PXD015715

PXD015715 is an original dataset announced via ProteomeXchange.

Title	Acidobacteria Granulicella sp. WH15 responses to carbon stress
Description	Acidobacteria is a widely distributed phylum in soils, which possesses a relatively small number of cultured representatives. In general, Acidobacteria are considered to be oligothroph, able to succeed growth in poor nutrient environments and exhibiting slow growth under laboratory conditions. However, some isolates are able to grow in higher sugar concentrations, and several genes encoding glycosyl hydrolases were already found in acidobacterial genomes. The objective of this study was to sequence the genome of one acidobacterium species strain, i.e. Granulicella sp. (WH15), and determine the transcriptome and proteome responses in conditions with low and high sugar concentrations. Our study demonstrated the presence of 217 carbohydrate associated enzymes in the genome of the strain WH15. Integrated analysis of the transcriptomic and proteomic profiles showed that, in higher sugar concentrations, a stress response was triggered. Cell wall stress-related transcripts, such as sigma factor σW and the toxin-antitoxin (TA) systems were upregulated, as well as several proteins involved in detoxification and repair, for instance MdtA and OprM. KEGG metabolic pathway analysis indicated the repression of the carbon metabolism, especially the pentose phosphate pathway, demonstrating a decline of cell activity, with reduction of protein synthesis, carbohydrates metabolism and cell division. The present study demonstrated that the addition of a high sugar concentration in the culture medium triggered a stress response in Granulicella sp WH15, intensifying excretory functions to eliminate toxic compounds and reallocating resources towards maintenance instead of growth.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:05:37.909.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniela Zuehlke
SpeciesList	scientific name: Granulicella sp.; NCBI TaxID: 1969471;
ModificationList	monohydroxylated residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2019-10-07 01:29:30	ID requested
1	2020-05-26 15:28:08	announced
⏵ 2	2024-10-22 05:05:40	announced	2024-10-22: Updated project metadata.

10.3390/microorganisms8020244;

Costa OYA, Zerillo MM, Z, ü, hlke D, Kielak AM, Pijl A, Riedel K, Kuramae EE, sp. WH15 to High Carbon Revealed by Integrated Omics Analyses. Microorganisms, 8(2):(2020) [pubmed]

curator keyword: Biological

submitter keyword: stress signal, Proteome, transporters,Genome, sigma factor σW, Transcriptome, Oligothroph

Katharina Riedel
contact affiliation	University of Greifswald, Institute of Microbiology, Department of Microbial Physiology and Molecular Biology, Greifswald, Germany
contact email	riedela@uni-greifswald.de
lab head
Daniela Zuehlke
contact affiliation	University of Greifswald, Institute of Microbiology
contact email	zuehlke@uni-greifswald.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2020/05/PXD015715

PRIDE project URI

• PRIDE
  1. PXD015715
     1. Label: PRIDE project
     2. Name: Acidobacteria Granulicella sp. WH15 responses to carbon stress