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The data was produced during a 16 day in-situ incubation experiment in the Baltic Sea. In order to assess the potential for enhanced benthic calcite weathering as a ocean alkalinisation and thus negative emissions strategy, a Biogeochemical Observatory (BIGO, Sommer et al., 2009) was deployed at 54° 34.432 N, 10° 10.776 E, at 22 m water depth between 2025-07-12 and 2025-07-29. The BIGO is equipped with two benthic chambers that were lowerd to the sea floor. In chamber two, 29 g of fine calcite powder were added to the bottom water. 7 Samples were taken via an automatted glassyringe sampler from each chamber and the ambient bottom water.
Enhanced mineral dissolution in the benthic environment is currently discussed as a potential technique for ocean alkalinity enhancement (OAE) to reduce atmospheric carbon dioxide (CO2) levels. This study explores how biogeochemical processes affect the dissolution of alkaline minerals in surface sediments during laboratory incubation experiments. These involved introducing dunite and calcite to organic-rich sediments from the Baltic Sea under controlled conditions in an anoxic to hypoxic environment. The sediment cores were incubated with Baltic Sea bottom water. Eight sediment cores were positioned vertically in a rack. Since the sediment surface was slightly oxidized by the bottom water (∼125 μmol l−1 upon recovery), the cores were left plugged on the top for 13 days to settle after recovery until the sediment surface was anoxic. To achieve chemical conditions that are expected in the natural system, 500l of retrieved sea water were degassed via bubbling with pure dinitrogen gas in batches of 100 l. Afterwards, between 50 and 60 l were transferred into an evacuated gas tight bag. After the transfer, pH and total alkalinity (TA) were measured to determine the dissolved inorganic carbon (DIC) of the water. Afterwards the DIC was increased via adding pure CO2 until a CO2 partial pressure (pCO2 ) of ∼2,300–∼3,300 μatm was established mimicking conditions prevailing in Boknis Eck during summer. Stirring heads were installed on the cores. To prevent the development of oxic conditions, it was ensured that as little gas phase as possible was left in the cores. Elimination of pelagic autotrophs, heterotrophs, and suspended particles was achieved by flushing the cores with modified bottom water for 2 days with a flow rate of 1.5 mml min−1. Afterwards, a continuous throughflow of 700 μl min−1 from the reservoir of modified bottom water was applied, leading to a residence time of ∼2.1 days inside the cores. For the experimental incubations, six cores received additions of alkaline materials, three with calcite (Cal1 - Cal3) and three cores with dunite (Dun1 - Dun3), leading to three replicates per treatment. Two control cores remained untreated (C1, C2). The amount of added substrate was based on the rain rate of particulate organic carbon observed in Boknis Eck (0.5 mmol cm−2 a−). The incubation lasted for 25 days. The volume of water in each core was determined at the end of the experiment via measuring the height of the water column after removing the stirring heads. At the end of the experiments, the bottom water was removed via suction and the cores were sliced for pore water analysis. The pore waters were recovered by centrifuging each respective sediment layer in 50 ml falcon tubes at 3000 rpm for 10 minutes. Afterwards, the supernatant water was transferred to polyethylene (PE) vials in an Ar-filled glove bag to minimize contact with oxygen. All samples were filtered through a 0.2 µm cellulose membrane filter and refrigerated in 25 ml ZinsserTM scintillation vials. TA samples (1 ml) were titrated with 0.02N HCl. For H2S, an aliquot of pore water was diluted. A 5 ml aliquot was frozen directly after the sampling procedure for later nutrient analysis. Nutrient measurements were performed either via manual photometric measurement (NH4) or using a Seal – AnalyticalTM QuAAtro autoanalyzer (PO43-). Samples for TA were analyzed directly after sampling by titration of 1 ml of bottom/pore water with 0.02N HCl. Titration was ended when a stable purple color appeared. During titration, the sample was degassed by continuous bubbling with nitrogen to remove any generated CO2 and H2S. The acid was standardized using an IAPSO seawater standard. Acidified sub-samples (30 μl suprapure HNO3- + 3 ml sample) were prepared for analyses of major and trace elements (Si, Na, K, Li, B, Mg, Ca, Sr, Mn, Ni and Fe) by inductively coupled plasma optical emission spectroscopy (ICP-OES, Varian 720-ES). For H2S, an aliquot of pore water was diluted with appropriate amounts of oxygen-free artificial seawater and the H2S was fixed by immediate addition of zinc acetate gelatin solution
We studied dissolved organic matter (DOM) dynamics in the anoxic basin Mariager Fjord, Gotland Basin, and Black Sea. Therefore, we performed a mass spectrometric analysis of DOM extracts via FT-ICR MS on a 15 Tesla solariX XR Fourier-transform ion cyclotron resonance mass spectrometer (Bruker Daltonik GmbH, Bremen, Germany). The system was equipped with an electrospray ionization source (ESI, Bruker Apollo II) applied in negative ionization mode. Methanol extracts were mixed with ultrapure water (50:50 v/v) for FT-ICR MS analysis and diluted to a final DOC concentration of 2.5 mg C/L. 200 single scans with an ion accumulation time of 0.1 s were recorded over a mass range of m/z 100 to 1,000 Da and added to one spectrum. Data processing, molecular formula assignments, and compound category classifications were done with the software pipeline ICBM-OCEAN. All sample data was normalized to the intensity sum of 1. FT-ICR-MS data from Mariager Fjord (Denmark), Gotland Basin (Baltic Sea), Black Sea, and an abiotic (de)oxygenation experiment are provided. The data consists of the molecular formula with corresponding m/z measured at an FT-ICR-MS and relative intensities for each sample of these molecular formulas. Additionally, we included common molecular parameters, including H/C, O/C and S/C ratios for each molecular formula.
