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Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer.
J Proteomics 2017; 152:153-160JP

Abstract

Groundwater-associated microorganisms are known to play an important role in the biogeochemical C, N and S cycling. Metaproteomics was applied to characterize the diversity and the activity of microbes to identify key species in major biogeochemical processes in the anoxic groundwater of a pristine karstic aquifer located in Hainich, central Germany. Sampling was achieved by pumping 1000L water from two sites of the upper aquifer assemblage and filtration on 0.3μm glass filters. In total, 3808 protein groups were identified. Interestingly, the two wells (H4/2 and H5/2) differed not only in microbial density but also in the prevalence of different C, N and S cycling pathways. The well H5/2 was dominated by the anaerobic ammonia-oxidizing (anammox) candidate Brocadiales (31%) while other orders such as Burkholderiales (2%) or Nitrospirales (3%) were less abundant. Otherwise, the well H4/2 featured only low biomass and remarkably fewer proteins (391 to 3631 at H5/2). Candidate Brocadiales was affiliated to all major carbon fixation strategies, and to the cycling of N and S implying a major role in biogeochemical processes of groundwater aquifers. The findings of our study support functions which can be linked to the ecosystem services provided by the microbial communities present in aquifers.

SIGNIFICANCE

Subsurface environments especially the groundwater ecosystems represent a large habitat for microbial activity. Microbes are responsible for energy and nutrient cycling and are massively involved in the planet's sustainability. Microbial diversity is tremendous and the central question in current microbial ecology is "Who eats what, where and when?". In this study, we characterize a natural aquifer inhabiting microbial community to obtain evidence for the phylogenetic diversity and the metabolic activity by protein abundance and we highlight important biogeochemical cycling processes. The aquifer was dominated by Candidatus Brocadiales while other phylotypes such as Burkholderiales, Caulobacterales and Nitrospirales were less abundant. The candidate comprised all major carbon fixation strategies, ammonification, anammox and denitrification as well as assimilatory sulfate reduction. Our findings have broad implications for the understanding of microbial activities in this aquifer and consequently specific functions can be linked to the ecosystem services provided by the microbial communities present in aquifers.

Authors+Show Affiliations

Helmholtz-Centre for Environmental Research - UFZ, Department of Molecular Systems Biology, Leipzig, Germany.Helmholtz-Centre for Environmental Research - UFZ, Department of Molecular Systems Biology, Leipzig, Germany.Aquatic Geomicrobiology, Institute of Ecology, Friedrich Schiller University Jena, Germany; Faculty of Mathematics and Computer Science, Friedrich Schiller University Jena, Germany.Faculty of Mathematics and Computer Science, Friedrich Schiller University Jena, Germany; FLI Leibniz Institute for Age Research, Jena, Germany.Aquatic Geomicrobiology, Institute of Ecology, Friedrich Schiller University Jena, Germany; German Centre for integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Germany.Department of Hydrogeology, Institute of Geosciences, Friedrich Schiller University of Jena, Germany.Helmholtz-Centre for Environmental Research - UFZ, Department of Molecular Systems Biology, Leipzig, Germany; University of Leipzig, Faculty of Biosciences, Pharmacy and Psychology, Institute of Biochemistry, Leipzig, Germany; Aalborg University, Department of Chemistry and Bioscience, 9220 Aalborg, Denmark.Helmholtz-Centre for Environmental Research - UFZ, Department of Molecular Systems Biology, Leipzig, Germany. Electronic address: nico.jehmlich@ufz.de.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

27838466

Citation

Starke, Robert, et al. "Candidate Brocadiales Dominates C, N and S Cycling in Anoxic Groundwater of a Pristine Limestone-fracture Aquifer." Journal of Proteomics, vol. 152, 2017, pp. 153-160.
Starke R, Müller M, Gaspar M, et al. Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer. J Proteomics. 2017;152:153-160.
Starke, R., Müller, M., Gaspar, M., Marz, M., Küsel, K., Totsche, K. U., ... Jehmlich, N. (2017). Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer. Journal of Proteomics, 152, pp. 153-160. doi:10.1016/j.jprot.2016.11.003.
Starke R, et al. Candidate Brocadiales Dominates C, N and S Cycling in Anoxic Groundwater of a Pristine Limestone-fracture Aquifer. J Proteomics. 2017 01 30;152:153-160. PubMed PMID: 27838466.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Candidate Brocadiales dominates C, N and S cycling in anoxic groundwater of a pristine limestone-fracture aquifer. AU - Starke,Robert, AU - Müller,Martina, AU - Gaspar,Michael, AU - Marz,Manja, AU - Küsel,Kirsten, AU - Totsche,Kai Uwe, AU - von Bergen,Martin, AU - Jehmlich,Nico, Y1 - 2016/11/10/ PY - 2016/08/08/received PY - 2016/10/28/revised PY - 2016/11/07/accepted PY - 2016/11/14/pubmed PY - 2017/12/9/medline PY - 2016/11/14/entrez KW - Biogeochemical cycling KW - Groundwater KW - Limestone aquifer KW - Metaproteomics SP - 153 EP - 160 JF - Journal of proteomics JO - J Proteomics VL - 152 N2 - : Groundwater-associated microorganisms are known to play an important role in the biogeochemical C, N and S cycling. Metaproteomics was applied to characterize the diversity and the activity of microbes to identify key species in major biogeochemical processes in the anoxic groundwater of a pristine karstic aquifer located in Hainich, central Germany. Sampling was achieved by pumping 1000L water from two sites of the upper aquifer assemblage and filtration on 0.3μm glass filters. In total, 3808 protein groups were identified. Interestingly, the two wells (H4/2 and H5/2) differed not only in microbial density but also in the prevalence of different C, N and S cycling pathways. The well H5/2 was dominated by the anaerobic ammonia-oxidizing (anammox) candidate Brocadiales (31%) while other orders such as Burkholderiales (2%) or Nitrospirales (3%) were less abundant. Otherwise, the well H4/2 featured only low biomass and remarkably fewer proteins (391 to 3631 at H5/2). Candidate Brocadiales was affiliated to all major carbon fixation strategies, and to the cycling of N and S implying a major role in biogeochemical processes of groundwater aquifers. The findings of our study support functions which can be linked to the ecosystem services provided by the microbial communities present in aquifers. SIGNIFICANCE: Subsurface environments especially the groundwater ecosystems represent a large habitat for microbial activity. Microbes are responsible for energy and nutrient cycling and are massively involved in the planet's sustainability. Microbial diversity is tremendous and the central question in current microbial ecology is "Who eats what, where and when?". In this study, we characterize a natural aquifer inhabiting microbial community to obtain evidence for the phylogenetic diversity and the metabolic activity by protein abundance and we highlight important biogeochemical cycling processes. The aquifer was dominated by Candidatus Brocadiales while other phylotypes such as Burkholderiales, Caulobacterales and Nitrospirales were less abundant. The candidate comprised all major carbon fixation strategies, ammonification, anammox and denitrification as well as assimilatory sulfate reduction. Our findings have broad implications for the understanding of microbial activities in this aquifer and consequently specific functions can be linked to the ecosystem services provided by the microbial communities present in aquifers. SN - 1876-7737 UR - https://www.unboundmedicine.com/medline/citation/27838466/Candidate_Brocadiales_dominates_C_N_and_S_cycling_in_anoxic_groundwater_of_a_pristine_limestone_fracture_aquifer_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S1874-3919(16)30470-5 DB - PRIME DP - Unbound Medicine ER -