Incubation timepoint measurements from sediment cores collected in Chesapeake Bay in July 2022

Website: https://www.bco-dmo.org/dataset/1002493
Data Type: experimental, Cruise Results
Version: 1
Version Date: 2026-08-19

Project
» Collaborative Research: Investigating the source and flux of dissolved organic carbon released from methane seeps to the deep-ocean (seepDOM)
ContributorsAffiliationRole
Lapham, Laura L.University of Maryland Center for Environmental Science (UMCES/CBL)Co-Principal Investigator
Hildebrand, AnnaUniversity of Maryland Center for Environmental Science (UMCES/CBL)Student
Rauch, ShannonWoods Hole Oceanographic Institution (WHOI BCO-DMO)BCO-DMO Data Manager

Abstract
These data include incubation timepoint measurements of concentration and stable carbon isotope values of dissolved organic carbon (DOC), dissolved inorganic carbon (DIC), and particulate organic carbon (POC) from sediment cores collected at an estuary (Chesapeake Bay). Dissolved sulfate and methane concentrations are also presented. These data were collected from July 2022 during cruise CB22 (R/V Carson). These data are used to assess the mechanism contributing to the production of methane-derived DOC across several environments. If this process occurs at a methane seep, mediated through anaerobic oxidation of methane, the process should occur in other sedimentary environments in which these electron acceptors are available. This produced DOC, which may contribute to benthic food webs or contribute to the apparent radiocarbon age of dissolved organic carbon.


Coverage

Location: Chesapeake Bay seafloor
Spatial Extent: Lat:38.57664087 Lon:-76.44806787
Temporal Extent: 2022-07-26

Methods & Sampling

Core collection: Cores were collected via a gravity corer (1 meter (m)) in July 2022 during cruise CB22 (R/V Carson, operated by the University of Maryland Center for Environmental Science, https://www.umces.edu/research-fleet/).

Incubation setup: Headspace-free bag incubations were conducted with sediment from each study site. The overall idea was to fill foil bags with a sediment slurry that had been equilibrated with differing concentrations of CH4 and SO4 to mimic in situ geochemical conditions characteristic of each site. Three geochemical zones were targeted for each incubation to reflect the vertical zonation observed in the in situ data: the sulfate zone (SZ; high SO4, low CH4), the transition zone (TZ; low SO4, low CH4), and the methanogenic zone (low SO4, high CH4). First, in situ SO4 data was used to inform the zonation of the collected cores prior to incubation. Next, incubations were set up with experimental and control treatments. For all incubations, a slurry was created in a 2:1 sediment to anoxic MQ ratio. Slurries were sieved with a mesh strainer (steel single weave #20 mesh) to remove shell fragments that could puncture the incubation bags or clog the stopcock fitted to the incubation bag. Prior to starting incubations, storage tests were conducted to ensure the bags were gas-tight and didn’t cause isotopic fractionation. The slurries were then transferred to 500 milliliter (mL) syringes without a headspace. All slurry manipulations were conducted in an anaerobic chamber (Coy). A mixture of 100% CH4, 99% 13C-CH4 (Cambridge Isotope Laboratories), and ultra-high purity (UHP) nitrogen gas (N2) was introduced to the syringe and equilibrated with the slurry by rotating for 90 minutes to achieve CH4 concentrations targeted to in situ concentrations. After equilibration, the headspace was removed and the slurry was injected into a 1 liter (L) N2 -flushed foil sampling bag equipped with a 3-way stopcock (Calibrated Instruments).

Sediment/porewater sampling:
CH4, CO2, δ13C-CH4, δ13C-CO2: 10 mL glass serum vials containing 3 mL sediment slurry were subsampled using the headspace equilibration method following Magen et al. (2014). Briefly, 8 mL of ultra-zero purity air (UZA) was injected into the sediment vial with a plastic syringe equipped with a 22-gauge needle. Vials were shaken and the headspace was mixed for 2 minutes, after which 8 mL of headspace gas sample was removed. Headspace samples were subsequently diluted with UZA to fall within the instrumental range for CH4 and CO2 measurements. Because the sulfide in the incubation subsamples was not bound like in the characterization cores, a copper trap was used at the intake of the CRDS to remove sulfide before entering the machine (Malowany et al., 2015).

