Phosphorus Forms in Sediments of a River-Dominated Estuary

Estuaries are biologically productive transition zones between land and sea that play a vital role in transforming, recycling, and sequestering nutrients and organic matter, thus influencing nutrient loading to coastal systems. Yet, the processes involved in phosphorus (P) transformation and cycling among inorganic and organic P forms are poorly known in estuaries. To better understand the potential for P transformation and sequestration, we identified P forms and estimated their contributions to total P in intertidal wetland sediments of a river-dominated estuary (Columbia River, Oregon, USA) using solution 31P nuclear magnetic resonance spectroscopy (P-NMR). Inorganic P forms dominated sediment P extracts throughout the estuary, with orthophosphate accounting for 71–84% of total extracted P. However, biologically-derived inorganic and organic P forms were also detected. Polyphosphates were found in sediment extracts throughout the estuary, contributing as much as 10% of extracted P. Similar to other wetlands, orthophosphate monoesters and diesters made approximately equal contributions (~ 20%) to total extracted P. However, monoesters (e.g., phytate) were more abundant in sedimentary environments characterized by low organic matter content, while diesters (e.g., DNA) were more abundant in sedimentary environments with high organic matter, regardless of salinity. Collectively, the data show strong evidence for P transformation in sediments of a large, river-dominated estuary, which influences its transport to the coastal Pacific Ocean via the expansive Columbia River plume

Effect of metformin exposure on growth and photosynthetic performance in the unicellular freshwater chlorophyte, Chlorella vulgaris

Many pharmaceuticals have negative effects on biota when released into the environment. For example, recent work has shown that the commonly prescribed antidiabetic drug, metformin (N,N-dimethylbiguanide), has endocrine disrupting effects on fish. However, effects of metformin on aquatic primary producers are poorly known. We exposed cultured isolates of a freshwater chlorophyte, Chlorella vulgaris, to a range of metformin concentrations (0–767.9 mg L⁻¹) to test the hypothesis that exposure negatively affects photosynthesis and growth. A cessation of growth, increase in non-photochemical quenching (NPQ, NPQmax), and reduced electron transport rate (ETR) were observed 24 h after exposure to a metformin concentration of 767.8 mg L⁻¹ (4.6 mM). By 48 h, photosynthetic efficiency of photosystem II (Fv/Fm), α, the initial slope of the ETR-irradiance curve, and Ek (minimum irradiance required to saturate photosynthesis) were reduced. At a lower concentration (76.8 mg L⁻¹), negative effects on photosynthesis (increase in NPQ, decrease in ETR) were delayed, occurring between 72 and 96 h. No negative effects on photosynthesis were observed at an exposure concentration of 1.5 mg L⁻¹. It is likely that metformin impairs photosynthesis either through downstream effects from inhibition of complex I of the electron transport chain or via activation of the enzyme, SnRK1 (sucrose non-fermenting-related kinase 1), which acts as a cellular energy regulator in plants and algae and is an ortholog of the mammalian target of metformin, AMPK (5' adenosine monophosphate-activated protein kinase)

Methylmercury in lake bed soils during re-flooding of an Appalachian reservoir in the northeastern USA

Mercury methylation, where inorganic mercury (Hg) is converted to methylmercury (MeHg), can increase in soils when flooded. While effects of the initial flooding of soils on MeHg production have been well studied, less is known about impacts of re-flooding on MeHg production. Lake Perez, an impounded recreational reservoir in the Appalachian Highlands, was completely drained then re-filled 7 years later. We use a combination of chemical, soil physical, and microbial data to quantify changes in MeHg before and after re-flooding of the lakebed. Portions that were transiently saturated due to pluvial flooding had the highest pre-flooded MeHg concentrations. When the lake was re-flooded, concentrations of MeHg in subaqueous soils increased by a factor of 2.74 (+174%) on average. Substantial variability was observed among the sampling sites, with smaller increases in MeHg at sites subjected to seasonal flooding during periods when the reservoir was drained. The increase of soil MeHg after re-flooding was lower in this study compared to studies that evaluated soil MeHg after initial flooding, indicating that re-flooding of a former lake bed caused a smaller response in MeHg production compared to initial flooding of terrestrial land. This study advances understanding of the environmental impact of impounded reservoirs

