Browse
Submit Data
Databases
API
Help

Dataset Information

228 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

ACCESS DATA

Json Xml

Dataset's files

Source:

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

Items per page:

1 - 5 of 61

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

Similar Datasets

Frankia alni

Project description:Frankia alni overview

| PRJNA35933 | ENA

Proteomics analysis of a menage a trois: Frankia alni, Alnus glutinosa, and Phytophthora alni.

Project description:The proteomes of the nitrogen-fixin bacterium Frankia alni, the tree Alnus glutinosa (Alder), and the oomycete plant pathogen Phytophthora alni were established by shotgun proteomics in specific conditions to assess Alnus glutinosa responsiveness to Phytophthora alni infection in presence of Frankia alni.

2025-03-25 | PXD040943 | Pride

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

Project description: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 alni, by next-generation proteomics, taking advantage of a Q-Exactive HF tandem mass spectrometer equipped with an ultra-high-field Orbitrap analyser. A total of 2,052 proteins were detected and quantified. Under osmotic stress, PEG-grown F. alni cells increased the abundance of envelope-associated proteins like ABC transporters, mechano-sensitive ion channels and Clustered Regularly Interspaced Short Palindromic Repeats CRISPR-associated (cas) components. Conjointly, dispensable pathways, like nitrogen fixation, aerobic respiration and homologous recombination, were markedly down-regulated. Molecular modelling and docking simulations suggested that the PEG is acting on Frankia partly by filling the inner part of an up-regulated osmotic-stress large conductance mechanosensitive channel.

| S-EPMC5768760 | biostudies-literature

Comparison of transcriptome between free-living and symbiotic cells of Frankia alni ACN14a

Project description:The actinobacteria Frankia alni is able to induce the formation of nodules on the root of a large spectrum of actinorhizal plants, where it converts dinitrogen to ammonia in exchange for plant photosynthates. In the present study, transcriptional analyses were performed on nitrogen-replete free-living cells and on Alnus glutinosa nodule bacteria, using whole genome microarrays. Distribution of nodule-induced genes on the genome was found to be mostly over regions with high synteny between three Frankia genomes, while nodule-repressed genes, which were mostly hypothetical and not conserved, were spread around the genome. Genes known to be related to symbiosis were highly induced: nif (nitrogenase), hup2 (hydrogenase uptake), suf (sulfur-iron cluster) and shc (hopanoids synthesis). The expression of genes involved in ammonium assimilation and transport was strongly modified suggesting that bacteria ammonium assimilation was limited. Genes involved in particular in transcriptional regulation, signalling processes, protein drug export, protein secretion, lipopolysaccharide and peptidoglycan biosynthesis that may play a role in symbiosis were also identified. We showed that this nodule transcriptome of Frankia was highly similar among phylogenetically distant plant families. To address gene expression changes of Frankia alni ACN in the symbiotic state, we compared transcript levels between young nodules formed on 4 species of trees (Alnus glutinosa, Alnus nepalensis, Myrica gale and Myrica rubra) and free-living cells grown in nitrogen-replete minimal medium. For A. glutinosa nodule and free-living cells, two sets of experiments (A and B) were performed in two different laboratories. Three biological replicates were preformed for each condition.

2010-09-12 | E-GEOD-18190 | biostudies-arrayexpress

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

Comparison of transcriptome between free-living and symbiotic cells of Frankia alni ACN14a

2010-09-12 | GSE18190 | GEO

Proteomics analysis of Phytophthora alni infection in Frankia alni and Alnus glutinosa symbiotic nodules.

Project description:The proteomics analysis of the nitrogen-fixin bacterium Frankia alni, the tree Alnus glutinosa (Alder), and the oomycete plant pathogen Phytophthora alni was carried out by shotgun proteomics from nodules to establish the defence mechanisms of the symbiont during an infection.

2025-03-25 | PXD044187 | Pride

Proteomics insights into Frankia alni molecular dialogue with its host

Project description:Next-generation proteomics of Frankia alni for defining the key proteins involved in the molecular dialogue with its plant host.

2022-04-23 | PXD012260 | Pride

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

Gene profiling during symbiosis between the actinorhizal tree Alnus glutinosa and the actinobacteria Frankia alni ACN14

Project description:Alnus glutinosa belongs to a family of angiosperms called actinorhizal plants because they can develop nitrogen-fixing nodules in association with the soil bacteria Frankia. The aim of this transcriptomic study was to get a global view of the plant symbiotic genetic program and to identify new key plant genes that control nodulation during symbiosis in A. glutinosa. Symbiosis between A. glutinosa and Frankia was obtained after inoculation of young plant with a concentrated culture of the bacteria. Inoculation was performed in a medium depleted in nitrogen which favors the induction of nitrogen fixing symbiosis. For this study we considered two stages of symbiosis: - an early stage where inoculated roots were harvested 7 days after inoculation with the bacteria and compared to two controls (non-inoculated roots grown with or without nitrogen and harvested at the same time) - a late stage where nodules (nitrogen-fixing specific organs) were harvested 21 days after inoculation and compared to non-inoculated roots harvested on the day of inoculation (which is our reference time 0d). Three biological replicates were used for each condition.

2011-04-11 | GSE24153 | 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