Articles | Volume 10, issue 12
https://doi.org/10.5194/bg-10-7847-2013
© Author(s) 2013. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
https://doi.org/10.5194/bg-10-7847-2013
© Author(s) 2013. This work is distributed under
the Creative Commons Attribution 3.0 License.
the Creative Commons Attribution 3.0 License.
Technical note
| 
03 Dec 2013
Technical note |
| 03 Dec 2013
Technical Note: Simultaneous measurement of sedimentary N2 and N2O production and a modified 15N isotope pairing technique
T.-C. Hsu
Research Center for Environmental Changes, Academia Sinica, Taipei, Taiwan
Earth System Science Program, Taiwan International Graduate Program, Academia Sinica, Taipei, Taiwan
S.-J. Kao
present address: Research Center for Environmental Changes, Academia Sinica, 128 Sec. 2, Academia Rd., Nankang Taipei, 115 ROC, Taiwan
State Key Laboratory of Marine Environmental Science, Xiamen University, Xiamen, China
Research Center for Environmental Changes, Academia Sinica, Taipei, Taiwan
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Christiane Schmidt, Emmanuelle Geslin, Joan M. Bernhard, Charlotte LeKieffre, Mette Marianne Svenning, Helene Roberge, Magali Schweizer, and Giuliana Panieri
Biogeosciences, 19, 3897–3909, https://doi.org/10.5194/bg-19-3897-2022, https://doi.org/10.5194/bg-19-3897-2022, 2022
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This study is the first to show non-selective deposit feeding in the foraminifera Nonionella labradorica and the possible uptake of methanotrophic bacteria. We carried out a feeding experiment with a marine methanotroph to examine the ultrastructure of the cell and degradation vacuoles using transmission electron microscopy (TEM). The results revealed three putative methanotrophs at the outside of the cell/test, which could be taken up via non-targeted grazing in seeps or our experiment.
James P. J. Ward, Katharine R. Hendry, Sandra Arndt, Johan C. Faust, Felipe S. Freitas, Sian F. Henley, Jeffrey W. Krause, Christian März, Allyson C. Tessin, and Ruth L. Airs
Biogeosciences, 19, 3445–3467, https://doi.org/10.5194/bg-19-3445-2022, https://doi.org/10.5194/bg-19-3445-2022, 2022
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The seafloor plays an important role in the cycling of silicon (Si), a key nutrient that promotes marine primary productivity. In our model study, we disentangle major controls on the seafloor Si cycle to better anticipate the impacts of continued warming and sea ice melt in the Barents Sea. We uncover a coupling of the iron redox and Si cycles, dissolution of lithogenic silicates, and authigenic clay formation, comprising a Si sink that could have implications for the Arctic Ocean Si budget.
Hanni Vigderovich, Werner Eckert, Michal Elul, Maxim Rubin-Blum, Marcus Elvert, and Orit Sivan
Biogeosciences, 19, 2313–2331, https://doi.org/10.5194/bg-19-2313-2022, https://doi.org/10.5194/bg-19-2313-2022, 2022
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Anaerobic oxidation of methane (AOM) is one of the major processes limiting the release of the greenhouse gas methane from natural environments. Here we show that significant AOM exists in the methane zone of lake sediments in natural conditions and even after long-term (ca. 18 months) anaerobic slurry incubations with two stages. Methanogens were most likely responsible for oxidizing the methane, and humic substances and iron oxides are likely electron acceptors to support this oxidation.
Bjorn Sundby, Pierre Anschutz, Pascal Lecroart, and Alfonso Mucci
Biogeosciences, 19, 1421–1434, https://doi.org/10.5194/bg-19-1421-2022, https://doi.org/10.5194/bg-19-1421-2022, 2022
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A glacial–interglacial methane-fuelled redistribution of reactive phosphorus between the oceanic and sedimentary phosphorus reservoirs can occur in the ocean when falling sea level lowers the pressure on the seafloor, destabilizes methane hydrates, and triggers the dissolution of P-bearing iron oxides. The mass of phosphate potentially mobilizable from the sediment is similar to the size of the current oceanic reservoir. Hence, this process may play a major role in the marine phosphorus cycle.
Florian Lauryssen, Philippe Crombé, Tom Maris, Elliot Van Maldegem, Marijn Van de Broek, Stijn Temmerman, and Erik Smolders
Biogeosciences, 19, 763–776, https://doi.org/10.5194/bg-19-763-2022, https://doi.org/10.5194/bg-19-763-2022, 2022
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Surface waters in lowland regions have a poor surface water quality, mainly due to excess nutrients like phosphate. Therefore, we wanted to know the phosphate levels without humans, also called the pre-industrial background. Phosphate binds strongly to sediment particles, suspended in the river water. In this research we used sediments deposited by a river as an archive for surface water phosphate back to 1800 CE. Pre-industrial phosphate levels were estimated at one-third of the modern levels.
