A Comparison of the “Reduced Losses” and “Increased Production” Models for Mussel Bed Dynamics

Self-organised regular pattern formation is one of the foremost examples of the development of complexity in ecosystems. Despite the wide array of mechanistic models that have been proposed to understand pattern formation, there is limited general understanding of the feedback processes causing pattern formation in ecosystems, and how these affect ecosystem patterning and functioning. Here we propose a generalised model for pattern formation that integrates two types of within-patch feedback: amplification of growth and reduction of losses. Both of these mechanisms have been proposed as causing pattern formation in mussel beds in intertidal regions, where dense clusters of mussels form, separated by regions of bare sediment. We investigate how a relative change from one feedback to the other affects the stability of uniform steady states and the existence of spatial patterns. We conclude that there are important differences between the patterns generated by the two mechanisms, concerning both biomass distribution in the patterns and the resilience of the ecosystems to disturbances.

Benthic Flow and Mixing in a Shallow Shoal Grass (Halodule wrightii) Fringe

Mean flow and turbulence measurements collected in a shallow Halodule wrightii shoal grass fringe highlighted significant heterogeneity in hydrodynamic effects over relatively small spatial scales. Experiments were conducted within the vegetation canopy (~4 cm above bottom) for relatively sparse (40% cover) and dense (70% cover) vegetation, with reference measurements collected near the bed above bare sediment. Significant benthic velocity shear was observed at all sample locations, with canopy shear layers that penetrated nearly to the bed at both vegetated sites. Turbulent shear production (P) was balanced by turbulent kinetic energy dissipation (ϵ) at all sample locations (P/ϵ≈1), suggesting that stem-generated turbulence played a minor role in the overall turbulence budget. While the more sparsely vegetated sample site was associated with enhanced channel-to-shore velocity attenuation (71.4 ± 1.0%) relative to flows above bare sediment (51.7 ± 2.2%), unexpectedly strong cross-shore currents were observed nearshore in the dense canopy (VNS), with magnitudes that were nearly twice as large as those measured in the main channel (VCH; VNS/VCH¯ = 1.81 ± 0.08). These results highlight the importance of flow steering and acceleration for within- and across-canopy transport, especially at the scale of individual vegetation patches, with important implications for nutrient and sediment fluxes. Importantly, this work represents one of the first hydrodynamic studies of shoal grass fringes in shallow coastal estuaries, as well as one of the only reports of turbulent mixing within H. wrightii canopies.

Sediment biogeochemistry along an oyster aquaculture chronosequence

Oyster aquaculture is expanding globally, and there has been a recent research surge examining how oyster farms alter coastal ecosystems. Yet, until now, the role of time in these studies has largely been missing. Here we used an in situ chronosequence approach to determine how the presence of oyster aquaculture (Crassostrea virginica) altered sediment nitrogen (N), oxygen (O2), and phosphorus (P) cycling. Overall we found that the sum of nitrogen fluxes increased significantly following addition of aquaculture, and switched from net N consumption (i.e. net nitrogen fixation: -14.41 µmol N m-2 h-1) to production (i.e. net denitrification: 553.57 µmol N m-2 h-1). Ammonium (NH4+) fluxes did not differ between bare sediment and oyster aquaculture. Additionally, both the magnitude of N2 and NH4+ fluxes oscillated on an annual scale of aquaculture age, but not predictably so. We observed significantly more variance (σ2) in dinitrogen and NH4+ fluxes in sediments beneath aquaculture, indicating increased non-linearity. O2 fluxes increased from Years 4 to 6, before returning to baseline conditions. There were no differences in sediment P cycling. This study demonstrates that sediment biogeochemical processes can become non-linear under the pressure of oyster aquaculture, and this non-linearity likely has important implications for ecosystem function.

Negative indirect effects of hurricanes on recruitment of range-expanding mangroves

Disturbances often have positive, direct effects on invasions by dispersing propagules or creating environmental conditions that favor invasive species. However, disturbances that alter interactions between resident and invading species could also affect invasion success. In northeast Florida, the black mangrove Avicennia germinans is expanding into salt marshes, where it interacts with the dead litter (wrack) of the native marsh cordgrass Spartina alterniflora. From 2015-2017, we performed monthly surveys before and after 2 hurricanes in 3 marsh microhabitats (bare sediment, vegetation, wrack) to quantify mangrove propagule and seedling densities. Wrack increased propagule retention up to 10 times relative to other microhabitats. Hurricanes did not directly harm mangrove propagules or seedlings. However, storm surge relocated wrack to upland environments, which indirectly inhibited mangroves by temporarily disrupting the facilitative effects of wrack on propagule recruitment and exposing intertidal bare patches that decreased propagule retention and seedling establishment. Wrack remained absent from intertidal areas for 1-3 mo. Because hurricane season overlaps with propagule recruitment, hurricane timing and wrack return time to intertidal areas influence the degree that hurricanes disrupt wrack-mangrove interactions. We demonstrate that large-scale disturbances can negatively and indirectly affect invader recruitment by altering interactions with resident species.