SO4 and Cl: 2 mL microcentrifuge tubes containing 40 microliter (uL) porewater sample acidified to pH 2 with 0.1M H3PO4 were diluted (135x) with Milli-Q water prior to analysis. IAPSO certified seawater standards (Ocean Scientific International Ltd.) were used for all samples and precision is +/- 2%.

DOC and δ13C-DOC: 40 mL amber VOA vials containing 1 mL porewater sample acidified to pH 2 with trace metal clean HCl were measured with the wet oxidation method, similarly to the setup detailed in Lalonde et al. (2014). Samples are acidified and sparged to remove inorganic carbon then reacted with Sodium persulfate as wet oxidation. Data were normalized using two different internal organic standards (precision +/- 0.5 ppm for concentrations and 0.2‰ for isotopes).

DIC and δ13C-DIC: 10 mL glass serum vials containing 1 mL porewater sample acidified to pH 2 with H3PO4 were measured at CBL CRDS was used as detailed for the CH4 and CO2 concentrations and stable carbon isotopes.

POC and δ13C-POC: After frozen sediment samples were sampled for CH4 and CO2 concentrations and stable carbon isotope ratios, one of the duplicate samples was uncapped, dried at 60 degrees Celsius (°C) for three days, ground, and acidified with vapor acidification.


Data Processing Description

Methane, carbon dioxide, and dissolved inorganic carbon concentrations and stable carbon isotope ratios: Software for Picarro was used to obtain the CH4, CO2, and DIC concentrations (ppm) as well as stable carbon isotope ratios (delta notation; per mille). Concentrations were converted to dissolved concentrations (mM) and stable carbon isotope ratios were corrected for the machine offset using Microsoft Excel.

Sulfate and chloride: Chromeleon 7 software was used to obtain areas for SO4 and Cl. Areas were converted to concentrations (mM) using Microsoft Excel.

Particulate organic carbon concentrations and stable carbon isotope ratios: EAS Clarity 3.0.0.154 and Isodat Acquisition Version 3.0 were used to obtain POC concentrations (%) and stable carbon isotope ratios (delta notation; per mille). Concentrations and stable carbon isotope ratios were corrected for machine drift using Microsoft Excel.


BCO-DMO Curation Notes

- Imported sheet 1 of the original file "BCO_DMO_CB_v2.xlsx" into the BCO-DMO data processing system.
- Converted Sampling_Date column from string (format %m-%d-%y) to a date type, output as %Y-%m-%d.
- Saved the final file as "1002493_v1_inc_exp_cb.csv".


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Data Files

File
1002493_v1_inc_exp_cb.csv
(Comma Separated Values (.csv), 49.33 KB)
MD5:bc5585a30d5a5bff26199085f6a0c3a9
Primary data file for dataset ID 1002493, version 1

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Related Publications

Lalonde, K., Middlestead, P., & Gélinas, Y. (2014). Automation of 13C/12C ratio measurement for freshwater and seawater DOC using high temperature combustion. Limnology and Oceanography: Methods, 12(12), 816–829. Portico. https://doi.org/10.4319/lom.2014.12.816
Methods
Magen, C., Lapham, L. L., Pohlman, J. W., Marshall, K., Bosman, S., Casso, M., & Chanton, J. P. (2014). A simple headspace equilibration method for measuring dissolved methane. Limnology and Oceanography: Methods, 12(9), 637–650. doi:10.4319/lom.2014.12.637
Methods
Malowany, K., Stix, J., Van Pelt, A., & Lucic, G. (2015). H2S interference on CO2 isotopic measurements using a Picarro G1101-i cavity ring-down spectrometer. Atmospheric Measurement Techniques, 8(10), 4075–4082. https://doi.org/10.5194/amt-8-4075-2015
Methods

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Parameters

ParameterDescriptionUnits
Region

General sampling location (Chesapeake Bay)

unitless
Cruise

Cruise ID for sample collection

unitless
Latitude_ddeg

Sample latitude, south is negative

decimal degrees
Longitude_ddeg

Sample longitude, west is negative

decimal degrees
Sampling_Date

Date the sample was collected

unitless
Incubation

Incubation ID

unitless
Zone

Zone the incubation samples were taken from. SZ = sulfate zone; TZ = transition zone; MZ = methanogenic zone

unitless
Treatment

Treatment applied to the incubation vessel. 13CH4 = 13C-labeled methane added; 13CH4+base = 13C-labeled methane and base added; 13CH4 + BES = 13C-labeled methane and 2-bromoethanesulfonate added; 12CH4 = non-13C-labeled methane added

unitless
Method

Method for obtaining the sediment. No entry = the sediment was taken from zones pre-defined in the Methods section while agg = the remaining sediment was aggregated and homogenized prior to starting the incubation.