Gerard J. M. Versteegh, Andrea Koschinsky, Thomas Kuhn, Inken Preuss, and Sabine Kasten
Biogeosciences, 18, 4965–4984, https://doi.org/10.5194/bg-18-4965-2021, https://doi.org/10.5194/bg-18-4965-2021, 2021
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Oxygen penetrates sediments not only from the ocean bottom waters but also from the basement. The impact of the latter is poorly understood. We show that this basement oxygen has a clear impact on the nitrogen cycle, the redox state, and the distribution of manganese, nickel cobalt and organic matter in the sediments. This is important for (1) global biogeochemical cycles, (2) understanding sedimentary life and (3) the interpretation of the sediment record to reconstruct the past.
Annika Fiskal, Eva Anthamatten, Longhui Deng, Xingguo Han, Lorenzo Lagostina, Anja Michel, Rong Zhu, Nathalie Dubois, Carsten J. Schubert, Stefano M. Bernasconi, and Mark A. Lever
Biogeosciences, 18, 4369–4388, https://doi.org/10.5194/bg-18-4369-2021, https://doi.org/10.5194/bg-18-4369-2021, 2021
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Microbially produced methane can serve as a carbon source for freshwater macrofauna most likely through grazing on methane-oxidizing bacteria. This study investigates the contributions of different carbon sources to macrofaunal biomass. Our data suggest that the average contribution of methane-derived carbon is similar between different fauna but overall remains low. This is further supported by the low abundance of methane-cycling microorganisms.
Astrid Hylén, Sebastiaan J. van de Velde, Mikhail Kononets, Mingyue Luo, Elin Almroth-Rosell, and Per O. J. Hall
Biogeosciences, 18, 2981–3004, https://doi.org/10.5194/bg-18-2981-2021, https://doi.org/10.5194/bg-18-2981-2021, 2021
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Sediments in oxygen-depleted ocean areas release high amounts of phosphorus, feeding algae that consume oxygen upon degradation, leading to further phosphorus release. Oxygenation is thought to trap phosphorus in the sediment and break this feedback. We studied the sediment phosphorus cycle in a previously anoxic area after an inflow of oxic water. Surprisingly, the sediment phosphorus release increased, showing that feedbacks between phosphorus release and oxygen depletion can be hard to break.
Sebastiaan J. van de Velde, Rebecca K. James, Ine Callebaut, Silvia Hidalgo-Martinez, and Filip J. R. Meysman
Biogeosciences, 18, 1451–1461, https://doi.org/10.5194/bg-18-1451-2021, https://doi.org/10.5194/bg-18-1451-2021, 2021
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Some 540 Myr ago, animal life evolved in the ocean. Previous research suggested that when these early animals started inhabiting the seafloor, they retained phosphorus in the seafloor, thereby limiting photosynthesis in the ocean. We studied salt marsh sediments with and without animals and found that their impact on phosphorus retention is limited, which implies that their impact on the global environment might have been less drastic than previously assumed.
Martijn Hermans, Nils Risgaard-Petersen, Filip J. R. Meysman, and Caroline P. Slomp
Biogeosciences, 17, 5919–5938, https://doi.org/10.5194/bg-17-5919-2020, https://doi.org/10.5194/bg-17-5919-2020, 2020
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This paper demonstrates that the recently discovered cable bacteria are capable of using a mineral, known as siderite, as a source for the formation of iron oxides. This work also demonstrates that the activity of cable bacteria can lead to a distinct subsurface layer in the sediment that can be used as a marker for their activity.
Torben Windirsch, Guido Grosse, Mathias Ulrich, Lutz Schirrmeister, Alexander N. Fedorov, Pavel Y. Konstantinov, Matthias Fuchs, Loeka L. Jongejans, Juliane Wolter, Thomas Opel, and Jens Strauss
Biogeosciences, 17, 3797–3814, https://doi.org/10.5194/bg-17-3797-2020, https://doi.org/10.5194/bg-17-3797-2020, 2020
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To extend the knowledge on circumpolar deep permafrost carbon storage, we examined two deep permafrost deposit types (Yedoma and alas) in central Yakutia. We found little but partially undecomposed organic carbon as a result of largely changing sedimentation processes. The carbon stock of the examined Yedoma deposits is about 50 % lower than the general Yedoma domain mean, implying a very hetererogeneous Yedoma composition, while the alas is approximately 80 % below the thermokarst deposit mean.
