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The PEG-responding dessicome of Frankia alni

ABSTRACT: We characterized the polyethylene glycol (PEG)-responding desiccome from the most geographically widespread Gram-positive nitrogen-fixing plant symbiont, i.e. Frankia alni, by next-generation proteomics.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Frankia Alni Acn14a

SUBMITTER: Jean ARMENGAUD

LAB HEAD: Jean Armengaud

PROVIDER: PXD007226 | Pride | 2018-10-24

REPOSITORIES: Pride

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			Action	DRS
	F201364.dat	Other
	F201364.mzid.gz	Mzid
	F201364.pride.mztab.gz	Mztab
	F201365.dat	Other
	F201365.mzid.gz	Mzid

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Publications

The PEG-responding desiccome of the alder microsymbiont Frankia alni.

Ghedira Kais K Harigua-Souiai Emna E Ben Hamda Cherif C Fournier Pascale P Pujic Petar P Guesmi Sihem S Guizani Ikram I Miotello Guylaine G Armengaud Jean J Normand Philippe P Sghaier Haïtham H

Scientific reports 20180115 1

Actinorhizal plants are ecologically and economically important. Symbiosis with nitrogen-fixing bacteria allows these woody dicotyledonous plants to colonise soils under nitrogen deficiency, water-stress or other extreme conditions. However, proteins involved in xerotolerance of symbiotic microorganisms have yet to be identified. Here we characterise the polyethylene glycol (PEG)-responding desiccome from the most geographically widespread Gram-positive nitrogen-fixing plant symbiont, Frankia al ...[more]

PMID: 29335550

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Transcriptome of Frankia in nitrogen-fixing root-nodule symbiosis with Datisca glomerata

Project description:A transcriptome of Cluster II Frankia in nitrogen-fixing root-nodule symbiosis with the host plant, Datisca glomerata, was obtained by Illumina sequencing and mapping to the corresponding published genome (NCBI Bioproject PRJNA46257). Major metabolic pathways detected in Cluster II Frankia in symbiosis with Datisca glomerata were comparable to those described as up-regulated in the Frankia alni-Alnus glutinosa symbiosis (N Alloisio et al, MPMI 23(5):593-607, 2010): nitrogenase biosynthesis, tricarboxylic acid cycle, respiratory-chain related functions, oxidation protection, and terpenoid biosynthesis. These functions are consistent with the primary activities of Frankia in root nodules, e.g. to carry out the energetically-demanding fixation of atmospheric dinitrogen to ammonium, and to maintain internal reducing conditions. Expression of genes coding for amino-acid biosynthetic pathways, including arginine as reported previously (AM Berry et al. Funct Plant Biol 38, 645–652, 2011) was detected. A striking difference from other Frankia strains, revealed in the transcriptome of the Cluster II Frankia in symbiosis, was the expression of homologs of rhizobial nodulation genes, nodA, nodB and nodC.

2015-09-30 | GSE61377 | GEO

Re-establishment of desiccation tolerance by PEG in germinated Arabidopsis thaliana seeds

Project description:Mature seeds of Arabidopsis thaliana are desiccation tolerant, but they lose DT while progressing to germination. Yet, there is a small developmental window during which DT can be rescued by treatment with polyethylene glycol (PEG). We used microarrays to identify relevant genes in the re-establishment of desiccation tolerance by PEG.

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Expression profiling of PEG induced water stress responsive genes in Eucalyptus grandis

Project description:The study was conducted to identify differentially expressed polyethylene glycol (PEG) induced water stress responsive genes in E. grandis. Forty day old rooted cutting of E. grandis was subjected to -0.225 MPa PEG treatment and total RNA was isolated from leaves of water treated control and PEG treated samples after three hours of treatment. The differential expression of water stress responsive genes was analyzed using microarray technique.

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Frankia alni

Project description:Frankia alni overview

| PRJNA35933 | ENA

Proteomics insights into Frankia sporulation mechanisms

Project description:Next-generation proteomics of Frankia alni for defining the key proteins involved in sporulation mechanisms.

2022-04-23 | PXD011620 | Pride

Identification of Poly Ethylene Glycol (PEG) and PEG-based Detergents Using Peptide Search Engines

Project description:Polyethylene glycol (PEG) is one of the most common polymer contaminations in MS samples. At present, the detection of PEG and other polymers relies largely on manual inspection of raw data which is laborious and frequently difficult due to sample complexity and retention characteristics of polymer species in reversed phase chromatography. We developed a new strategy for the automated identification of PEG molecules from MSMS data using protein identification algorithms in combination with a database containing “PEG-proteins”. Through definition of variable modifications, we extend the approach for the identification of commonly used PEG-based detergents. We exemplify the identification of different types of polymers by static nanoESI-MSMS analysis of pure detergent solutions and data analysis using Mascot. Analysis of LC-MSMS runs of a PEG contaminated sample by Mascot identified 806 PEG-spectra originating from four PEG species using a defined set of modifications covering PEG and common PEG-based detergents. Further characterization of the sample for unidentified PEG species using error tolerant and mass tolerant searches resulted in identification of 3409 and 3187 PEG related MSMS spectra, respectively. We further demonstrate the applicability of the strategy for Protein Pilot and MaxQuant.

2018-05-28 | PXD009376 | Pride

Shotgun proteomics of Frankia alni grown on fumarate

Project description:Next-generation proteomics of Frankia alni for defining the key proteins involved in growth on fumarate.

2023-06-11 | PXD018045 | Pride

Frankia coriariae exoproteomes

Project description:This project defines the exoproteome dynamics of Frankia coriariae, a nitrogen-fixing bacterium, in presence of three host plants. Frankia coriariae was treated with root exudates from compatible (Coriaria myrtifolia), incompatible (Alnus glutinosa) and non-actinorhizal (Cucumis melo) host plants.

2017-05-19 | PXD005980 | Pride

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