unitless
Temperature

Temperature the incubation bags were stored at for the duration of the experiment

degrees Celsius (°C)
Sample_name

The combined zone + treatment + temperature

unitless
Days_elapsed

Time since the incubation was started, defined as the day since the incubation vessels were filled

days
Bag_porewater_mL

Volume of bag porewater after samples were taken

milliliters (mL)
iCH4_permille

Bulk stable carbon isotope value of pore water dissolved methane relative to Vienna Pee Dee Belemnite (VPDB)

per mille (‰)
iCO2_permille

Bulk stable carbon isotope value of pore water dissolved carbon dioxide relative to Vienna Pee Dee Belemnite (VPDB)

per mille (‰)
CH4_mM

Pore water dissolved methane

millimolar (mM)
CO2_mM

Pore water dissolved carbon dioxide

millimolar (mM)
SO4_mM

Pore water dissolved sulfate

millimolar (mM)
Cl_mM

Pore water dissolved chloride

millimolar (mM)
iDIC_permille

Bulk stable carbon isotope value of pore water dissolved inorganic carbon relative to Vienna Pee Dee Belemnite (VPDB)

per mille (‰)
DIC_mM

Pore water dissolved inorganic carbon

millimolar (mM)
iDOC_permille

Bulk stable carbon isotope value of pore water dissolved organic carbon relative to Vienna Pee Dee Belemnite (VPDB)

per mille (‰)
DOC_mM

Pore water dissolved organic carbon

millimolar (mM)
percent_Corg

Sediment percent organic matter

percent (%)
iPOC_permille

Bulk stable carbon isotope value of pore water particulate organic carbon relative to Vienna Pee Dee Belemnite (VPDB)

per mille (‰)


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Instruments

Dataset-specific Instrument Name
Conflo 4
Generic Instrument Name
Continuous Flow Interface for Mass Spectrometers
Dataset-specific Description
Dissolved organic carbon concentration and stable carbon isotopes were measured with an OI Analytical model 1030 wet TIC-TOC analyzer with a model 1088 autosampler interfaced to a Thermo Finnigan DeltaPlus XP IRMS via a Conflo 4 at Jan Veizer Stable Isotope Laboratory.
Generic Instrument Description
A Continuous Flow Interface connects solid and liquid sample preparation devices to instruments that measure isotopic composition. It allows the introduction of the sample and also reference and carrier gases. Examples: Finnigan MATConFlo II, ThermoScientific ConFlo IV, and Picarro Caddy. Note: This is NOT an analyzer

Dataset-specific Instrument Name
Costech ECS 4010 elemental analyzer
Generic Instrument Name
Costech International Elemental Combustion System (ECS) 4010
Dataset-specific Description
Particulate organic carbon and stable carbon isotopes were measured with a Costech ECS 4010 elemental analyzer equipped with a thermal conduction detector and connected to a continuous flow isotope ratio mass spectrometer Delta V Plus (Thermo Scientific) using He as the carrier gas at Chesapeake Biological Laboratory.
Generic Instrument Description
The ECS 4010 Nitrogen / Protein Analyzer is an elemental combustion analyser for CHNSO elemental analysis and Nitrogen / Protein determination. The GC oven and separation column have a temperature range of 30-110 degC, with control of +/- 0.1 degC.

Dataset-specific Instrument Name
gravity corer
Generic Instrument Name
Gravity Corer
Dataset-specific Description
Cores were collected via a gravity corer (1 m).
Generic Instrument Description
The gravity corer allows researchers to sample sediment layers at the bottom of lakes or oceans. The coring device is deployed from the ship and gravity carries it to the seafloor. From: http://www.whoi.edu/instruments/viewInstrument.do?id=1079

Dataset-specific Instrument Name
Thermo Scientific Aquion ion chromatograph
Generic Instrument Name
Ion Chromatograph
Dataset-specific Description
Sulfate and chloride was measured with a Thermo Scientific Aquion ion chromatograph (IonPac AG22 4x50 mm guard column, IonPac AS22 4x250 mm analytical column, and AERS 300 4 mm suppressor) with an AS40 Autosampler at Chesapeake Biological Laboratory.
Generic Instrument Description
Ion chromatography is a form of liquid chromatography that measures concentrations of ionic species by separating them based on their interaction with a resin. Ionic species separate differently depending on species type and size. Ion chromatographs are able to measure concentrations of major anions, such as fluoride, chloride, nitrate, nitrite, and sulfate, as well as major cations such as lithium, sodium, ammonium, potassium, calcium, and magnesium in the parts-per-billion (ppb) range. From: http://serc.carleton.edu/microbelife/research_methods/biogeochemical/ic....

