PXD047252

PXD047252 is an original dataset announced via ProteomeXchange.

Title	Tracing active members in microbial communities by BONCAT and click chemistry-based enrichment of newly synthesised proteins
Description	Metaproteomics enables the description of microbial communities (MC). Microbial adaptation to changing environments is conducted by expressing newly synthesized proteins (nP) that can be difficult to distinguish from background proteins. Focusing on nP would add a new dimension to the metaproteomics of MC. Bioorthogonal non-canonical amino acid tagging (BONCAT) is a promising approach to label nP without significantly influencing the natural behavior of MC. However, direct detection of the BONCAT-labeled nP is limited due to their low abundance compared to total protein. Consequently, enrichment of the BONCAT-labeled nP is essential. We present a workflow using click chemistry (CC) and affinity chromatography to isolate nP from MC. The workflow was developed using a mixture of E. coli (labeled) and yeast (unlabeled control) as a test system. The established workflow was also applied to an MC of a laboratory biogas reactor (LBR).
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_12:13:16.102.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Patrick Hellwig
SpeciesList	scientific name: Escherichia coli (strain K12 / W3110 / ATCC 27325 / DSM 5911); NCBI TaxID: 316407; scientific name: anaerobic digester metagenome; NCBI TaxID: 1263854; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-26 23:12:49	ID requested
⏵ 1	2024-10-17 12:13:16	announced

Dataset with its publication pending

submitter keyword: BONCAT, anaerobic digestion,Metaproteomics, microbiome, mass spectrometry, click chemistry

Prof. Dr.
contact affiliation	Hochschule Anhalt Fachbereich 7 - Angewandte Biowissenschaften und Prozesstechnik (BWP) Bernburger Straße 55 06366 Köthen Germany
contact email	dirk.benndorf@hs-anhalt.de
lab head
Patrick Hellwig
contact affiliation	Otto-von-Guericke-University Universitätsplatz 2 39106 Magdeburg Germany
contact email	hellwig@mpi-magdeburg.mpg.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/2024/10/PXD047252

PRIDE project URI

• PRIDE
  1. PXD047252
     1. Label: PRIDE project
     2. Name: Tracing active members in microbial communities by BONCAT and click chemistry-based enrichment of newly synthesised proteins