We studied dissolved organic matter (DOM) dynamics in the anoxic basin Mariager Fjord, Gotland Basin, and Black Sea. In this data set we provide environmental data (oxygen, salinity, temperature), dissolved and solid-phase extracted carbon (DOC, SPE-DOC), nitrogen (TDN, SPE-DON), sulfur (SPE-DOS), and phosphorus (SPE-DOP) concentrations. Elemental analysis of carbon and nitrogen were carried out with a High-temperature catalytic combustion, Shimadzu, Shimadzu TOC-VCPH equipped with TDN unit, analysis of extractable sulfur and phosphorus with Inductively coupled plasma optical emission spectroscopy, Thermo Fisher Scientific GmbH, iCAP PRO.
The dataset contains major and trace element concentrations measured by inductively coupled plasma optical emission spectrometry (ICP-OES) from water samples collected during a 16-day in-situ incubation experiment in the Baltic Sea (2025-07-12 to 2025-07-29). Samples were collected using an automated glass-syringe sampler deployed within two benthic chambers of a Biogeochemical Observatory (BIGO, Sommer et al., 2009) at 54° 34.432' N, 10° 10.776' E, at 22 m water depth. In one chamber, 29 g of fine calcite powder were added to the bottom water to assess the potential of enhanced benthic calcite weathering as an ocean alkalinity enhancement (OAE) strategy. Seven samples per chamber and from the ambient bottom water were analyzed to trace elemental changes associated with calcite dissolution.
The dataset contains dissolved nutrient concentrations from water samples collected during a 16-day in-situ incubation experiment in the Baltic Sea (2025-07-12 to 2025-07-29). Samples were collected using an automated glass-syringe sampler deployed within two benthic chambers of a Biogeochemical Observatory (BIGO, Sommer et al., 2009) at 54° 34.432' N, 10° 10.776' E, at 22 m water depth. In one chamber, 29 g of fine calcite powder were added to the bottom water as part of an enhanced benthic calcite weathering experiment. Seven samples per chamber and from the ambient bottom water were analyzed to assess potential nutrient fluxes associated with the calcite addition and benthic biogeochemical processes.
The dataset contains total alkalinity measurements from water samples collected during a 16-day in-situ incubation experiment in the Baltic Sea (2025-07-12 to 2025-07-29). Samples were collected using an automated glass-syringe sampler deployed within two benthic chambers of a Biogeochemical Observatory (BIGO, Sommer et al., 2009) at 54° 34.432' N, 10° 10.776' E, at 22 m water depth. In one chamber, 29 g of fine calcite powder were added to the bottom water. Seven samples per chamber and from the ambient bottom water were taken to monitor alkalinity changes resulting from calcite dissolution, providing a direct measure of the ocean alkalinity enhancement (OAE)
The sampling campaigns were conducted in the Black Sea (POS539), Baltic Sea/Gotland Basin (EMB324), and on a boat in Denmark/Mariager Fjord. All three study sites are differently influenced by ocean deoxygenation and anoxia. While Mariager Fjord waters are seasonally anoxic, the deep waters of Gotland Basin and Black Sea can remain anoxic for decades and millennia, respectively. Furthermore, to target potential abiotic reactions, we incubated filtered Gotland Basin waters at low (<1.5µM O2) and high (>200µM O2) oxygen concentrations. All samples were filtered to 0.2 µm pore size and acidified with hydrochloric acid to pH2. DOM was extracted and desalted prior to molecular analysis with ultrahigh resolution mass spectrometry (FT-ICR-MS) following an established method using cartridges filled with a styrene-divinylbenzene copolymer (Agilent Bond Elut PPL, 1 g). This data set contains two files: (1) environmental data, including oxygen concentrations, salinity, temperature, dissolved and solid-phase extractable dissolved carbon (DOC, SPE-DOC), nitrogen (TDN, SPE-DON), sulfur (SPE-DOS), and phosphorus (SPE-DOP), and (2) processed FT-ICR-MS data for all samples.