Dataset-specific Instrument Name
Thermo Finnigan DeltaPlus XP IRMS
Generic Instrument Name
Isotope-ratio Mass Spectrometer
Dataset-specific Description
Dissolved organic carbon concentration and stable carbon isotopes were measured with an OI Analytical model 1030 wet TIC-TOC analyzer with a model 1088 autosampler interfaced to a Thermo Finnigan DeltaPlus XP IRMS via a Conflo 4 at Jan Veizer Stable Isotope Laboratory.
Generic Instrument Description
The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer).

Dataset-specific Instrument Name
model 1088 autosampler
Generic Instrument Name
Laboratory Autosampler
Dataset-specific Description
Dissolved organic carbon concentration and stable carbon isotopes were measured with an OI Analytical model 1030 wet TIC-TOC analyzer with a model 1088 autosampler interfaced to a Thermo Finnigan DeltaPlus XP IRMS via a Conflo 4 at Jan Veizer Stable Isotope Laboratory.
Generic Instrument Description
Laboratory apparatus that automatically introduces one or more samples with a predetermined volume or mass into an analytical instrument.

Dataset-specific Instrument Name
AS40 Autosampler
Generic Instrument Name
Laboratory Autosampler
Dataset-specific Description
Sulfate and chloride was measured with a Thermo Scientific Aquion ion chromatograph (IonPac AG22 4x50 mm guard column, IonPac AS22 4x250 mm analytical column, and AERS 300 4 mm suppressor) with an AS40 Autosampler at Chesapeake Biological Laboratory.
Generic Instrument Description
Laboratory apparatus that automatically introduces one or more samples with a predetermined volume or mass into an analytical instrument.

Dataset-specific Instrument Name
Picarro G2201-i CRDS
Generic Instrument Name
Picarro G2201-i isotope analyzer
Dataset-specific Description
Dissolved methane, carbon dioxide, and dissolved inorganic carbon concentrations and stable carbon isotopes were determined using a Picarro G2201-i CRDS at Chesapeake Biological Laboratory.
Generic Instrument Description
The G2201-i Isotopic Analyzer measures d13C for CH4 and CO2. See: https://www.picarro.com/products/g2201i_isotopic_analyzer

Dataset-specific Instrument Name
Delta V Plus (Thermo Scientific)
Generic Instrument Name
Thermo Fisher Scientific DELTA V Plus isotope ratio mass spectrometer
Dataset-specific Description
Particulate organic carbon and stable carbon isotopes were measured with a Costech ECS 4010 elemental analyzer equipped with a thermal conduction detector and connected to a continuous flow isotope ratio mass spectrometer Delta V Plus (Thermo Scientific) using He as the carrier gas at Chesapeake Biological Laboratory
Generic Instrument Description
The Thermo Scientific DELTA V Plus is an isotope ratio mass spectrometer designed to measure isotopic, elemental and molecular ratios of organic and inorganic compounds. The DELTA V Plus is an enhanced model of the DELTA V series of isotope ratio mass spectrometers, which can be upgraded from the DELTA V Advantage. The DELTA V Plus can be operated in Continuous Flow or Dual Inlet mode and can accommodate up to 10 collectors, ensuring flexibility to cover many applications. The DELTA V Plus is controlled by an automated, integrated Isodat software suite. A magnet, whose pole faces determine the free flight space for the ions, eliminates the traditional flight tube. The magnet is designed for fast mass switching which is further supported by a fast jump control between consecutive measurements of multiple gases within one run. The sample gas is introduced at ground potential, eliminating the need for insulation of the flow path, ensuring 100 percent transfer into the ion source. The amplifiers register ion beams up to 50 V. The DELTA V Plus has refined optics, enabling greater ion transmission than the DELTA V Advantage. It has a sensitivity of 800 molecules per ion (M/I) in Dual Inlet mode and 1100 M/I in Continuous Flow mode. It has a system stability of < 10 ppm and an effective magnetic detection radius of 191 nm. It has a mass range of 1 - 96 Dalton at 3 kV.