Cost-Effective Coastal Habitat Mapping: Detecting Intertidal Polychaete Aggregations with Low-Altitude Photogrammetry

Intertidal polychaete aggregations may be protected in the European Union under the Habitats Directive framework as reef habitats. Remote reef mapping remains challenging due to severe and dynamic conditions, as well as cover and spatial resolution requirements. This study (1) evaluated kite aerial photography and low-altitude digital photogrammetry to map and monitor intertidal aggregations of a sessile tube-building polychaete, Lanice conchilega (L. conchilega), and (2) developed a protocol for its remote identification. Monthly campaigns yielded 12 aerial image sets which were processed using structure-from-motion into high-precision digital terrain models and orthophoto mosaics. Maximum likelihood classification distinguished L. conchilega from bare sediment with an accuracy of 70% ± 23.2%. Aggregations were delineated by extracting elements of positive elevation from local difference models. The method has proven useful to detect high-value aggregations, distinguishing these consistently. Nevertheless, systematic biases were present during delineation, and further characterisation of reference aggregations may improve detection.

Community Structure and Abundance of Archaea in a Zostera marina Meadow: A Comparison between Seagrass-Colonized and Bare Sediment Sites

Seagrass colonization alters sediment physicochemical properties by depositing seagrass fibers and releasing organic carbon and oxygen from the roots. How this seagrass colonization-induced spatial heterogeneity affects archaeal community structure and abundance remains unclear. In this study, we investigated archaeal abundance, diversity, and composition in both vegetated and adjacent bare surface sediments of a Zostera marina meadow. High-throughput sequencing of 16S rDNA showed that Woesearchaeota, Bathyarchaeota, and Thaumarchaeota were the most abundant phyla across all samples, accounting for approximately 42%, 21%, and 17% of the total archaeal communities, respectively. In terms of relative abundance, Woesearchaeota and Bathyarchaeota were not significantly different between these two niches; however, specific subclades (Woese-3, Woese-21, Bathy-6, Bathy-18) were significantly enriched in vegetated sediments (P<0.05), while Thaumarchaeota was favored in unvegetated sites (P=0.02). The quantification of archaeal 16S rRNA genes showed that the absolute abundance of the whole archaeal community, Bathyarchaeota, and Woese-3, Woese-10, Woese-13, and Woese-21 was significantly more abundant in vegetated sediments than in bare sediments (P<0.05). Our study expands the available knowledge of the distribution patterns and niche preferences of archaea in seagrass systems, especially for the different subclades of Woesearchaeota and Bathyarchaeota, in terms of both relative proportions and absolute quantities.

Spatiotemporal Dynamics of Submerged Aquatic Vegetation in a Deep Lake from Sentinel-2 Data

We mapped the extent of submerged aquatic vegetation (SAV) of Lake Iseo (Northern Italy, over the 2015–2017 period based on satellite data (Sentinel 2 A-B) and in-situ measurements; the objective was to investigate its spatiotemporal variability. We focused on the southern sector of the lake, the location of the shallowest littorals and the most developed macrophyte communities, mainly dominated by Vallisneria spiralis and Najas marina. The method made use of both in-situ measurements and satellite data (22 Sentinel 2 A-B images) that were atmospherically corrected with 6SV code and processed with the BOMBER (Bio-Optical Model-Based tool for Estimating water quality and bottom properties from Remote sensing images). This modeling system was used to estimate the different substrate coverage (bare sediment, dense stands of macrophytes with high albedo, and sparse stand of macrophytes with low albedo). The presented results substantiate the existence of striking inter- and intra-annual variations in the spatial-cover patterns of SAV. Intense uprooting phenomena were also detected, mainly affecting V. spiralis, a species generally considered a highly plastic pioneer taxon. In this context, remote sensing emerges as a very reliable tool for mapping SAV with satisfactory accuracy by offering new perspectives for expanding our comprehension of lacustrine macrophyte dynamics and overcoming some limitations associated with traditional field surveys.