Anna Plass, Christian Schlosser, Stefan Sommer, Andrew W. Dale, Eric P. Achterberg, and Florian Scholz
Biogeosciences, 17, 3685–3704, https://doi.org/10.5194/bg-17-3685-2020, https://doi.org/10.5194/bg-17-3685-2020, 2020
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We compare the cycling of Fe and Cd in sulfidic sediments of the Peruvian oxygen minimum zone. Due to the contrasting solubility of their sulfide minerals, the sedimentary Fe release and Cd burial fluxes covary with spatial and temporal distributions of H2S. Depending on the solubility of their sulfide minerals, sedimentary trace metal fluxes will respond differently to ocean deoxygenation/expansion of H2S concentrations, which may change trace metal stoichiometry of upwelling water masses.
Biqing Zhu, Manuel Kübler, Melanie Ridoli, Daniel Breitenstein, and Martin H. Schroth
Biogeosciences, 17, 3613–3630, https://doi.org/10.5194/bg-17-3613-2020, https://doi.org/10.5194/bg-17-3613-2020, 2020
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We provide evidence that the greenhouse gas methane (CH4) is enclosed in calcareous glacier-forefield sediments across Switzerland. Geochemical analyses confirmed that this ancient CH4 has its origin in the calcareous parent bedrock. Our estimate of the total quantity of CH4 enclosed in sediments across Switzerland indicates a large CH4 mass (~105 t CH4). We produced evidence that CH4 is stable in its enclosed state, but additional experiments are needed to elucidate its long-term fate.
Matteo Puglini, Victor Brovkin, Pierre Regnier, and Sandra Arndt
Biogeosciences, 17, 3247–3275, https://doi.org/10.5194/bg-17-3247-2020, https://doi.org/10.5194/bg-17-3247-2020, 2020
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A reaction-transport model to assess the potential non-turbulent methane flux from the East Siberian Arctic sediments to water columns is applied here. We show that anaerobic oxidation of methane (AOM) is an efficient filter except for high values of sedimentation rate and advective flow, which enable considerable non-turbulent steady-state methane fluxes. Significant transient methane fluxes can also occur during the building-up phase of the AOM-performing biomass microbial community.
Kyle Delwiche, Junyao Gu, Harold Hemond, and Sarah P. Preheim
Biogeosciences, 17, 3135–3147, https://doi.org/10.5194/bg-17-3135-2020, https://doi.org/10.5194/bg-17-3135-2020, 2020
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In this study, we investigate whether bubbles transport sediments containing arsenic and cyanobacteria from the bottom to the top of a polluted lake. We measured arsenic and cyanobacteria from bubble traps in the lake and from an experimental bubble column in the laboratory. We found that bubble transport was not an important source of arsenic in the surface waters but that bubbles could transport enough cyanobacteria to the surface to exacerbate harmful algal blooms.
Nathaniel Kemnitz, William M. Berelson, Douglas E. Hammond, Laura Morine, Maria Figueroa, Timothy W. Lyons, Simon Scharf, Nick Rollins, Elizabeth Petsios, Sydnie Lemieux, and Tina Treude
Biogeosciences, 17, 2381–2396, https://doi.org/10.5194/bg-17-2381-2020, https://doi.org/10.5194/bg-17-2381-2020, 2020
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Our paper shows how sedimentation in a very low oxygen setting provides a unique record of environmental change. We look at the past 250 years through the filter of sediment accumulation via radioisotope dating and other physical and chemical analyses of these sediments. We conclude, remarkably, that there has been very little change in net sediment mass accumulation through the past 100–150 years, yet just prior to 1900 CE, sediments were accumulating at 50 %–70 % of today's rate.
Dario Fussmann, Avril Jean Elisabeth von Hoyningen-Huene, Andreas Reimer, Dominik Schneider, Hana Babková, Robert Peticzka, Andreas Maier, Gernot Arp, Rolf Daniel, and Patrick Meister
Biogeosciences, 17, 2085–2106, https://doi.org/10.5194/bg-17-2085-2020, https://doi.org/10.5194/bg-17-2085-2020, 2020
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Dolomite (CaMg(CO3)2) is supersaturated in many aquatic settings (e.g., seawater) on modern Earth but does not precipitate directly from the fluid, a fact known as the dolomite problem. The widely acknowledged concept of dolomite precipitation involves microbial extracellular polymeric substances (EPSs) and anoxic conditions as important drivers. In contrast, results from Lake Neusiedl support an alternative concept of Ca–Mg carbonate precipitation under aerobic and alkaline conditions.
