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      Oligotrophic wetland sediments susceptible to shifts in microbiomes and mercury cycling with dissolved organic matter addition

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          Abstract

          Recent advances have allowed for greater investigation into microbial regulation of mercury toxicity in the environment. In wetlands in particular, dissolved organic matter (DOM) may influence methylmercury (MeHg) production both through chemical interactions and through substrate effects on microbiomes. We conducted microcosm experiments in two disparate wetland environments (oligotrophic unvegetated and high-C vegetated sediments) to examine the impacts of plant leachate and inorganic mercury loadings (20 mg/L HgCl 2) on microbiomes and MeHg production in the St. Louis River Estuary. Our research reveals the greater relative capacity for mercury methylation in vegetated over unvegetated sediments. Further, our work shows how mercury cycling in oligotrophic unvegetated sediments may be susceptible to DOM inputs in the St. Louis River Estuary: unvegetated microcosms receiving leachate produced substantially more MeHg than unamended microcosms. We also demonstrate (1) changes in microbiome structure towards Clostridia, (2) metagenomic shifts toward fermentation, and (3) degradation of complex DOM; all of which coincide with elevated net MeHg production in unvegetated microcosms receiving leachate. Together, our work shows the influence of wetland vegetation in controlling MeHg production in the Great Lakes region and provides evidence that this may be due to both enhanced microbial activity as well as differences in microbiome composition.

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          Stochastic and deterministic assembly processes in subsurface microbial communities.

          A major goal of microbial community ecology is to understand the forces that structure community composition. Deterministic selection by specific environmental factors is sometimes important, but in other cases stochastic or ecologically neutral processes dominate. Lacking is a unified conceptual framework aiming to understand why deterministic processes dominate in some contexts but not others. Here we work toward such a framework. By testing predictions derived from general ecological theory we aim to uncover factors that govern the relative influences of deterministic and stochastic processes. We couple spatiotemporal data on subsurface microbial communities and environmental parameters with metrics and null models of within and between community phylogenetic composition. Testing for phylogenetic signal in organismal niches showed that more closely related taxa have more similar habitat associations. Community phylogenetic analyses further showed that ecologically similar taxa coexist to a greater degree than expected by chance. Environmental filtering thus deterministically governs subsurface microbial community composition. More importantly, the influence of deterministic environmental filtering relative to stochastic factors was maximized at both ends of an environmental variation gradient. A stronger role of stochastic factors was, however, supported through analyses of phylogenetic temporal turnover. Although phylogenetic turnover was on average faster than expected, most pairwise comparisons were not themselves significantly non-random. The relative influence of deterministic environmental filtering over community dynamics was elevated, however, in the most temporally and spatially variable environments. Our results point to general rules governing the relative influences of stochastic and deterministic processes across micro- and macro-organisms.
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            Complex Glycan Catabolism by the Human Gut Microbiota: The Bacteroidetes Sus-like Paradigm*

            Trillions of microbes inhabit the distal gut of adult humans. They have evolved to compete efficiently for nutrients, including a wide array of chemically diverse, complex glycans present in our diets, secreted by our intestinal mucosa, and displayed on the surfaces of other gut microbes. Here, we review how members of the Bacteroidetes, one of two dominant gut-associated bacterial phyla, process complex glycans using a series of similarly patterned, cell envelope-associated multiprotein systems. These systems provide insights into how gut, as well as terrestrial and aquatic, Bacteroidetes survive in highly competitive ecosystems.
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              THE CHEMICAL CYCLE AND BIOACCUMULATION OF MERCURY

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                Author and article information

                Contributors
                Journal
                PeerJ
                PeerJ
                peerj
                peerj
                PeerJ
                PeerJ Inc. (San Francisco, USA )
                2167-8359
                3 April 2018
                2018
                : 6
                : e4575
                Affiliations
                [1 ]Biological Sciences Division, Pacific Northwest National Laboratory , Richland, WA, United States of America
                [2 ]School of Environment and Natural Resources, Ohio State University , Columbus, OH, United States of America
                [3 ]Lake Superior National Estuarine Research Reserve , Superior, WI, United States of America
                [4 ]Institute for Arctic and Alpine Research, University of Colorado at Boulder , Boulder, CO, United States of America
                [5 ]Civil Engineering Department, University of Colorado at Boulder , Boulder, CO, United States of America
                [6 ]Environmental Studies Program, University of Colorado at Boulder , Boulder, CO, United States of America
                [7 ]Biology Department, Duke University , Durham, NC, United States of America
                Article
                4575
                10.7717/peerj.4575
                5888151
                29632744
                db6b24ae-b7b1-4e47-87bc-39a6478bb14b
                ©2018 Graham et al.

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

                History
                : 1 February 2018
                : 15 March 2018
                Funding
                Funded by: EPA STAR
                Funded by: NOAA NERRS
                Funded by: US Department of Energy (DOE)
                Funded by: Office of Biological and Environmental Research (BER)
                Funded by: Subsurface Biogeochemical Research Program’s Scientific Focus Area (SFA)
                Funded by: Pacific Northwest National Laboratory (PNNL)
                This work was supported by EPA STAR and NOAA NERRS fellowships to Emily B. Graham and a JGI CSP grant to Diana R. Nemergut. The authors received support from the US Department of Energy (DOE), Office of Biological and Environmental Research (BER), as part of Subsurface Biogeochemical Research Program’s Scientific Focus Area (SFA) at the Pacific Northwest National Laboratory (PNNL). PNNL is operated for DOE by Battelle under contract DE-AC06-76RLO 1830. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Microbiology
                Freshwater Biology
                Aquatic and Marine Chemistry
                Biogeochemistry
                Environmental Impacts

                mercury methylation,fermentation,carbon,microbial community structure,sediment microbiome,mercury contamination,freshwater microbiology,wild rice,fluorescence spectroscopy,organic matter chemistry

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