Enhancing metaproteomics-The value of models and defined environmental microbial systems

Herbst, Florian-Alexander; Lünsmann, Vanessa; Kjeldal, Henrik; Jehmlich, Nico; Tholey, Andreas; von Bergen, Martin; Nielsen, Jeppe Lund; Hettich, Robert L.; Seifert, Jana; Nielsen, Per Halkjaer

doi:10.1002/pmic.201500305

Title: Enhancing metaproteomics-The value of models and defined environmental microbial systems

Journal Article · Thu Jan 21 00:00:00 EST 2016 · Proteomics

DOI:https://doi.org/10.1002/pmic.201500305· OSTI ID:1286990

Herbst, Florian-Alexander ^[1]; Lünsmann, Vanessa ^[2]; Kjeldal, Henrik ^[1]; Jehmlich, Nico ^[2]; Tholey, Andreas ^[3]; von Bergen, Martin ^[4]; Nielsen, Jeppe Lund ^[1]; Hettich, Robert L. ^[5]; Seifert, Jana ^[6]; Nielsen, Per Halkjaer ^[1]

Aalborg Univ. (Denmark)
Helmholtz Centre for Environmental Research, Leipzig (Germany)
Univ. of Kiel (Germany)
Aalborg Univ. (Denmark); Helmholtz Centre for Environmental Research, Leipzig (Germany)
Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
Univ. of Hohenheim, Stuttgart (Germany)

Metaproteomicsthe large-scale characterization of the entire protein complement of environmental microbiota at a given point in timehas provided new features to study complex microbial communities in order to unravel these black boxes. Some new technical challenges arose that were not an issue for classical proteome analytics before that could be tackled by the application of different model systems. Here, we review different current and future model systems for metaproteome analysis. We introduce model systems for clinical and biotechnological research questions including acid mine drainage, anaerobic digesters, and activated sludge, following a short introduction to microbial communities and metaproteomics. Model systems are useful to evaluate the challenges encountered within (but not limited to) metaproteomics, including species complexity and coverage, biomass availability, or reliable protein extraction. Moreover, the implementation of model systems can be considered as a step forward to better understand microbial community responses and ecological functions of single member organisms. In the future, improvements are necessary to fully explore complex environmental systems by metaproteomics.

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Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 1286990

Journal Information:: Proteomics, Vol. 16, Issue 5; ISSN 1615-9853

Publisher:: WileyCopyright Statement

Country of Publication:: United States

Language:: English

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Cited by: 35 works

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