Geology topics

Thomas W. Brooks

Publications and source records attributed to Thomas W. Brooks.

7 recordsLinked to original sources

USGS2025

The δ13C signature of dissolved organic and inorganic carbon reveals complex carbon transformations within a salt marsh

Coastal wetlands have high rates of atmospheric CO 2 uptake, which is subsequently respired back to the atmosphere, stored as organic matter within flooded, anoxic soils, or exported to the coastal ocean. Transformation of fixed carbon occurs through a variety of subsurface aerobic and anaerobic microbial processes, and results in a large inventory of dissolved carbon. Carbon source and the roles of aerobic respiration, sulfate reduction, and methane cycling were evaluated within salt marsh peat and the underlying sandy subterranean estuary. There is a large increase in dissolved inorganic carbon (DIC, 7,350 ± 3,900 μmol L −1 ), dissolved organic carbon (DOC, 1,040 ± 1,480 μmol L −1 ) and CH 4 (14.5 ± 33.3 μmol L −1 ) within the marsh porewaters compared to creek waters. Alkalinity production (5,730 ± 2,170 μeq L −1 ) and sulfate removal (1,810 ± 1,970 μmol L −1 ) indicate anaerobic respiration, however, relative contributions from the various decomposition pathways cannot be identified due to overlapping geochemical signatures. The δ 13 C of the DOC (−29.0 ± 3.7‰) and DIC (−11.2 ± 1.1‰) produced within the marsh differed from the bulk soil organic matter δ 13 C (−14.5 ± 0.2‰). We explore a variety of mechanisms that could result in co-occurring depleted δ 13 C-DOC and enriched δ 13 C-DIC compared to the bulk soil organic carbon pool and salt marsh vegetation, including selective mineralization, production of δ 13 C-depleted bacterial biomass, and methane-derived DOC. While important questions remain about carbon cycling pathways, we found evidence of a cryptic methane cycle. Alteration of the δ 13 C of carbon species complicates source attribution in solid and dissolved phases and careful consideration should be used when carbon is partitioned between in situ salt marsh production and external marine and terrestrial sources.

Massachusetts↗

USGS2025

Evidence of mineral alteration in a salt marsh subterranean estuary: Implications for carbon and trace element cycling

Subterranean estuaries (STE) in salt marshes are biogeochemically active zones where interactions between terrestrial groundwater and seawater drive complex cycling of carbon and trace elements, influenced by mineral dissolution. These systems, characterized by fine-grained organic-rich peat overlying permeable coastal aquifers, play a crucial role as a blue carbon sink, yet their geochemical dynamics remain poorly understood. We investigated dissolved trace elements, carbon, silica, and radium isotopes in a salt marsh STE (Sage Lot Pond, Waquoit Bay, MA) over seasonal and annual cycles. Our results reveal that groundwater and estuarine water circulation through marsh peat and aquifer sediments leads to enrichments of dissolved organic and inorganic carbon (DOC and DIC), Si, Ba, and Mn, with variable source/sink behavior of Fe and net removal of U. Submarine groundwater discharge dominated Ba fluxes, whereas pore water drainage from marsh peat acted as the main sink for U and source of Si. Fe cycling was variable, with terrestrial Fe largely removed as groundwater passed through the STE, consistent with Fe-sulfide and amorphous phase formation. Radium isotope ratios identified two distinct subsurface flow pathways, influenced by metal-oxide cycling and organic matter breakdown. Si production was decoupled from DIC, suggesting Si originates from mineral alteration, whereas DIC results from both mineral weathering and microbial respiration. Silicate mineral alteration, coupled with marsh pore water drainage, accounts for up to 16% of annual DIC exports (66 g C m −2 y −1 ), highlighting the importance of STEs in coastal carbon and trace element cycling, especially as marshes face environmental change.

Massachusetts↗

USGS2024

Evidence of nitrate attenuation in intertidal and subtidal groundwater in a subterranean estuary at a Cape Cod embayment, East Falmouth, Massachusetts, 2015–16