After the Fall: Legacy Effects of Biogenic Structure on Wind-Generated Ecosystem Processes Following Mussel Bed Collapse

Blue mussels (Mytilus edulis) are ecosystem engineers with strong effects on species diversity and abundances. Mussel beds appear to be declining in the Gulf of Maine, apparently due to climate change and predation by the invasive green crab, Carcinus maenas. As mussels die, they create a legacy of large expanses of shell biogenic structure. In Maine, USA, we used bottom traps to examine effects of four bottom cover types (i.e., live mussels, whole shells, fragmented shells, bare sediment) and wind condition (i.e., days with high, intermediate, and low values) on flow-related ecosystem processes. Significant differences in transport of sediment, meiofauna, and macrofauna were found among cover types and days, with no significant interaction between the two factors. Wind condition had positive effects on transport. Shell hash, especially fragmented shells, had negative effects, possibly because it acted as bed armor to reduce wind-generated erosion and resuspension. Copepods had the greatest mobility and shortest turnover times (0.15 d), followed by nematodes (1.96 d) and the macrofauna dominant, Tubificoides benedeni (2.35 d). Shell legacy effects may play an important role in soft-bottom system responses to wind-generated ecosystem processes, particularly in collapsed mussel beds, with implications for recolonization, connectivity, and the creation and maintenance of spatial pattern.

High denitrification and anaerobic ammonium oxidation contributes to net nitrogen loss in a seagrass ecosystem in the central Red Sea

Nitrogen loads in coastal areas have increased dramatically, with detrimental consequences for coastal ecosystems. Shallow sediments and seagrass meadows are hotspots for denitrification, favoring N loss. However, atmospheric dinitrogen (N2) fixation has been reported to support seagrass growth. Therefore, the role of coastal marine systems dominated by seagrasses in the net N2 flux remains unclear. Here, we measured denitrification, anaerobic ammonium oxidation (anammox), and N2 fixation in a tropical seagrass (Enhalus acoroides) meadow and the adjacent bare sediment in a coastal lagoon in the central Red Sea. We detected high annual mean rates of denitrification (34.9±10.3 and 31.6±8.9 mg N m−2 d−1) and anammox (12.4±3.4 and 19.8±4.4 mg N m−2 d−1) in vegetated and bare sediments. The annual mean N loss was higher (between 8 and 63-fold) than the N2 fixed (annual mean = 5.9±0.2 and 0.8±0.3 mg N m−2 d−1) in the meadow and bare sediment, leading to a net flux of N2 from sediments to the atmosphere. Despite the importance of this coastal lagoon in removing N from the system, N2 fixation can contribute substantially to seagrass growth since N2 fixation rates found here could contribute up to 36 % of plant N requirements. In vegetated sediments, anammox rates decreased with increasing organic matter (OM) content, while N2 fixation increased with OM content. Denitrification and anammox increased linearly with temperature, while N2 fixation showed a maximum at intermediate temperatures. Therefore, the forecasted warming could further increase the N2 flux from sediments to the atmosphere, potentially impacting seagrass productivity and their capacity to mitigate climate change but also enhancing their potential N removal.

Quantifying and forecasting changes in the areal extent of river valley sediment in response to altered hydrology and land cover

In river valleys, sediment moves between active river channels, near-channel deposits including bars and floodplains, and upland environments such as terraces and aeolian dunefields. Sediment availability is a prerequisite for the sustained transfer of material between these areas, and for the eco-geomorphic functioning of river networks in general. However, the difficulty of monitoring sediment availability and movement at the reach or corridor scale has hindered our ability to quantify and forecast the response of sediment transfer to hydrologic or land cover alterations. Here we leverage spatiotemporally extensive datasets quantifying sediment areal coverage along a 28 km reach of the Colorado River in Grand Canyon, southwestern USA. In concert with information on hydrologic alteration and vegetation encroachment resulting from the operation of Glen Canyon Dam (constructed in 1963) upstream of our study reach, we model the relative and combined influence of changes in (a) flow and (b) riparian vegetation extent on the areal extent of sediment available for transport in the river valley over the period from 1921 to 2016. In addition, we use projections of future streamflow and vegetation encroachment to forecast sediment availability over the 20 year period from 2016 to 2036. We find that hydrologic alteration has reduced the areal extent of bare sediment by 9% from the pre- to post-dam periods, whereas vegetation encroachment further reduced bare sediment extent by 45%. Over the next 20 years, the extent of bare sediment is forecast to be reduced by an additional 12%. Our results demonstrate the impact of river regulation, specifically the loss of annual low flows and associated vegetation encroachment, on reducing the sediment available for transfer within river valleys. This work provides an extendable framework for using high-resolution data on streamflow and land cover to assess and forecast the impact of watershed perturbation (e.g. river regulation, land cover shifts, climate change) on sediment connectivity at the corridor scale.