Aurèle Vuillemin, André Friese, Richard Wirth, Jan A. Schuessler, Anja M. Schleicher, Helga Kemnitz, Andreas Lücke, Kohen W. Bauer, Sulung Nomosatryo, Friedhelm von Blanckenburg, Rachel Simister, Luis G. Ordoñez, Daniel Ariztegui, Cynthia Henny, James M. Russell, Satria Bijaksana, Hendrik Vogel, Sean A. Crowe, Jens Kallmeyer, and the Towuti Drilling Project
Science team
Biogeosciences, 17, 1955–1973, https://doi.org/10.5194/bg-17-1955-2020, https://doi.org/10.5194/bg-17-1955-2020, 2020
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Ferruginous lakes experience restricted primary production due to phosphorus trapping by ferric iron oxides under oxic conditions. We report the presence of large crystals of vivianite, a ferrous iron phosphate, in sediments from Lake Towuti, Indonesia. We address processes of P retention linked to diagenesis of iron phases. Vivianite crystals had light Fe2+ isotope signatures and contained mineral inclusions consistent with antecedent processes of microbial sulfate and iron reduction.
Sonja Geilert, Patricia Grasse, Kristin Doering, Klaus Wallmann, Claudia Ehlert, Florian Scholz, Martin Frank, Mark Schmidt, and Christian Hensen
Biogeosciences, 17, 1745–1763, https://doi.org/10.5194/bg-17-1745-2020, https://doi.org/10.5194/bg-17-1745-2020, 2020
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Marine silicate weathering is a key process of the marine silica cycle; however, its controlling processes are not well understood. In the Guaymas Basin, silicate weathering has been studied under markedly differing ambient conditions. Environmental settings like redox conditions or terrigenous input of reactive silicates appear to be major factors controlling marine silicate weathering. These factors need to be taken into account in future oceanic mass balances of Si and in modeling studies.
Jessica B. Volz, Laura Haffert, Matthias Haeckel, Andrea Koschinsky, and Sabine Kasten
Biogeosciences, 17, 1113–1131, https://doi.org/10.5194/bg-17-1113-2020, https://doi.org/10.5194/bg-17-1113-2020, 2020
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Potential future deep-sea mining of polymetallic nodules at the seafloor is expected to severely harm the marine environment. However, the consequences on deep-sea ecosystems are still poorly understood. This study on surface sediments from man-made disturbance tracks in the Pacific Ocean shows that due to the removal of the uppermost sediment layer and thereby the loss of organic matter, the geochemical system in the sediments is disturbed for millennia before reaching a new equilibrium.
Ralf Conrad, Melanie Klose, and Alex Enrich-Prast
Biogeosciences, 17, 1063–1069, https://doi.org/10.5194/bg-17-1063-2020, https://doi.org/10.5194/bg-17-1063-2020, 2020
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Lake sediments release the greenhouse gas CH4. Acetate is an important precursor. Although Amazonian lake sediments all contained acetate-consuming methanogens, measurement of the turnover of labeled acetate showed that some sediments converted acetate not to CH4 plus CO2, as expected, but only to CO2. Our results indicate the operation of acetate-oxidizing microorganisms couples the oxidation process to syntrophic methanogenic partners and/or to the reduction of organic compounds.
Jens Rassmann, Eryn M. Eitel, Bruno Lansard, Cécile Cathalot, Christophe Brandily, Martial Taillefert, and Christophe Rabouille
Biogeosciences, 17, 13–33, https://doi.org/10.5194/bg-17-13-2020, https://doi.org/10.5194/bg-17-13-2020, 2020
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In this paper, we use a large set of measurements made using in situ and lab techniques to elucidate the cause of dissolved inorganic carbon fluxes in sediments from the Rhône delta and its companion compound alkalinity, which carries the absorption capacity of coastal waters with respect to atmospheric CO2. We show that sediment processes (sulfate reduction, FeS precipitation and accumulation) are crucial in generating the alkalinity fluxes observed in this study by in situ incubation chambers.
Sophie A. L. Paul, Matthias Haeckel, Michael Bau, Rajina Bajracharya, and Andrea Koschinsky
Biogeosciences, 16, 4829–4849, https://doi.org/10.5194/bg-16-4829-2019, https://doi.org/10.5194/bg-16-4829-2019, 2019
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We studied the upper 10 m of deep-sea sediments, including pore water, in the Peru Basin to understand small-scale variability of trace metals. Our results show high spatial variability related to topographical variations, which in turn impact organic matter contents, degradation processes, and trace metal cycling. Another interesting finding was the influence of dissolving buried nodules on the surrounding sediment and trace metal cycling.
