Proteomics

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Initial storage impacts taxonomic profile in metaproteomics study of human stool

ABSTRACT: 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.

INSTRUMENT(S): LTQ Orbitrap Elite

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Oskar Hickl  

LAB HEAD: Dörte Becher

PROVIDER: PXD014482 | Pride | 2019-09-26

REPOSITORIES: Pride

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Dataset's files

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Action DRS
20190327_A_samples_generic_clean_30-50k_aa_cont_rev_v2.fasta.gz Fasta.gz
FlashFrozen_vs_RNAlater_Scaffold.sf3.gz Other
PEAK.tar.gz Other
SEARCH.tar.gz Other
aff_01.tar.gz Other
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Publications

Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome.

Hickl Oskar O   Heintz-Buschart Anna A   Trautwein-Schult Anke A   Hercog Rajna R   Bork Peer P   Wilmes Paul P   Becher Dörte D  

Microorganisms 20190919 9

With the technological advances of the last decade, it is now feasible to analyze microbiome samples, such as human stool specimens, using multi-omic techniques. Given the inherent sample complexity, there exists a need for sample methods which preserve as much information as possible about the biological system at the time of sampling. Here, we analyzed human stool samples preserved and stored using different methods, applying metagenomics as well as metaproteomics. Our results demonstrate that  ...[more]

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