Wöhlbrand, Lars and Wemheuer, Bernd and Feenders, Christoph and Ruppersberg, Hanna S. and Hinrichs, Christina and Blasius, Bernd and Daniel, Rolf and Rabus, Ralf (2017) Complementary metaproteomic approaches to assess the bacterioplankton response toward a phytoplankton spring bloom in the southern North Sea. Frontiers in microbiology, 8. ISSN 1664-302X

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Abstract

Annually recurring phytoplankton spring blooms are characteristic of temperate coastal shelf seas. During these blooms, environmental conditions, including nutrient availability, differ considerably from non-bloom conditions, affecting the entire ecosystem including the bacterioplankton. Accordingly, the emerging ecological niches during bloom transition are occupied by different bacterial populations, with Roseobacter RCA cluster and SAR92 clade members exhibiting high metabolic activity during bloom events. In this study, the functional response of the ambient bacterial community toward a Phaeocystis globosa bloom in the southern North Sea was studied using metaproteomic approaches. In contrast to other metaproteomic studies of marine bacterial communities, this is the first study comparing two different cell lysis and protein preparation methods [using trifluoroethanol (TFE) and in-solution digest as well as bead beating and SDS-based solubilization and in-gel digest (BB GeLC)]. In addition, two different mass spectrometric techniques (ESI-iontrap MS and MALDI-TOF MS) were used for peptide analysis. A total of 585 different proteins were identified, 296 of which were only detected using the TFE and 191 by the BB GeLC method, demonstrating the complementarity of these sample preparation methods. Furthermore, 158 proteins of the TFE cell lysis samples were exclusively detected by ESI-iontrap MS while 105 were only detected using MALDI-TOF MS, underpinning the value of using two different ionization and mass analysis methods. Notably, 12% of the detected proteins represent predicted integral membrane proteins, including the difficult to detect rhodopsin, indicating a considerable coverage of membrane proteins by this approach. This comprehensive approach verified previous metaproteomic studies of marine bacterioplankton, e.g., detection of many transport-related proteins (17% of the detected proteins). In addition, new insights into e.g., carbon and nitrogen metabolism were obtained. For instance, the C1 pathway was more prominent outside the bloom and different strategies for glucose metabolism seem to be applied under the studied conditions. Furthermore, a higher number of nitrogen assimilating proteins were present under non-bloom conditions, reflecting the competition for this limited macro nutrient under oligotrophic conditions. Overall, application of different sample preparation techniques as well as MS methods facilitated a more holistic picture of the marine bacterioplankton response to changing environmental conditions.

Item Type:	Article
Additional Information:	Publiziert mit Hilfe des DFG-geförderten Open Access-Publikationsfonds der Carl von Ossietzky Universität Oldenburg.
Uncontrolled Keywords:	metaproteomics, bacterioplankton, algal bloom, sample preparation, mass spectrometry
Subjects:	Science and mathematics > Chemistry Science and mathematics > Life sciences, biology
Divisions:	Faculty of Mathematics and Science > Institute for Chemistry and Biology of the Marine Environment (ICBM)
Date Deposited:	21 Sep 2017 13:32
Last Modified:	12 Dec 2017 09:59
URI:	https://oops.uni-oldenburg.de/id/eprint/3294
URN:	urn:nbn:de:gbv:715-oops-33757
DOI:	10.3389/fmicb.2017.00442
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