Sarah Paradis, Antonio Pusceddu, Pere Masqué, Pere Puig, Davide Moccia, Tommaso Russo, and Claudio Lo Iacono
Biogeosciences, 16, 4307–4320, https://doi.org/10.5194/bg-16-4307-2019, https://doi.org/10.5194/bg-16-4307-2019, 2019
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Chronic deep bottom trawling in the Gulf of Castellammare (SW Mediterranean) erodes large volumes of sediment, exposing over-century-old sediment depleted in organic matter. Nevertheless, the arrival of fresh and nutritious sediment recovers superficial organic matter in trawling grounds and leads to high turnover rates, partially and temporarily mitigating the impacts of bottom trawling. However, this deposition is ephemeral and it will be swiftly eroded by the passage of the next trawler.
Zhichao Zhou, Bo Liang, Li-Ying Wang, Jin-Feng Liu, Bo-Zhong Mu, Hojae Shim, and Ji-Dong Gu
Biogeosciences, 16, 4229–4241, https://doi.org/10.5194/bg-16-4229-2019, https://doi.org/10.5194/bg-16-4229-2019, 2019
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This study shows a core bacterial microbiome with a small proportion of shared operational taxonomic units of common sequences among all oil reservoirs. Dominant methanogenesis shifts from the hydrogenotrophic pathway in water phase to the acetoclastic pathway in the oil phase at high temperatures, but the opposite is true at low temperatures. There are also major functional metabolism differences between the two phases for amino acids, hydrocarbons, and carbohydrates.
Annika Fiskal, Longhui Deng, Anja Michel, Philip Eickenbusch, Xingguo Han, Lorenzo Lagostina, Rong Zhu, Michael Sander, Martin H. Schroth, Stefano M. Bernasconi, Nathalie Dubois, and Mark A. Lever
Biogeosciences, 16, 3725–3746, https://doi.org/10.5194/bg-16-3725-2019, https://doi.org/10.5194/bg-16-3725-2019, 2019
Hanni Vigderovich, Lewen Liang, Barak Herut, Fengping Wang, Eyal Wurgaft, Maxim Rubin-Blum, and Orit Sivan
Biogeosciences, 16, 3165–3181, https://doi.org/10.5194/bg-16-3165-2019, https://doi.org/10.5194/bg-16-3165-2019, 2019
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Microbial iron reduction participates in important biogeochemical cycles. In the last decade iron reduction has been observed in many aquatic sediments below its classical zone, in the methane production zone, suggesting a link between the two cycles. Here we present evidence for microbial iron reduction in the methanogenic depth of the oligotrophic SE Mediterranean continental shelf using mainly geochemical and microbial sedimentary profiles and suggest possible mechanisms for this process.
Haoyi Yao, Wei-Li Hong, Giuliana Panieri, Simone Sauer, Marta E. Torres, Moritz F. Lehmann, Friederike Gründger, and Helge Niemann
Biogeosciences, 16, 2221–2232, https://doi.org/10.5194/bg-16-2221-2019, https://doi.org/10.5194/bg-16-2221-2019, 2019
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How methane is transported in the sediment is important for the microbial community living on methane. Here we report an observation of a mini-fracture that facilitates the advective gas transport of methane in the sediment, compared to the diffusive fluid transport without a fracture. We found contrasting bio-geochemical signals in these different transport modes. This finding can help to fill the gap in the fracture network system in modulating methane dynamics in surface sediments.
Laura A. Casella, Sixin He, Erika Griesshaber, Lourdes Fernández-Díaz, Martina Greiner, Elizabeth M. Harper, Daniel J. Jackson, Andreas Ziegler, Vasileios Mavromatis, Martin Dietzel, Anton Eisenhauer, Sabino Veintemillas-Verdaguer, Uwe Brand, and Wolfgang W. Schmahl
Biogeosciences, 15, 7451–7484, https://doi.org/10.5194/bg-15-7451-2018, https://doi.org/10.5194/bg-15-7451-2018, 2018
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Biogenic carbonates record past environmental conditions. Fossil shell chemistry and microstructure change as metastable biogenic carbonates are replaced by inorganic calcite. Simulated diagenetic alteration at 175 °C of different shell microstructures showed that (nacreous) shell aragonite and calcite were partially replaced by coarse inorganic calcite crystals due to dissolution–reprecipitation reactions. EBSD maps allowed for qualitative assessment of the degree of diagenetic overprint.
Wytze K. Lenstra, Matthias Egger, Niels A. G. M. van Helmond, Emma Kritzberg, Daniel J. Conley, and Caroline P. Slomp
Biogeosciences, 15, 6979–6996, https://doi.org/10.5194/bg-15-6979-2018, https://doi.org/10.5194/bg-15-6979-2018, 2018
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We show that burial rates of phosphorus (P) in an estuary in the northern Baltic Sea are very high. We demonstrate that at high sedimentation rates, P retention in the sediment is related to the formation of vivianite. With a reactive transport model, we assess the sensitivity of sedimentary vivianite formation. We suggest that enrichments of iron and P in the sediment are linked to periods of enhanced riverine input of Fe, which subsequently strongly enhances P burial in coastal sediments.