Graphical coding data and operational guidance for implementation or modification of a LabVIEW®-based pHstat system for the cultivation of microalgae

The influence of pH on phytoplankton physiology is an important facet of the body of research on ocean acidification. We provide data developed during the design and implementation of a novel pHstat system capable of maintaining both static and dynamic pH environments in a laboratory setting. These data both help improve functionality of the system, and provide specific coding blocks for controlling the pHstat using a LabVIEW® virtual instrument (VI). The data in this paper support the research article “Development of an economical, autonomous pHstat system for culturing phytoplankton under steady state or dynamic conditions” (Golda et al. [2]). These data will be of interest to researchers studying the effects of changing pH on phytoplankton in a laboratory context, and to those desiring to build their own pHstat system(s). These data can also be used to facilitate modification of the pHstat system to control salinity, temperature, or other environmental factors

Red Waters of Myrionecta rubra are Biogeochemical Hotspots for the Columbia River Estuary with Impacts on Primary/Secondary Productions and Nutrient Cycles

The localized impact of blooms of the mixotrophic ciliate Myrionecta rubra in the Columbia River estuary during 2007-2010 was evaluated with biogeochemical, light microscopy, physiological, and molecular data. M. rubra affected surrounding estuarine nutrient cycles, as indicated by high and low concentrations of organic nutrients and inorganic nitrogen, respectively, associated with red waters. M. rubra blooms also altered the energy transfer pattern in patches of the estuarine water that contain the ciliate by creating areas characterized by high primary production and elevated levels of fresh autochthonous particulate organic matter, therefore shifting the trophic status in emergent red water areas of the estuary from net heterotrophy towards autotrophy. The pelagic estuarine bacterial community structure was unaffected by M. rubra abundance, but red waters of the ciliate do offer a possible link between autotrophic and heterotrophic processes since they were associated with elevated dissolved organic matter and showed a tendency for enhanced microbial secondary production. Taken together, these findings suggest that M. rubra red waters are biogeochemical hotspots of the Columbia River estuary.Keywords: Myrionecta rubra, Biogeochemical cycles, Red waters, Mesodinium rubrum, Columbia River estuar

Simulating the global distribution of nitrogen isotopes in the ocean

We present a new nitrogen isotope model incorporated into the three-dimensional ocean component of a global Earth system climate model designed for millennial timescale simulations. The model includes prognostic tracers for the two stable nitrogen isotopes, 14N and 15N, in the nitrate (NO3−), phytoplankton, zooplankton, and detritus variables of the marine ecosystem model. The isotope effects of algal NO3− uptake, nitrogen fixation, water column denitrification, and zooplankton excretion are considered as well as the removal of NO3− by sedimentary denitrification. A global database of δ15NO3− observations is compiled from previous studies and compared to the model results on a regional basis where sufficient observations exist. The model is able to qualitatively and quantitatively reproduce many of the observed patterns such as high subsurface values in water column denitrification zones and the meridional and vertical gradients in the Southern Ocean. The observed pronounced subsurface minimum in the Atlantic is underestimated by the model presumably owing to too little simulated nitrogen fixation there. Sensitivity experiments reveal that algal NO3− uptake, nitrogen fixation, and water column denitrification have the strongest effects on the simulated distribution of nitrogen isotopes, whereas the effect from zooplankton excretion is weaker. Both water column and sedimentary denitrification also have important indirect effects on the nitrogen isotope distribution by reducing the fixed nitrogen inventory, which creates an ecological niche for nitrogen fixers and, thus, stimulates additional N2 fixation in the model. Important model deficiencies are identified, and strategies for future improvement and possibilities for model application are outlined

OOI Biogeochemical Sensor Data: Best Practices and User Guide. Version 1.0.0.

