PXD048255

PXD048255 is an original dataset announced via ProteomeXchange.

Title	GroEL-proteotypbing-based stable isotope probing of Thauera aromatica K172, Pseudomonas putida KT2440, and Escherichia coli BL21(DE3)
Description	This dataset has been used to establish GroEL-SIP, coupling a targeted proteotyping approach for assessing bacterial community compositions using the taxonomic marker protein GroEL with stable isotope probing to link the identified taxa to substrate assimilation. This dataset contains raw data of four experiments: 1.) Pure cultures of T. aromatica cultivated with 13C or 12C benzoate mixed in defined ratios. 2.) Pure cultures of P. putida cultivated with 13C or 12C benzoate mixed in a 1:1 ratio. 3.) Pure cultures of E. coli cultivated with 12C acetate and 13C or 12C benzoate mixed in a 1:1 ratio. 4.) Co-cultivated biculture of T. aromatica and P. putida cultivated with 13C or 12C benzoate and mixed in a 1:1 ratio. 5.) Co-cultivated biculture of T. aromatica and E. coli cultivated with 12c acetate and 13C or 12C benzoate and mixed in a 1:1 ratio. 1)-3) were analyzed after in-solution digestion 4)-5) were analyzed after in-gel digestion of the 60 kDa band
HostingRepository	PRIDE
AnnounceDate	2024-10-17
AnnouncementXML	Submission_2024-10-17_08:19:31.500.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Simon Klaes
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Thauera aromatica K172; NCBI TaxID: 44139; scientific name: Escherichia coli BL21(DE3); NCBI TaxID: 469008; scientific name: Pseudomonas putida KT2440; NCBI TaxID: 160488;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-04 09:51:34	ID requested
⏵ 1	2024-10-17 08:19:31	announced

Dataset with its publication pending

submitter keyword: protein-SIP, stable isotope probing,GroEL-proteotyping

Lorenz Adrian
contact affiliation	Helmholtz Centre for Environmental Research - UFZ, Environmental Biotechnology and Technische Universität Berlin, Geobiotechnology
contact email	lorenz.adrian@ufz.de
lab head
Simon Klaes
contact affiliation	Helmholtz Centre for Environmental Research - UFZ
contact email	simon.klaes@ufz.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/PXD048255

PRIDE project URI

• PRIDE
  1. PXD048255
     1. Label: PRIDE project
     2. Name: GroEL-proteotypbing-based stable isotope probing of Thauera aromatica K172, Pseudomonas putida KT2440, and Escherichia coli BL21(DE3)