Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Phyllosphere

ABSTRACT: Coffee phyllosphere Genome sequencing and assembly

PROVIDER: PRJNA1004833 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR25620882_1.fastq.gz	Fastqsanger.gz
	SRR25620882_2.fastq.gz	Fastqsanger.gz
	SRR25620888.fastq.gz	Fastqsanger.gz
	SRR25620888_1.fastq.gz	Fastqsanger.gz
	SRR25620888_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 5

Similar Datasets

Transcriptome analysis of Arthrobacter in the phyllosphere

2013-06-21 | GSE48198 | GEO

Transcriptome analysis of Arthrobacter in the phyllosphere

Project description:Arthrobacter chlorophenolicus A6 is a 4-chlorophenol degrading soil bacterium with high phyllosphere colonization capacity. Till now the genetic basis for the phyllosphere competency of Arthrobacter or other pollutant-degrading bacteria is uncertain. We investigated global gene expression profile of A. chlorophenolicus grown in the phyllosphere of common bean (Phaseolus vulgaris) compared to growth on agar surfaces. We designed transcriptome arrays and investigated which genes had different transcript levels in the phyllosphere of common bean (Phaseolus vulgaris) as compared to agar surfaces. Since water availability is considered an important factor in phyllosphere survival and activity, we included both high and low relative humidity treatments for the phyllosphere-grown cells. In addition, we determined the expression profile under pollutant exposure by the inclusion of two agar surface treatments, i.e. with and without 4-chlorophenol.

2013-06-21 | E-GEOD-48198 | biostudies-arrayexpress

Leaf transcriptomes of Arabidopsis thaliana colonized by representative phyllosphere commensals alone and in combination with the pathogen Pseudomonas syringae DC3000

Project description:Plants are colonized by a variety of microorganisms, the plant microbiota. In the phyllosphere, the above-ground parts of plants, bacteria are the most abundant inhabitants. Most of these microorganisms are not pathogenic and the plant responses to commensals or to pathogen infection in the presence of commensals are not well understood. We report the Arabidopsis leaf transcriptome after 3 to 4 weeks of colonization by Methylobacterium extorquens PA1 and Sphingomonas melonis Fr1, representatives of two abundant genera in the phyllosphere, compared to axenic plants. In addition, we also sequenced the transcriptome of Arabidopsis 2 and 7 days after spray-infection with a low dose of P. syringae DC3000 and in combination with the commensals.

2016-06-05 | E-MTAB-4683 | biostudies-arrayexpress

Phyllosphere Fungal Communities of Coffee arabica

Project description:Fungal Communities in the phyllosphere of Coffee arabica Raw sequence reads

| PRJNA559969 | ENA

Soil Earthworm Phyllosphere

Project description:Soil Earthworm Phyllosphere Genome sequencing

| PRJNA1044938 | ENA

Arabidopsis phyllosphere bacteria

Project description:Genome sequencing of Arabidopsis phyllosphere isolates

| PRJEB47672 | ENA

phyllosphere metagenome

Project description:Phyllosphere Metagenome

| PRJNA271827 | ENA

rice phyllosphere bacterial communities

Project description:rice phyllosphere bacterial communities Assembly

| PRJNA675674 | ENA

Use of rare-earth elements in the phyllosphere colonizer Methylobacterium extorquens PA1

Project description:Until recently, rare-earth elements (REEs) had been thought to be biologically inactive. This view changed with the discovery of the methanol dehydrogenase (Mdh) XoxF that strictly relies on REEs for its activity. Some methylotrophs only contain xoxF, while others, including the model phyllosphere colonizer Methylobacterium extorquens PA1, harbor this gene in addition to mxaFI encoding a Ca2+-dependent enzyme. Here we found that REEs induce the expression of xoxF in M. extorquens PA1, while repressing mxaFI, suggesting that XoxF is the preferred Mdh. Using reporter assays and a suppressor screen, we found that La3+ is sensed both in a XoxF-dependent and independent manner. Furthermore, we investigated the role of REEs during Arabidopsis thaliana colonization. Element analysis of the phyllosphere revealed the presence of several REEs at concentrations up to 10 μg per g dry weight. Complementary proteome analyses of M. extorquens PA1 revealed XoxF as a top induced protein in planta and resulted in the identification of a core set of La3+-regulated proteins under defined artificial media conditions. Among these, we identified a potential REE-binding protein that is encoded next to a gene for a TonB-dependent transporter. The latter was essential for REE-dependent growth on methanol indicating chelator-assisted uptake of REEs.

2019-01-21 | PXD011842 | Pride

Bamboo phyllosphere

Project description:Bamboo phyllosphere microbiota

| PRJNA1149295 | ENA