The OOI Biogeochemical Sensor Data Best Practices and User Guide is intended to provide current and prospective users of data generated by biogeochemical sensors deployed on the Ocean Observatories Initiative (OOI) arrays with the information and guidance needed for them to ensure that the data is science-ready. This guide is aimed at researchers with an interest or some experience in ocean biogeochemical processes. We expect that users of this guide will have some background in oceanography, however we do not assume any prior experience working with biogeochemical sensors or their data. While initially envisioned as a “cookbook” for end users seeking to work with OOI biogeochemical (BGC) sensor data, our Working Group and Beta Testers realized that the processing required to meet the specific needs of all end users across a wide range of potential scientific applications and combinations of OOI BGC data from different sensors and platforms couldn’t be synthesized into a single “recipe”. We therefore provide here the background information and principles needed for the end user to successfully identify and understand all the available “ingredients” (data), the types of “cooking” (end user processing) that are recommended to prepare them, and a few sample “recipes” (worked examples) to support end users in developing their own “recipes” consistent with the best practices presented here. This is not intended to be an exhaustive guide to each of these sensors, but rather a synthesis of the key information to support OOI BGC sensor data users in preparing science-ready data products. In instances when more in-depth information might be helpful, references and links have been provided both within each chapter and in the Appendix

Coastal Upwelling Supplies Oxygen-Depleted Water to the Columbia River Estuary

Low dissolved oxygen (DO) is a common feature of many estuarine and shallow-water environments, and is often attributed to anthropogenic nutrient enrichment from terrestrial-fluvial pathways. However, recent events in the U.S. Pacific Northwest have highlighted that wind-forced upwelling can cause naturally occurring low DO water to move onto the continental shelf, leading to mortalities of benthic fish and invertebrates. Coastal estuaries in the Pacific Northwest are strongly linked to ocean forcings, and here we report observations on the spatial and temporal patterns of oxygen concentration in the Columbia River estuary. Hydrographic measurements were made from transect (spatial survey) or anchor station (temporal survey) deployments over a variety of wind stresses and tidal states during the upwelling seasons of 2006 through 2008. During this period, biologically stressful levels of dissolved oxygen were observed to enter the Columbia River estuary from oceanic sources, with minimum values close to the hypoxic threshold of 2.0 mg L−1. Riverine water was consistently normoxic. Upwelling wind stress controlled the timing and magnitude of low DO events, while tidal-modulated estuarine circulation patterns influenced the spatial extent and duration of exposure to low DO water. Strong upwelling during neap tides produced the largest impact on the estuary. The observed oxygen concentrations likely had deleterious behavioral and physiological consequences for migrating juvenile salmon and benthic crabs. Based on a wind-forced supply mechanism, low DO events are probably common to the Columbia River and other regional estuaries and if conditions on the shelf deteriorate further, as observations and models predict, Pacific Northwest estuarine habitats could experience a decrease in environmental quality

Influence of environmental factors on nitrate utilization and nitrogen isotope fractionation by marine phytoplankton

