Microbial Community Structure and Metabolic Potential of the Hyporheic Zone of a Large Mid-Stream Channel Bar

Sackett, Joshua; Shope, Christopher L.; Bruckner, James; Wallace, J. R.; Cooper, Clay A.; Moser, Duane P.

doi:10.1080/01490451.2019.1621964

Cited by 17 publications

(12 citation statements)

References 58 publications

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“…Sediments serve as an effective organic matter sink, and sediment microbial activity profoundly influences organic carbon biogeochemistry, which could be higher for rivers with diverse channel morphology, including dynamic sediment structures favoring hydrodynamic exchange and residence time distribution (Fischer et al, 2002), as provided by gravel bars (Beechie et al, 2010;Sackett et al, 2019). Additionally, pH level significantly influenced the distribution of the sediment microbiome and was found to be significantly different between the Trinity River and tributary gravel bars and free-flowing sites.…”

Section: Discussionmentioning

confidence: 99%

“…In particular, restored gravel bars can diversify the hydrodynamic exchange and water residence time distribution (Boano et al, 2014) and promote the re-establishment of normative rates and magnitudes of physical, chemical, and biological processes that sustain the river ecosystem (Beechie et al, 2010). Gravel bars provide areas of increased biogeochemical activities due to the enforced hydrodynamic exchange (Sackett et al, 2019). They retain organic matter in the hyporheic zone (i.e., the interface between surface and groundwater) filtered from surface water for the use of river biota, and enhances nutrient cycling with consequent benefits to ecosystem metabolism (Mendoza-Lera & Datry, 2017).…”

Section: Introductionmentioning

confidence: 99%

“…Given that river restoration programs improve the habitat characteristics of previously degraded channels, which may, in turn, influence the diversity and composition of sediment microbial communities (Chen et al, 2018;Levi et al, 2017), microorganisms can provide powerful insights into the progression of aquatic habitat restoration. Microbial community structure and functional diversity have been commonly used as indicators of lotic ecosystem health (Morris et al, 2020;Sackett et al, 2019;Staley et al, 2013).…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Profiling the microbial community structure and functional diversity of a dam‐regulated river undergoing gravel bar restoration

Serrana

Takemon

et al. 2021

Freshwater Biology

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Profiling the microbial community structure and functional diversity of a dam‐regulated river undergoing gravel bar restoration

Serrana

Takemon

et al. 2021

Freshwater Biology

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“…However, partially‐submerged and large‐scale CB deposits have not yet received significant attention in the context of hyporheic exchange. Prior work on partially‐submerged bars has examined solute transport (Groffman et al, 2005; Malard et al, 2002; Marzadri et al, 2012; Trauth et al, 2015) and microbial community development (Malard et al, 2002; Sackett et al, 2019) using sparse sediment sampling (Groffman et al, 2005) and numerical modeling (Marzadri et al, 2012; Trauth et al, 2015). These studies relied on topographic measurements and surficial grain size observations.…”

Section: Introductionmentioning

confidence: 99%

Geophysical mapping of hyporheic processes controlled by sedimentary architecture within compound bar deposits

