[HTML][HTML] Challenges and perspectives of metaproteomic data analysis

R Heyer, K Schallert, R Zoun, B Becher, G Saake… - Journal of …, 2017 - Elsevier
In nature microorganisms live in complex microbial communities. Comprehensive taxonomic
and functional knowledge about microbial communities supports medical and technical …

Challenges and approaches in microbiome research: from fundamental to applied

C Sergaki, B Lagunas, I Lidbury, ML Gifford… - Frontiers in Plant …, 2018 - frontiersin.org
We face major agricultural challenges that remain a threat for global food security. Soil
microbes harbor enormous potentials to provide sustainable and economically favorable …

Assessing species biomass contributions in microbial communities via metaproteomics

M Kleiner, E Thorson, CE Sharp, X Dong, D Liu… - Nature …, 2017 - nature.com
Microbial community structure can be analyzed by quantifying cell numbers or by quantifying
biomass for individual populations. Methods for quantifying cell numbers are already …

Organic matter processing by microbial communities throughout the Atlantic water column as revealed by metaproteomics

K Bergauer, A Fernandez-Guerra… - Proceedings of the …, 2018 - National Acad Sciences
The phylogenetic composition of the heterotrophic microbial community is depth stratified in
the oceanic water column down to abyssopelagic layers. In the layers below the euphotic …

Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows

T Van Den Bossche, BJ Kunath, K Schallert… - Nature …, 2021 - nature.com
Metaproteomics has matured into a powerful tool to assess functional interactions in
microbial communities. While many metaproteomic workflows are available, the impact of …

[HTML][HTML] Considerations for constructing a protein sequence database for metaproteomics

JA Blakeley-Ruiz, M Kleiner - Computational and structural biotechnology …, 2022 - Elsevier
Mass spectrometry-based metaproteomics has emerged as a prominent technique for
interrogating the functions of specific organisms in microbial communities, in addition to total …

Determination of the protein content of complex samples by aromatic amino acid analysis, liquid chromatography-UV absorbance, and colorimetry

K Reinmuth-Selzle, T Tchipilov, AT Backes… - Analytical and …, 2022 - Springer
Fast and accurate determination of the protein content of a sample is an important and non-
trivial task of many biochemical, biomedical, food chemical, pharmaceutical, and …

MetaLab: an automated pipeline for metaproteomic data analysis

K Cheng, Z Ning, X Zhang, L Li, B Liao, J Mayne… - Microbiome, 2017 - Springer
Background Research involving microbial ecosystems has drawn increasing attention in
recent years. Studying microbe-microbe, host-microbe, and environment-microbe …

Methodological advances to study contaminant biotransformation: new prospects for understanding and reducing environmental persistence?

K Fenner, M Elsner, T Lueders, MS McLachlan… - ACS Es&t …, 2021 - ACS Publications
Complex microbial communities in environmental systems play a key role in the
detoxification of chemical contaminants by transforming them into less active metabolites or …

A complete and flexible workflow for metaproteomics data analysis based on MetaProteomeAnalyzer and Prophane

H Schiebenhoefer, K Schallert, BY Renard, K Trappe… - Nature protocols, 2020 - nature.com
Metaproteomics, the study of the collective protein composition of multi-organism systems,
provides deep insights into the biodiversity of microbial communities and the complex …