Nitrate utilization by marine phytoplankton is an important component of the marine nitrogen cycle. The ¹⁵N / ¹⁴N ratio that is created during nitrate assimilation can be propagated throughout marine food webs, throughout nitrogen pools in the water column, and recorded in the organic fraction of marine sediments. Variations in the ¹⁵N / ¹⁴N ratio are potentially useful for understanding processes of the nitrogen cycle on a variety of spatial and temporal scales. Our present understanding of the processes involved in nitrogen isotope fractionation does not allow us to confidently interpret the ¹⁵N / ¹⁴N signal in the various pools of nitrogen in the ocean. Using laboratory batch culture experiments, the uptake and assimilation characteristics of nitrate during growth in light, temperature, and iron limiting conditions were determined as a means to investigate the variability and possible physiological mechanisms of nitrogen isotope fractionation by marine phytoplankton. Irradiance level had the most significant impacts on nitrate assimilation and nitrogen isotope fractionation. The phytoplankton species that expressed an uncoupling between the uptake and assimilation processes under low light conditions had relatively large isotope fractionation factors. The marine diatom Thalassiosira weissflogii showed the largest isotope discrimination, with an observed epsilon value of 6.2 per mil in high light, and 15.2 per mil in low light. Under a 12h lightdark cycle, the isotope fractionation factor was dependent on the light versus dark nitrate assimilation rates. A coccolithophorid, Emiliania huxleyi, with no dark nitrate assimilation, had the same fractionation compared to growth in 24 hours of continuous light, whereas three marine diatoms displayed higher fractionation factors during nitrate uptake in the dark, and therefore had higher fractionation factors than when grown in 24 hours of continuous light. The growth limiting effects of temperature or iron had little influence on isotope fractionation in the two marine diatoms that were measured. Despite the lower growth rate, isotope fractionation was similar to conditions of higher temperature (18°C) and high iron concentrations in cultures of Thalassiosira weissflogii and Thalassiosira pseudonana. These results indicate that the mechanism of isotope fractionation is not altered by slow growth rates induced by temperature or iron limitation. Lastly, the isotope fractionation mechanism of Thalassiosira weissflogii was investigated by measuring the ¹⁵N / ¹⁴N ratio of nitrate inside and outside the cell during growth in the four growth conditions described above. The results show that the ¹⁵N / ¹⁴N ratio is higher in the internal pool of nitrate than in the nitrate in the medium, and therefore the fractionation step that produces the overall phytoplankton δ¹⁵N value is a result of assimilation processes inside the cell. The ¹⁵N / ¹⁴N values of the internal nitrate pool in the different growth conditions suggested that the overall isotope fractionation by marine phytoplankton is a result of the isotope discrimination step during nitrate reduction combined with the efflux of nitrate from the cytoplasm to the external medium. A linear correlation was observed between the magnitude of isotope fractionation and the relative efflux: influx ratio that suggests that fractionation associated with nitrate reductase was 23 per mil. The results and discussion in this thesis describe how isotope fractionation by marine phytoplankton varies as a result of species composition, nutrient, and light conditions. The variations in the magnitude of nitrogen isotope fractionation imply that an accurate interpretation of a specific nitrogen isotope signal will depend on knowledge of the growth parameters that control phytoplankton species composition and nitrate utilization.Science, Faculty ofBotany, Department ofGraduat

Use of High-Resolution Pressure Nephelometry To Measure Gas Vesicle Collapse as a Means of Determining Growth and Turgor Changes in Planktonic Cyanobacteria

Previous work has demonstrated that the physical properties of intracellular bacterial gas vesicles (GVs) can be analyzed in vivo using pressure nephelometry. In analyzing the buoyant state of GV-containing cyanobacteria, hydrostatic pressure within a sample cell is increased in a stepwise manner, where the concomitant collapse of GVs due to pressure and the resultant decrease in suspended cells are detected by changes in nephelometric scattering. As the relative pressure at which GVs collapse is a function of turgor pressure and cellular osmotic gradients, pressure nephelometry is a powerful tool for assaying changes in metabolism that affect turgor, such as photosynthetic and osmoregulatory processes. We have developed an updated and automated pressure nephelometer that utilizes visible-infrared (Vis-IR) spectra to accurately quantify GV critical collapse pressure, critical collapse pressure distribution, and cell turgor pressure. Here, using the updated pressure nephelometer and axenic cultures of Microcystis aeruginosa PCC7806, we demonstrate that GV critical collapse pressure is stable during mid-exponential growth phase, introduce pressure-sensitive turbidity as a robust metric for the abundance of gas-vacuolate cyanobacteria, and demonstrate that pressure-sensitive turbidity is a more accurate proxy for abundance and growth than photopigment fluorescence. As cyanobacterium-dominated harmful algal bloom (cyanoHAB) formation is dependent on the constituent cells possessing gas vesicles, characterization of environmental cyanobacteria populations via pressure nephelometry is identified as an underutilized monitoring method. Applications of this instrument focus on physiological and ecological studies of cyanobacteria, for example, cyanoHAB dynamics and the drivers associated with cyanotoxin production in aquatic ecosystems