Jiarui Liu, Gareth Izon, Jiasheng Wang, Gilad Antler, Zhou Wang, Jie Zhao, and Matthias Egger
Biogeosciences, 15, 6329–6348, https://doi.org/10.5194/bg-15-6329-2018, https://doi.org/10.5194/bg-15-6329-2018, 2018
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Our work provides new insights into the biogeochemical cycling of iron, methane and phosphorus. We found that vivianite, an iron-phosphate mineral, is pervasive in methane-rich sediments, suggesting that iron reduction at depth is coupled to phosphorus and methane cycling on a much greater spatial scale than previously assumed. Acting as an important burial mechanism for iron and phosphorus, vivianite authigenesis may be an under-considered process in both modern and ancient settings alike.
Marc A. Besseling, Ellen C. Hopmans, R. Christine Boschman, Jaap S. Sinninghe Damsté, and Laura Villanueva
Biogeosciences, 15, 4047–4064, https://doi.org/10.5194/bg-15-4047-2018, https://doi.org/10.5194/bg-15-4047-2018, 2018
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Benthic archaea comprise a significant part of the total prokaryotic biomass in marine sediments. Here, we compared the archaeal diversity and intact polar lipid (IPL) composition in both surface and subsurface sediments with different oxygen regimes in the Arabian Sea oxygen minimum zone. The oxygenated sediments were dominated by Thaumarchaeota and IPL-GDGT-0. The anoxic sediment contained highly diverse archaeal communities and high relative abundances of IPL-GDGT-1 to -4.
Georgina Robinson, Thomas MacTavish, Candida Savage, Gary S. Caldwell, Clifford L. W. Jones, Trevor Probyn, Bradley D. Eyre, and Selina M. Stead
Biogeosciences, 15, 1863–1878, https://doi.org/10.5194/bg-15-1863-2018, https://doi.org/10.5194/bg-15-1863-2018, 2018
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This study examined the effect of adding carbon to a sediment-based effluent treatment system to treat nitrogen-rich aquaculture waste. The research was conducted in incubation chambers to measure the exchange of gases and nutrients across the sediment–water interface and examine changes in the sediment microbial community. Adding carbon increased the amount of nitrogen retained in the treatment system, thereby reducing the levels of nitrogen needing to be discharged to the environment.
Daniele Brigolin, Christophe Rabouille, Bruno Bombled, Silvia Colla, Salvatrice Vizzini, Roberto Pastres, and Fabio Pranovi
Biogeosciences, 15, 1347–1366, https://doi.org/10.5194/bg-15-1347-2018, https://doi.org/10.5194/bg-15-1347-2018, 2018
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We present the result of a study carried out in the north-western Adriatic Sea by combining two different types of models with field sampling. A mussel farm was taken as a local source of perturbation to the natural flux of particulate organic carbon to the sediment. Differences in fluxes were primarily associated with mussel physiological conditions. Although restricted, these changes in particulate organic carbon fluxes induced visible effects on sediment biogeochemistry.
Volker Brüchert, Lisa Bröder, Joanna E. Sawicka, Tommaso Tesi, Samantha P. Joye, Xiaole Sun, Igor P. Semiletov, and Vladimir A. Samarkin
Biogeosciences, 15, 471–490, https://doi.org/10.5194/bg-15-471-2018, https://doi.org/10.5194/bg-15-471-2018, 2018
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We determined the aerobic and anaerobic degradation rates of land- and marine-derived organic material in East Siberian shelf sediment. Marine plankton-derived organic carbon was the main source for the oxic dissolved carbon dioxide production, whereas terrestrial organic material significantly contributed to the production of carbon dioxide under anoxic conditions. Our direct degradation rate measurements provide new constraints for the present-day Arctic marine carbon budget.
Jack J. Middelburg
Biogeosciences, 15, 413–427, https://doi.org/10.5194/bg-15-413-2018, https://doi.org/10.5194/bg-15-413-2018, 2018
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Organic carbon processing at the seafloor is studied by geologists to better understand the sedimentary record, by biogeochemists to quantify burial and respiration, by organic geochemists to elucidate compositional changes, and by ecologists to follow carbon transfers within food webs. These disciplinary approaches have their strengths and weaknesses. This award talk provides a synthesis, highlights the role of animals in sediment carbon processing and presents some new concepts.
