Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Alicycliphilus denitrificans

ABSTRACT: Alicycliphilus denitrificans overview

PROVIDER: PRJNA41697 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	PGEJ01.dat.gz	Other
	PGEJ01.fasta.gz	Fasta.gz
	PGEJ01.master.dat	Other
	DRR256277_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 27

Similar Datasets

Alicycliphilus denitrificans K601

Project description:Alicycliphilus denitrificans K601 genome sequencing project.

| PRJNA50751 | ENA

Alicycliphilus denitrificans strain:DP3

Project description:Alicycliphilus denitrificans strain:DP3 Genome sequencing

| PRJNA624042 | ENA

Alicycliphilus denitrificans strain:Ylb10

Project description:Alicycliphilus denitrificans strain:Ylb10 Genome sequencing

| PRJNA950334 | ENA

Alicycliphilus denitrificans BC strain:BC

Project description:Alicycliphilus denitrificans BC whole genome sequencing

| PRJNA41663 | ENA

Alicycliphilus denitrificans strain:BQ1

Project description:Alicycliphilus denitrificans strain:BQ1 Genome sequencing and assembly

| PRJNA391731 | ENA

Alicycliphilus denitrificans strain:CD02

Project description:Alicycliphilus denitrificans strain:CD02 Genome sequencing and assembly

| PRJNA417200 | ENA

Alicycliphilus denitrificans strain:I51

Project description:Genome analysis project of Alicycliphilus denitrificans strain I51

| PRJDB10822 | ENA

Alicycliphilus denitrificans strain:I51

Project description:RNA-Seq based Gene Expression Analysis of Alicycliphilus denitrificans strain I51

| PRJDB12083 | ENA

Alicycliphilus

Project description:Alicycliphilus sp. overview

| PRJNA169059 | ENA

Proteomic response of Alicycliphilus denitrificans strain BC towards the different electron acceptors chlorate, nitrate and oxygen.

Project description:Alicycliphilus denitrificans is a versatile, ubiquitous, facultative anaerobic bacterium. A. denitrificans strain BC can use chlorate, nitrate and oxygen as electron acceptor for growth. Cells display a prolonged lag-phase when transferred from nitrate to chlorate and vice versa. Furthermore, cells adapted to aerobic growth do not easily use nitrate or chlorate as electron acceptor. We further investigated these responses of strain BC by differential proteomics, transcript analysis and enzyme activity assays. In nitrate-adapted cells transferred to chlorate and vice versa, appropriate electron acceptor reduction pathways need to be activated. In oxygen-adapted cells, adaptation to the use of chlorate or nitrate is likely difficult due to the poorly active nitrate reduction pathway and low active chlorate reduction pathway. We deduce that the Nar-type nitrate reductase of strain BC also reduces chlorate, which may result in toxic levels of chlorite if cells are transferred to chlorate. Furthermore, the activities of nitrate reductase and nitrite reductase appear to be not balanced when oxygen-adapted cells a shifted to nitrate as electron acceptor, leading to the production of a toxic amount of nitrite. These data suggest that strain BC encounters metabolic challenges in environments with fluctuations in the availability of electron acceptors. Proteomic samples were prepared from Alicycliphilus denitrificans grown in the presence of different electron acceptors: chlorate, nitrate and oxygen. Proteins were separated by a short SDS gel and for each sample 4 in-gel digest slices were prepared. Peptide samples were measured by nLC LTQ-Orbitrap and the data were analysed with MaxQuant using default settings (1% FDR on peptide and protein level) and filtered extra to keep only proteins identified with at least 2 peptides and 1 unique and 1 unmodified peptide.

2013-08-12 | PXD000258 | Pride

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