To investigate the effect of temperature on a North Sea spring bloom community, we performed an incubation experiment in the mesocosm facility of the Institute for Chemistry and Biology of the Marine Environment (ICBM) in Wilhelmshaven. The plankton community was sampled from the long-term ecological research station Helgoland Roads (https://deims.org/1e96ef9b-0915-4661-849f-b3a72f5aa9b1) on the 6ᵗʰ of March, 2022. Collection of the surface community was conducted from the RV Heincke with a pipe covered with a 200 µm net that was attached to a diaphragm pump. The month-long incubation was started on the 7ᵗʰ of March in twelve indoor mesocosms, the Planktotrons (Gall et al., 2017). We chose three temperatures along the ascending part of the thermal performance curve (TPC) of the in situ community: the minimum temperature for positive growth (6°C, also the field temperature), the middle between the minimum and the optimum temperature (12 °C), and the optimum temperature for growth (18 °C). Ramping up the temperatures was conducted by 1 °C per day until the treatment temperatures were reached, resulting in a ramp phase (first twelve days) and a constant temperature phase. This dataset comprises all data collected within the experiment. Temperature, oxygen, pH, salinity, and in vivo fluorescence were measured daily at 10 am. Samples for dissolved nutrients (nitrate, nitrite, phosphate, silicate), chlorophyll a, DNA, particulate nutrients (biogenic silica, particulate organic carbon/nitrogen/phosphorus), as well as flow cytometric counts of bacteria (stained) and the unstained community were sampled every third day at the same time. The mesocosm water was generally filtered over a 200 µm mesh before sampling to exclude mesozooplankton. However, due to the appearance of large Phaeocystis colonies, additional samples without pre-filtration were taken for particulate organic carbon, nitrogen, phosphorus, and chlorophyll a starting on incubation day 15. PAR, total nitrogen and phosphorus as well as total alkalinity were measured at the start, in the middle, and at the end of the incubation. Samples for Mesozooplankton enumeration were taken and plankton species identified at the end of the experiment. All analysis scripts can be found on github (https://github.com/AntoniaAhme/TopTrons22MesocosmIncubation). The sequence data are available at the European Nucleotide Archive (ENA).
Enhanced mineral dissolution in the benthic environment is currently discussed as a potential technique for ocean alkalinity enhancement (OAE) to reduce atmospheric carbon dioxide (CO2) levels. This study explores how biogeochemical processes affect the dissolution of alkaline minerals in surface sediments during laboratory incubation experiments. These involved introducing dunite and calcite to organic-rich sediments from the Baltic Sea under controlled conditions in an anoxic to hypoxic environment. The sediment cores were incubated with Baltic Sea bottom water. Eight sediment cores were positioned vertically in a rack. Since the sediment surface was slightly oxidized by the bottom water (∼125 μmol l−1 upon recovery), the cores were left plugged on the top for 13 days to settle after recovery until the sediment surface was anoxic. To achieve chemical conditions that are expected in the natural system, 500l of retrieved sea water were degassed via bubbling with pure dinitrogen gas in batches of 100 l. Afterwards, between 50 and 60 l were transferred into an evacuated gas tight bag. After the transfer, pH and total alkalinity (TA) were measured to determine the dissolved inorganic carbon (DIC) of the water. Afterwards the DIC was increased via adding pure CO2 until a CO2 partial pressure (pCO2 ) of ∼2,300–∼3,300 μatm was established mimicking conditions prevailing in Boknis Eck during summer. Stirring heads were installed on the cores. To prevent the development of oxic conditions, it was ensured that as little gas phase as possible was left in the cores. Elimination of pelagic autotrophs, heterotrophs, and suspended particles was achieved by flushing the cores with modified bottom water for 2 days with a flow rate of 1.5 mml min−1. Afterwards, a continuous throughflow of 700 μl min−1 from the reservoir of modified bottom water was applied, leading to a residence time of ∼2.1 days inside the cores. For the experimental incubations, six cores received additions of alkaline materials, three with calcite (Cal1 - Cal3) and three cores with dunite (Dun1 - Dun3), leading to three replicates per treatment. Two control cores remained untreated (C1, C2). The amount of added substrate was based on the rain rate of particulate organic carbon observed in Boknis Eck (0.5 mmol cm−2 a−). The incubation lasted for 25 days. The volume of water in each core was determined at the end of the experiment via measuring the height of the water column after removing the stirring heads. Bottom water samples were taken from the outflow of each core over a time period of several hours. Thus, samples represent the average outflow over the respective time period. Sampling intervals increased from daily during the first two weeks to every three to four days and weekly towards the end of the experiment. All samples were filtered through a 0.2 µm cellulose membrane filter and refrigerated in 25 ml ZinsserTM scintillation vials. Samples for TA were analyzed directly after sampling by titration of 1 ml of bottom water with 0.02N HCl. Titration was ended when a stable purple color appeared. During titration, the sample was degassed by continuous bubbling with nitrogen to remove any generated CO2 and H2S. The acid was standardized using an IAPSO seawater standard. Acidified sub-samples (30 μl suprapure HNO3- + 3 ml sample) were prepared for analyses of major and trace elements (Si, Na, K, Li, B, Mg, Ca, Sr, Mn, Ni and Fe) by inductively coupled plasma optical emission spectroscopy (ICP-OES, Varian 720-ES).
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