009-06-23 | E-GEOD-16497 | biostudies-arrayexpress

An RNA-Seq atlas of gene expression in rose flower under treatment of various phytohormones and plant growth regulators

Project description:Using RNA-seq, we recently investigated the transcriptomic dynamics of rose flower under treatment of various plant hormones, including ethylene, 2,4-D, NAA, cytok, gibberellins, abscisic acid, brassinosteroids, salicylic acid, jasmonates, as well as ethylene inhibitor 1-MCP and AgNO. We obtained approximately 240GB data and dissected the transcriptional network with the aim of exploring the transcriptional variation of rose responses towards those plant hormones. Our data will be useful to all those working with the analysis of rose gene expression.

2019-11-20 | GSE140696 | GEO

MOA:Multiomics analysis of potato response to Potato virus Y (PVY) infection

Project description:Time series response of potato cv. Désirée, which is tolerant to PVY infection, was analysed in both inoculated as well as upper non-inoculated leaves. Additionally, transgenic plants deficient in accumulation of salicylic acid (NahG- Désirée) were studied in the same setting.

2019-09-25 | PXD015221 | Pride

A Vitis vinifera WRKY transcription factor, VvWRKY1, enhances Plasmopara viticola resistance in transgenic grapevines through activation of jasmonic acid signalling pathway

Project description:WRKY genes are transcription factors involved in plant response to pathogen attacks in many plant species. These proteins have been shown to activate expression of defence genes in a salicylic acid- and/or jasmonic acid-dependent signalling pathway. To understand the molecular mechanisms involved in grapevine defence, we previously identified a WRKY gene, VvWRKY1, which was able to enhance tolerance to fungal pathogens when overexpressed in tobacco. To elucidate its role in grapevine, we generated transgenic grapevines that overexpress VvWRKY1. Microarray analyses were performed to compare global gene expression in leaves of the transgenic and wild-type lines. Results showed that expression of genes encoding defence-related proteins was enhanced in the transgenic 35S::VvWRKY1 line. Quantitative RT-PCR analysis confirmed that three genes putatively involved in jasmonic acid signalling pathway, two genes encoding JASMONATE ZIM-domain (JAZ) proteins and one lipoxygenase, are over-expressed. The ability of VvWRKY1 to trans-activate their corresponding promoters was confirmed by transient expression assay in grape protoplasts. After challenging with the downy mildew pathogen Plasmopara viticola, resistance was enhanced in the transgenic line compared to the wild-type line. These results suggest that VvWRKY1 transcription factor is able to control plant disease resistance to one of the main grapevine pathogen by activating jasmonic acid signalling pathway in grapevine.

2012-12-19 | E-MTAB-1077 | biostudies-arrayexpress

Transcription profiling of M. turncatula treated with ulvan, methyl jasmonate or BTH (salicylic acid analog)

Project description:Comparison of M. truncatula responses to ulvan treatment with mM-ithyl jasmonate and BTH (salicylic acid analog).

2010-01-01 | E-MEXP-1995 | biostudies-arrayexpress

Pearl millet seedlings infected with rust, or treated with MeJA or SA

Project description:This SuperSeries is composed of the following subset Series: GSE13478: Pearl millet seedlings treated with methyl jasmonate (MeJA) GSE13479: Pearl millet seedlings infected with rust (Puccinia substriata) GSE13480: Pearl millet seedlings treated with salicylic acid (SA) Refer to individual Series

2010-05-14 | E-GEOD-13481 | biostudies-arrayexpress

Transcriptome profiling of potato hypersensistive response to PVY infection

Project description:Our aim was to investigate involvement of salicylic acid signalling in Ny-mediated hypersensistive response by comparison of transcriptomic response to the Potato Virus Y in potato plants of genotypes Rywal, bearing Ny-1 allele and NahG-Rywal, unable to accumulate salicylic acid in three time points (1, 3 and 6 days post inoculation) after viral inoculation. Inoculated leaves of mock- and virus- inoculated plants (four each) were sampled 1, 3 and 6 days after inoculation (dpi). POCI microarrays were used (one-color design)

2013-10-01 | E-GEOD-46180 | biostudies-arrayexpress

Global transcriptome and targeted metabolite analyses of roots reveal different defense mechanisms against Ralstonia solanacearum infection in two resistant potato cultivars

Project description:The causal agent of bacterial wilt is Ralstonia solanacearum (Rs) with an unusually wide host range including potato. Bacterial wilt is the most destructive bacterial disease of plants that seriously reduce crop yield word-wide. Control of Rs through resistance breeding and biotechnology is considered to be very important and necessary. Rs resistance has been reported in a few potato cultivars and hybrids. Identification of defense mechanism underlying resistance is a prerequisite of biotechnological approaches. In this study, two resistant cultivars, ‘Calalo Gaspar’ (CG) and ‘Cruza 148’ (CR), and a sensitive cultivar, ‘Désirée’, were analysed and compared to each other at molecular level before-, and a few days after Rs infection. The transcriptome analysis of roots revealed up-regulation of chitin interaction and cell wall related genes in CR and DES. The phenylpropanoid biosynthesis and glutathione metabolism pathways were induced only CR. Microscopic analysis detected lignification over the whole stele in CR roots. In CG roots, concentrations of chlorogenic acid and quercetin derivatives were highly increased upon Rs infection. A characteristic increase at the transcript level of MAP kinase signalling pathway genes and concentrations of jasmonic-, salicylic-, abscisic and indoleacetic acid was detected in DES roots. These results indicate a different mechanism of defence both in the two tested resistant and the sensitive potato cultivar.

2023-01-20 | GSE211973 | GEO

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