PXD010550

PXD010550 is an original dataset announced via ProteomeXchange.

Title	A robust and universal metaproteomics workflow for research studies and routine diagnostics within 24 hours
Description	A new workflow for metaproteomics is presented in this study and is shown to enable the analysis of a broad range of different samples in only 24 h. The standardized sample preparation includes the combined cell lysis and phenol extraction in a ball mill followed by FASP digestion. The bioinformatic workflow using the MetaProteomeAnalyzer software was expanded with new functionalities such as annotation of metaproteins via protein BLAST or an integrated compare tool. The new workflow was shown to produce at least two times the protein identifications than previous iterations. Through many individual improvements combined into a single standardized workflow, a drastic increase in the quantity and quality of generated results was achieved.
HostingRepository	PRIDE
AnnounceDate	2019-09-04
AnnouncementXML	Submission_2019-09-04_04:46:48.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kay Schallert
SpeciesList	scientific name: Enterobacteriaceae sp.; NCBI TaxID: 126790; scientific name: Methanosarcinales; NCBI TaxID: 94695;
ModificationList	monohydroxylated residue; iodoacetic acid derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-24 23:51:23	ID requested
⏵ 1	2019-09-04 04:46:50	announced

Heyer R, Schallert K, B, ü, del A, Zoun R, Dorl S, Behne A, Kohrs F, P, ü, ttker S, Siewert C, Muth T, Saake G, Reichl U, Benndorf D, A Robust and Universal Metaproteomics Workflow for Research Studies and Routine Diagnostics Within 24 h Using Phenol Extraction, FASP Digest, and the MetaProteomeAnalyzer. Front Microbiol, 10():1883(2019) [pubmed]

curator keyword: Metaproteomics, Technical

submitter keyword: Bioinformatics, Software, Sample preparation, Environmental proteomics, Microbial communities, Mass spectrometry

Dirk Benndorf
contact affiliation	Otto-von-Guericke-University / Max Planck Institute for Dynamics of Complex Technical Systems, Magdeburg, Germany
contact email	benndorf@mpi-magdeburg.mpg.de
lab head
Kay Schallert
contact affiliation	Otto-von-Guericke University Magdeburg
contact email	kay.schallert@ovgu.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/2019/09/PXD010550

PRIDE project URI

• PRIDE
  1. PXD010550
     1. Label: PRIDE project
     2. Name: A robust and universal metaproteomics workflow for research studies and routine diagnostics within 24 hours