Craig Smeaton, William E. N. Austin, Althea L. Davies, Agnes Baltzer, John A. Howe, and John M. Baxter
Biogeosciences, 14, 5663–5674, https://doi.org/10.5194/bg-14-5663-2017, https://doi.org/10.5194/bg-14-5663-2017, 2017
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Fjord sediments are recognised as hotspots for the burial and long-term storage of carbon. In this study, we use the Scottish fjords as a natural laboratory. Using geophysical and geochemical analysis in combination with upscaling techniques, we have generated the first full national sedimentary C inventory for a fjordic system. The results indicate that the Scottish fjords on a like-for-like basis are more effective as C stores than their terrestrial counterparts, including Scottish peatlands.
Perran Louis Miall Cook, Adam John Kessler, and Bradley David Eyre
Biogeosciences, 14, 4061–4069, https://doi.org/10.5194/bg-14-4061-2017, https://doi.org/10.5194/bg-14-4061-2017, 2017
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Nitrogen is the key nutrient that typically limits productivity in coastal waters. One of the key controls on the amount of bioavailable nitrogen is the process of denitrification, which converts nitrate (bioavailable) into nitrogen gas. Previous studies suggest high rates of denitrification may take place within carbonate sediments, and one explanation for this is that this process may take place within the sand grains. Here we show evidence to support this hypothesis.
Chris T. Parsons, Fereidoun Rezanezhad, David W. O'Connell, and Philippe Van Cappellen
Biogeosciences, 14, 3585–3602, https://doi.org/10.5194/bg-14-3585-2017, https://doi.org/10.5194/bg-14-3585-2017, 2017
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Phosphorus (P) has accumulated in sediments due to past human activities. The re-release of this P to water contributes to the growth of harmful algal blooms. Our research improves our mechanistic understanding of how P is partitioned between different chemical forms and between sediment and water under dynamic conditions. We demonstrate that P trapped within iron minerals may be less mobile during anoxic conditions than previously thought due to reversible changes to P forms within sediment.
Cited articles
An, S., Gardner, W., and Kana, T.: Simultaneous measurement of denitrification and nitrogen fixation using isotope pairing with membrane inlet mass spectrometry analysis, Appl. Environ. Microbiol., 67, 1171–1178, 2001.
Bange, H. W.: New directions: the importance of oceanic nitrous oxide emissions, Atmos. Environ., 40, 198–199, 2006.
Bange, H. W., Rapsomanikis, S., and Andreae, M. O.: Nitrous oxide in coastal waters, Global Biogeochem. Cy., 10, 197–207, 1996.
Bergsma, T. T., Ostrom, N. E., Emmons, M., and Robertson, G. P.: Measuring simultaneous fluxes from soil of N2O and N2 in the field using the 15N-gas "nonequilibrium" technique, Environ. Sci. Technol., 35, 4307–4312, 2001.
Brandes, J. A., Boctor, N. Z., Cody, G. D., Cooper, B. A., Hazen, R. M., and Yoder, H. S.: Abiotic nitrogen reduction on the early Earth, Nature, 395, 365–367, 1998.
Brandes, J. A., Devol, A. H., and Deutsch, C.: New developments in the marine nitrogen cycle, Chem. Rev., 107, 577–589, 2007.
Crowe, S. A., Canfield, D. E., Mucci, A., Sundby, B., and Maranger, R.: Anammox, denitrification and fixed-nitrogen removal in sediments from the Lower St. Lawrence Estuary, Biogeosciences, 9, 4309–4321, https://doi.org/10.5194/bg-9-4309-2012, 2012.
Dalsgaard, T., Nielsen, L. P., Brotas, V., Viaroli, P., Underwood, G. J. C., Nedwell, D. B., Sundback, K., Rysgaard, S., Miles, A., and Bartoli, M.: Protocol handbook for NICE-Nitrogen Cycling in Estuaries, National Environmental Research Institute, Copenhagen, Denmark, 2000.
Davidson, E. A.: Sources of nitric oxide and nitrous oxide following wetting of dry soil, Soil Sci. Soc. Am. J., 56, 95–102, 1992.
De Beer, D.: Potentiometric microsensors for in situ measurements in aquatic environments, in: In situ monitoring of aquatic systems: chemical analysis and speciation, edited by: Buffle, J. and Horvai, G., Wiley, 161–194, 2000.
Devol, A. H.: Denitrification including anammox, in: Nitrogen in the Marine Environment, 2nd ed., edited by: Capone, D., Bronk, D., Mulholland, M., and Carpenter, E., Elsevier, Amsterdam, 263–301, 2008.
Dong, L. F., Thornton, D. C. O., Nedwell, D. B., and Underwood, G. J. C.: Denitrification in sediments of the River Colne estuary, England, Mar. Ecol.-Prog. Ser., 203, 109–122, 2000.
