Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomics of Frankia alni upon early contact with its host

ABSTRACT: Transcriptomics of Frankia alni upon early contact with its host

PROVIDER: PRJEB31118 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR3144420.fastq.gz	Fastqsanger.gz
	ERR3144430.fastq.gz	Fastqsanger.gz
	ERR3144440.fastq.gz	Fastqsanger.gz
	ERR3144450.fastq.gz	Fastqsanger.gz
	ERR3144460.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 91

Similar Datasets

Frankia alni

Project description:Frankia alni overview

| PRJNA35933 | ENA

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

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

The PEG-responding dessicome of Frankia alni

Project description: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.

2018-10-24 | PXD007226 | Pride

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

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

2010-09-12 | GSE18190 | GEO

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

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

2022-04-23 | PXD030468 | Pride

Frankia alni ACN14a

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

| PRJNA119551 | 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

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

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