Nitrogen dynamics in intertidal and nearshore subtidal groundwater (subterranean estuary) adjacent to the Seacoast Shores peninsula, Falmouth, Massachusetts, were investigated during 2015–16 by the U.S. Geological Survey. The peninsula is a densely populated residential area with septic systems and cesspools that are substantial sources of nitrogen to groundwater. The study area is in the Eel River, an estuarine saltwater embayment connected to the ocean adjacent to the western shore of the peninsula, that was the subject of an earlier study by Colman and others (2018, https://doi.org/10.3133/sir20185095 ) on nitrogen transport and transformations in groundwater between onshore and offshore locations. The previous study documented the distribution of nitrate concentrations and nitrate attenuation reactions in fresh groundwater beneath the peninsula and the estuary. The current study extended those observations with more detailed sampling and analysis of shallow groundwater from wells near discharge sites beneath the estuary. The current field investigation included sampling of existing wells and installation and sampling of clusters of wells and temporary sampling points in the subterranean estuary, including (1) shallow transects 0.3 to 1.2 meters (m) deep extending from 1 to 13.5 m offshore and (2) deeper wells (from 1.83 to 4.88 m deep) extending from 4.3 to 14.3 m offshore. Measurements of hydraulic-head gradients 2–5 m below the sediment/water interface in the intertidal and nearshore subtidal zones indicated that groundwater flow generally was upwards (towards the estuary) under all tide conditions in October 2016. The magnitude of the gradient was greatest during low tide conditions, indicating that groundwater discharge likely decreased during high tides. Measurements of specific conductance in shallow groundwater in the subterranean estuary in three transects perpendicular to shore were consistent with the existence of saltwater flow cells (infiltration of overlying saline water, mixing with fresh groundwater, and discharge to the overlying saline water) in the intertidal and nearshore subtidal regions. The size of these flow cells was variable in space and time and dependent on the elevation of the tide (spring or neap). At this location in the Eel River subterranean estuary, and offshore to at least 13.5 m, offshore flow of fresh groundwater apparently prevented a deeper saltwater wedge from discharging to the surface. Nitrate concentrations in shallow groundwater (30 to 122 centimeters [cm] depth) were variable in space and time, ranging from not detectable to 600 micromoles per liter (μmol/L) (8.4 milligrams per liter as N), and were highest in June 2016 at depths from 61 to 122 cm below the sediment/water interface and from 4 to 9 m offshore. Nitrate generally was not detectable in saline shallow groundwater at 30-cm depth or at any depth from 30 to 122 cm from 10 to 13.5 m offshore. Dissolved oxygen concentrations were suboxic (less than 16 μmol/L) in 60 percent of the sampled subterranean groundwater beneath the intertidal and subtidal zones. In the remaining sites, the range of dissolved oxygen concentrations was from 18 to 272 μmol/L and the median concentration was 43 μmol/L. Evidence for microbial nitrate reduction (denitrification and possibly anammox) was provided by the distribution of the reaction product nitrogen gas (excess N 2 , or N 2MIC ), as determined from analysis of the dissolved nitrogen gas and argon gas (Ar) concentrations in groundwater samples. Excess nitrogen gas provided evidence for nitrate reduction in shallow groundwater below the subtidal and, to a lesser extent, intertidal zones adjacent to the Seacoast Shores peninsula. These zones, where evidence for nitrate reduction was detected, were in fresh and brackish groundwater near subtidal or intertidal saltwater cells where discharging fresh groundwater mixed with infiltrating saline water. Infiltrating seawater may have supplied organic carbon, one of several potential electron donors that are required for denitrification. Other potential electron donors, such as organic carbon, iron, manganese, hydrogen, methane, ammonium, elemental sulfur, or sulfide phases, may have been supplied by the estuarine sediments. Drainage from surface runoff near the shore also may have supplied organic carbon to fresh groundwater near the intertidal saltwater cell. The highest amounts of nitrate converted to excess nitrogen gas were estimated to be in the range of 230 to 430 μmol/L in nearly fresh groundwater near the subtidal saltwater cell at depths of 61 to 122 cm below the sediment/water interface and from 10 to 13.5 m offshore. Evidence of denitrification within 10 m of the shore was sparse (generally limited to less than 50 μmol/L of N 2 -N) despite the presence of high nitrate concentrations. The spatial distribution of estimated nitrate reduction in the intertidal and nearshore subtidal fresh and brackish groundwater may be related to local variability in the distribution of reactive electron donors in those zones. Variations in the amount of nitrate reduction to nitrogen gas were not clearly related to potential aqueous electron donors such as dissolved organic carbon, nor to potential reaction products such as alkalinity, but may have been controlled by combinations of aqueous and solid-phase reactants. The distribution of relatively shallow fresh groundwater containing nitrate could indicate potential nitrate discharge areas in the lower intertidal zone and uncertain locations farther offshore; however, the data did not extend all the way to the sediment/water interface or to the offshore freshwater limit. This study confirmed substantial loss of nitrate from some of the fresh and brackish groundwater in shallow subestuarine sediments prior to discharge but did not quantify how much nitrate eventually discharged to the estuary.

Massachusetts↗

USGS2022

Impoundment increases methane emissions in Phragmites-invaded coastal wetlands

Saline tidal wetlands are important sites of carbon sequestration and produce negligible methane (CH 4 ) emissions due to regular inundation with sulfate-rich seawater. Yet, widespread management of coastal hydrology has restricted tidal exchange in vast areas of coastal wetlands. These ecosystems often undergo impoundment and freshening, which in turn cause vegetation shifts like invasion by Phragmites , that affect ecosystem carbon balance. Understanding controls and scaling of carbon exchange in these understudied ecosystems is critical for informing climate consequences of blue carbon restoration and/or management interventions. Here, we (1) examine how carbon fluxes vary across a salinity gradient (4–25 psu) in impounded and natural, tidally unrestricted Phragmites wetlands using static chambers and (2) probe drivers of carbon fluxes within an impounded coastal wetland using eddy covariance at the Herring River in Wellfleet, MA, United States. Freshening across the salinity gradient led to a 50-fold increase in CH 4 emissions, but effects on carbon dioxide (CO 2 ) were less pronounced with uptake generally enhanced in the fresher, impounded sites. The impounded wetland experienced little variation in water-table depth or salinity during the growing season and was a strong CO 2 sink of −352 g CO 2 -C m −2 year −1 offset by CH 4 emission of 11.4 g CH 4 -C m −2 year −1 . Growing season CH 4 flux was driven primarily by temperature. Methane flux exhibited a diurnal cycle with a night-time minimum that was not reflected in opaque chamber measurements. Therefore, we suggest accounting for the diurnal cycle of CH 4 in Phragmites , for example by applying a scaling factor developed here of ~0.6 to mid-day chamber measurements. Taken together, these results suggest that although freshened, impounded wetlands can be strong carbon sinks, enhanced CH 4 emission with freshening reduces net radiative balance. Restoration of tidal flow to impounded ecosystems could limit CH 4 production and enhance their climate regulating benefits.