Dataset-specific Instrument Name
OI Analytical model 1030 wet TIC-TOC analyzer
Generic Instrument Name
Total Organic Carbon Analyzer
Dataset-specific Description
Dissolved organic carbon concentration and stable carbon isotopes were measured with an OI Analytical model 1030 wet TIC-TOC analyzer with a model 1088 autosampler interfaced to a Thermo Finnigan DeltaPlus XP IRMS via a Conflo 4 at Jan Veizer Stable Isotope Laboratory.
Generic Instrument Description
A unit that accurately determines the carbon concentrations of organic compounds typically by detecting and measuring its combustion product (CO2). See description document at: http://bcodata.whoi.edu/LaurentianGreatLakes_Chemistry/bs116.pdf


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Project Information

Collaborative Research: Investigating the source and flux of dissolved organic carbon released from methane seeps to the deep-ocean (seepDOM)


Coverage: Astoria Canyon and Hydrate Ridge


NSF Award Abstract:
Dissolved organic carbon (DOC) is a key component of the ocean’s food web and carbon cycle, and carbon exchanged between oceanic DOC and the atmosphere has influenced atmospheric CO2 levels on timescales ranging from recent decades to the geologic past. Production by marine algae in the surface ocean is the largest source of DOC and its effects on the ocean carbon cycle are widely appreciated. However, the contribution of DOC from additional sources such as rivers, hydrothermal vents, and methane seeps and their impact on ocean ecology and chemistry are not well understood. Each source differs in terms of its biological utilization and age, which affects the storage and distribution of DOC among the ocean basins. Methane seeps located along continental margins are particularly significant because they may transfer globally significant quantities of carbon stored below the seafloor as natural gas and gas hydrate to the oceans. This project will investigate the production, flux, composition and potential for biological utilization of DOC at Hydrate Ridge, located offshore Oregon. Hydrate Ridge is a prominent methane seep with massive accumulations of gas hydrate and a node of the Ocean Observatories Initiative telecommunications cabled array on the Juan De Fuca tectonic plate, which provides a continuous stream of real-time regional oceanographic data. We will sample and chemically characterize methane, DOC, and other materials to provide information about where the materials originated (deep vs shallow), how they have been chemically altered, to what extent they may feed deep ocean organisms, or contribute to the long term storage of DOC in the ocean. Experiments and analysis will be conducted using sediment cores and bottom water samples collected using either the remotely operated vehicle Jason or the human occupied vehicle Alvin during a 7-day ocean expedition. Additionally, this project will place osmotically-driven pumps on the seafloor to continuously sample fluids for approximately one year, thereby allowing us to monitor the movement of methane and DOC expelled from the seafloor to the ocean and constrain processes that regulate the release of carbon to the oceans at methane seeps. This project will support one graduate student and several undergraduates from a community college in Maryland and a college located in a lower-income urban center in southeastern Massachusetts. We will disseminate project findings to the public with a series of videos for public TV.

This study will investigate the production, flux and reactivity of methane-derived dissolved organic carbon (DOC) from methane (CH4) seeps at Hydrate Ridge, Offshore Oregon. The study will address four fundamental questions to determine the significance of CH4-derived DOC within the ocean carbon cycle: (1) How much CH4-derived fossil DOC do seeps contribute to the oceans? (2) To what extent is CH4-derived C incorporated into DOC during anaerobic oxidation of CH4? (3) Is seep DOC bioavailable or recalcitrant when released into the deep ocean? (4) How does the flux of DOC to the water column vary over time? We will employ an interdisciplinary strategy that includes in situ sampling, laboratory incubations, and a comprehensive analytical geochemistry program. Data from the Ocean Observatories Initiative Regional Cabled Array at Southern Hydrate Ridge will be used to provide context for field and experimental data. The composition and abundance of organic and inorganic chemical species along with the stable and radiocarbon isotope composition of pore water, bulk sediment, and water column C pools will be used to identify DOC sources and quantify fluxes from cold seeps characterized by a range of advection rates. The centerpiece of the investigation will be a 7-day research cruise to Hydrate Ridge to collect sediments, pore fluids, and water column samples, and deploy OsmoSamplers for continuous time series fluid sampling. The results will form the foundation for estimating the contribution of CH4-derived DOC to the oceanic DOC pool.

This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.



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Funding

Funding SourceAward
NSF Division of Ocean Sciences (NSF OCE)

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