McGarr

Wallace

Ntarlagiannis

et al. 2021

Hydrological Processes

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Hyporheic exchange influences water quality and controls numerous physical, chemical, and biological processes. Despite its importance, hyporheic exchange and the associated dynamics of solute mixing are often difficult to characterize due to spatial (e.g., sedimentary heterogeneity) and temporal (e.g., river stage fluctuation) variabilities. This study coupled geophysical techniques with physical and chemical sediment analyses to map sedimentary architecture and quantify its influence on hyporheic exchange dynamics within a compound bar deposit in a gravel-dominated river system in southwestern Ohio. Electromagnetic induction (EMI) was used to quantify variability in electrical conductivity within the compound bar. EMI informed locations of electrode placement for time-lapse electrical resistivity imaging (ERI) surveys, which were used to examine changes in electrical resistivity driven by hyporheic exchange. Both geophysical methods revealed a zone of high electrical conductivity in the center of the bar, identified as a fine-grained cross-bar channel fill. The zone acts as a baffle to flow, evidenced by stable electrical conditions measured by time-lapse ERI over the study period. Large changes in electrical resistivity throughout the survey period indicate preferential flowpaths through higher permeability sands and gravels. Grain size analyses confirmed sedimentological interpretations of geophysical data. Loss on ignition and x-ray fluorescence identified zones with higher organic matter content that are locations for potentially enhanced geochemical activity within the cross-bar channel fill. Differences in the physical and geochemical characteristics of cross-bar channel fills play an important role in hyporheic flow dynamics and nutrient processing within riverbed sediments. These findings enhance our understanding of the applications of geophysical methods in mapping riverbed heterogeneity and highlight the importance of accurately representing geomorphologic features and heterogeneity when studying hyporheic exchange processes.

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“…As a resolve, some restoration programs on dam-fragmented rivers employ the construction of gravel bars by gravel augmentation and channel rehabilitation (Ock et al, 2015). Gravel bars provide areas of increased biogeochemical activities due to the enforced hydrodynamic exchange (Sackett et al, 2019), retaining organic matter filtered from surface waters in the hyporheic zone (i.e., the interface between surface and groundwater) for the utilization of river biota, and enhances nutrient cycling with consequent benefits to ecosystem metabolism (Mendoza-Lera & Datry, 2017). Additionally, the wet and dry processes in gravel bars due to water level changes alternately offers terrestrial and aquatic habitats, increasing environmental heterogeneity to provide diverse habitats for different organisms, e.g., fishes (Beechie et al, 2005), microorganisms (Boano et al, 2014), and macroinvertebrates (Merz et al, 2005).…”

Section: Introductionmentioning

confidence: 99%

Implications of taxonomic and numerical resolution on DNA metabarcoding-based inference of benthic macroinvertebrate responses to river restoration

Serrana

Takemon

et al. 2021

Preprint

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Exploring and clearly defining the level of taxonomic identification and quantification approaches for diversity and biomonitoring studies are essential, given its potential influence on the assessment and interpretation of ecological outcomes. In this study, we evaluated the response of benthic macroinvertebrate communities to the restoration or construction of gravel bars conducted in the dam-impacted Trinity River, with the non-dam influenced tributaries serving as the reference sites. We aim to evaluate the performance of different taxonomic and numerical (i.e., abundance vs. presence/absence data) resolutions of DNA metabarcoding with consequent comparison to morphology-based identification and how it affects assessment outcomes. DNA metabarcoding detected 93% of the morphologically identified individuals and provided finer taxonomic resolution. We also detected significant correlations between morphological sample abundance, biomass, and DNA metabarcoding read abundance. We observed a relatively high and significant congruence in macroinvertebrate community structure and composition between different taxonomic and numerical resolutions of both methods, indicating a satisfactory surrogacy between the two approaches and their varying identification levels and data transformation. Additionally, the community-environmental association were significant for all datasets but showed varying significant associations against the physicochemical parameters. Furthermore, both methods identified Simulium spp. as significant indicators of the dam-impacted gravel bars. Still, only DNA metabarcoding showed significant false discovery rate proving the method's robustness compared to morphology-based identification. Our observations imply that coarser taxonomic resolution could be highly advantageous to DNA metabarcoding-based applications in situations where the lack of taxonomic information, e.g., poor reference database, might severely affect the quality of biological assessments.

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Microbial Community Structure and Metabolic Potential of the Hyporheic Zone of a Large Mid-Stream Channel Bar

Cited by 17 publications

References 58 publications

Profiling the microbial community structure and functional diversity of a dam‐regulated river undergoing gravel bar restoration

Profiling the microbial community structure and functional diversity of a dam‐regulated river undergoing gravel bar restoration

Geophysical mapping of hyporheic processes controlled by sedimentary architecture within compound bar deposits

Implications of taxonomic and numerical resolution on DNA metabarcoding-based inference of benthic macroinvertebrate responses to river restoration

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