Massachusetts↗

USGS2021

Oxygen-controlled recirculating seepage meter reveals extent of nitrogen transformation in discharging coastal groundwater at the aquifer–estuary interface

Nutrient loads delivered to estuaries via submarine groundwater discharge (SGD) play an important role in the nitrogen (N) budget and eutrophication status. However, accurate and reliable quantification of the chemical flux across the final decimeters and centimeters at the sediment–estuary interface remains a challenge, because there is significant potential for biogeochemical alteration due to contrasting conditions in the coastal aquifer and surface sediment. Here, a novel, oxygen- and light-regulated ultrasonic seepage meter, and a standard seepage meter, were used to measure SGD and calculate N species fluxes across the sediment–estuary interface. Coupling the measurements to an endmember approach based on subsurface N concentrations and an assumption of conservative transport enabled estimation of the extent of transformation occurring in discharging groundwater within the benthic zone. Biogeochemical transformation within reactive estuarine surface sediment was a dominant driver in modifying the N flux carried upward by SGD, and resulted in a similar percentage of N removal (~ 42–52%) as did transformations occurring deeper within the coastal aquifer salinity mixing zone (~ 42–47%). Seasonal shifts in the relative importance of biogeochemical processes including denitrification, nitrification, dissimilatory nitrate reduction, and assimilation altered the composition of the flux to estuarine surface water, which was dominated by ammonium in June and by nitrate in August, despite the endmember-based observation that fixed N in discharging groundwater was strongly dominated by nitrate. This may have important ramifications for the ecology and management of estuaries, since past N loading estimates have generally assumed conservative transport from the nearshore aquifer to estuary.

Limnology and Oceanography↗

USGS2015

Substantial nitrous oxide emissions from intertidal sediments and groundwater in anthropogenically-impacted West Falmouth Harbor, Massachusetts

Large N2O emissions were observed from intertidal sediments in a coastal estuary, West Falmouth Harbor, MA, USA. Average N2O emission rates from 41 chambers during summer 2008 were 10.7 mol N2O m(-2) h(-1)±4.43 μmol N2O m(-2) h(-1) (standard error). Emissions were highest from sediments within a known wastewater plume, where a maximum N2O emission rate was 155 μmol N2O m(-2) h(-1). Intertidal N2O fluxes were positively related to porewater ammonium concentrations at 10 and 25 cm depths. In groundwater from 7 shoreline wells, dissolved N2O ranged from 488% of saturation (56 nM N2O) to more than 13000% of saturation (1529 nM N2O) and was positively related to nitrate concentrations. Fresh and brackish porewater underlying 14 chambers was also supersaturated in N2O, ranging from 2980% to 13175% of saturation. These observations support a relationship between anthropogenic nutrient loading and N2O emissions in West Falmouth Harbor, with both groundwater sources and also local N2O production within nutrient-rich, intertidal sediments in the groundwater seepage face. N2O emissions from intertidal "hotspot" in this harbor, together with estimated surface water emissions, constituted 2.4% of the average overall rate of nitrogen export from the watershed to the estuary. This suggests that N2O emissions factors from coastal ecosystems may be underestimated. Since anthropogenic nutrient loading affects estuaries worldwide, quantification of N2O dynamics is warranted in other anthropogenically-impacted coastal ecosystems.

Massachusetts↗

USGS2012

Summary of oceanographic and water-quality measurements near the Blackwater National Wildlife Refuge, Maryland, 2011

Suspended-sediment transport is a critical element governing the geomorphology of tidal marshes. Marshes rely on both organic material and inorganic sediment deposition to maintain their elevation relative to sea level. In wetlands near the Blackwater National Wildlife Refuge, Maryland, portions of the salt marsh have been subsiding relative to sea level since the early 20th century. Other portions of the marsh have been successful at maintaining elevation. The U.S. Geological Survey performed observational deployments to measure suspended-sediment concentration in the tidal channels in order to understand the magnitude of suspended-sediment concentrations, the sediment-transport mechanisms, and differences between two marsh areas, one that subsided and one that maintained elevation. We deployed optical turbidity sensors and acoustic velocity meters at multiple sites over two periods in 2011. This report presents the time-series of oceanographic data collected during those field studies, including velocity, depth, turbidity, salinity, water temperature, and pH.

Maryl↗