PXD014482

PXD014482 is an original dataset announced via ProteomeXchange.

Title	Initial storage impacts taxonomic profile in metaproteomics study of human stool
Description	With the technological advances of the last decade, it is now feasible to analyze environmental samples of vast complexity, such as human stool specimen, using meta-omics techniques like metaproteomics. Still the most sophisticated, sensitive instruments can only extract information that a sample contains in the first place. This highlights the need for initial sample preparation to preserve as much unaltered information as possible. Yet little is known about the effects different processing approaches have on the final analysis results. This study analyzes human stool samples applying metaproteomics and shows that the initial sample storage has a massive effect on the taxonomic composition of proteins identified. The findings are backed up by the results of the metagenomics analysis of the same samples. This suggests, that great care should be taken in choosing storage conditions for (omics) studies, as well as in comparing the results of experiments with different initial processing.
HostingRepository	PRIDE
AnnounceDate	2019-09-26
AnnouncementXML	Submission_2019-09-26_05:44:45.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Oskar Hickl
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-04 03:37:09	ID requested
1	2019-09-25 18:37:17	announced
⏵ 2	2019-09-26 05:44:46	announced	2019-09-26: Updated publication reference for PubMed record(s): 31546776.

Hickl O, Heintz-Buschart A, Trautwein-Schult A, Hercog R, Bork P, Wilmes P, Becher D, Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome. Microorganisms, 7(9):(2019) [pubmed]

curator keyword: Technical, Biological

submitter keyword: proteomics, metaproteomics, metagenomics, microbiome, flash freezing, RNAlater, sample storage

Dörte Becher
contact affiliation	Microbial Proteomics, Institute for Microbiology, Greifswald, Germany
contact email	dbecher@uni-greifswald.de
lab head
Oskar Hickl
contact affiliation	Universität Greifswald
contact email	oh161019@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/2019/09/PXD014482

PRIDE project URI

• PRIDE
  1. PXD014482
     1. Label: PRIDE project
     2. Name: Initial storage impacts taxonomic profile in metaproteomics study of human stool