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Proteogenomic analysis of Frankia alni in Alnus glutinosa nodules and N2-fixing pure cultures.

ABSTRACT: Proteome profiles of Frankia alni established by next-generation proteomics

INSTRUMENT(S):

ORGANISM(S): Frankia Alni

SUBMITTER: Jean ARMENGAUD

LAB HEAD: Jean Armengaud

PROVIDER: PXD030468 | Pride | 2022-04-23

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	Alnus01_Frankia_alni_reduite_20170529.fasta	Fasta
	F207081.dat	Other
	F207081_p0.05.mzid.gz	Mzid
	F207082.dat	Other
	F207082_p0.05.mzid.gz	Mzid

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Publications

The Proteogenome of Symbiotic Frankia alni in Alnus glutinosa Nodules.

Pujic Petar P Alloisio Nicole N Miotello Guylaine G Armengaud Jean J Abrouk Danis D Fournier Pascale P Normand Philippe P

Microorganisms 20220318 3

Omics are the most promising approaches to investigate microbes for which no genetic tools exist such as the nitrogen-fixing symbiotic Frankia. A proteogenomic analysis of symbiotic Frankia alni was done by comparing those proteins more and less abundant in Alnus glutinosa nodules relative to N2-fixing pure cultures with propionate as the carbon source. There were 250 proteins that were significantly overabundant in nodules at a fold change (FC) ≥ 2 threshold, and ...[more]

PMID: 35336227

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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.

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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.

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