Dong, L. F., Nedwell, D. B., and Stott, A.: Sources of nitrogen used for denitrification and nitrous oxide formation in sediments of the hypernutrified Colne, the nutrified Humber, and the oligotrophic Conwy estuaries, United Kingdom, Limnol. Oceanogr., 51, 545–557, 2006.
Dong, L. F., Smith, C. J., Papaspyrou, S., Stott, A., Osborn, A. M., and Nedwell, D. B.: Changes in benthic denitrification, nitrate ammonification, and anammox process rates and nitrate and nitrite reductase gene abundances along an estuarine nutrient gradient (the Colne Estuary, United Kingdom), Appl. Environ. Microb., 75, 3171–3179, 2009.
Dong, L. F., Naqasima-Sobey, M., Smith, C. J., Rusmana, I., Phillips, W., Stott, A., Osborn, A. M., and Nedwell, D. B.: Dissimilatory reduction of nitrate to ammonium, not denitrification or anammox, dominates benthic nitrate reduction in tropical estuaries, Limnol. Oceanogr., 56, 279–291, 2011.
Dunn, R. J. K., Welsh, D. T., Jordan, M. A., Waltham, N. J., Lemckert, C. J., and Teasdale, P. R.: Benthic metabolism and nitrogen dynamics in a sub-tropical coastal lagoon: Microphytobenthos stimulate nitrification and nitrate reduction through photosynthetic oxygen evolution, Estuar. Coast. Shelf Sci., 113, 272–282, 2012.
Erler, D., Eyre, B., and Davison, L.: The contribution of anammox and denitrification to sediment N2 production in a surface flow constructed wetland, Environ. Sci. Technol., 42, 9144–9150, 2008.
García-Ruiz, R., Pattinson, S. N., and Whitton, B. A.: Denitrification and nitrous oxide production in sediments of the Wiske, a lowland eutrophic river, Sci. Total Environ., 210, 307–320, 1998a.
García-Ruiz, R., Pattinson, S. N., and Whitton, B. A.: Kinetic parameters of denitrification in a river continuum, Appl. Environ. Microbiol., 64, 2533–2538, 1998b.
Groffman, P. M., Altabet, M. A., Böhlke, J. K., Butterbach-Bahl, K., David, M. B., Firestone, M. K., Giblin, A. E., Kana, T. M., Nielsen, L. P., and Voytek, M. A.: Methods for measuring denitrification: diverse approaches to a difficult problem, Ecol. Appl., 16, 2091–2122, 2006.
Jäntti, H. and Hietanen, S.: The effects of hypoxia on sediment nitrogen cycling in the Baltic Sea, AMBIO, 41, 161-169, 2012.
Jensen, K. M., Jensen, M. H., and Kristensen, E.: Nitrification and denitrification in Wadden Sea sediments (Konigshafen, Island of Sylt, Germany) as measured by nitrogen isotope pairing and isotope dilution, Aquat. Microb. Ecol., 11, 181–191, 1996.
Joye, S. B., and Anderson, I. C.: Nitrogen cycling in coastal sediments, in: Nitrogen in the Marine Environment, 2nd ed., edited by: Capone, D. G., Bronk, D. A., Mulholland, M. R., and Carpenter, E. J., Academic Press, Amsterdam, 868–915, 2008.
Liss, P. S. and Slater, P. G.: Flux of gases across the air-sea interface, Nature, 247, 181–184, 1974.
Lohse, L., Kloosterhuis, H. T., Van Raaphorst, W., and Helder, W.: Denitrification rates as measured by the isotope pairing method and by the acetylene inhibition technique in continental shelf sediments of the North Sea, Mar. Ecol-Prog. Ser., 132, 169–179, 1996.
Luther, G. W., Sundby, B., Lewis, B. L., Brendel, P. J., and Silverberg, N.: Interactions of manganese with the nitrogen cycle: alternative pathways to dinitrogen, Geochim. Cosmochim. Ac., 61, 4043–4052, 1997.
Master, Y., Shavit, U., and Shaviv, A.: Modified isotope pairing technique to study N transformations in polluted aquatic systems: Theory, Environ. Sci. Technol, 39, 1749–1756, 2005.
Mcllvin, M. R., and Casciotti, K. L.: Fully automated system for stable isotopic analyses of dissolved nitrous oxide at natural abundance levels, Limnol. Oceanogr. Methods, 8, 54–66, 2010.
Meyer, R. L., Risgaard-Petersen, N., and Allen, D. E.: Correlation between anammox activity and microscale distribution of nitrite in a subtropical mangrove sediment, Appl. Environ. Microb., 71, 6142–6149, 2005.
Middelburg, J. J., Soetaert, K., and Herman, P. M. J.: Evaluation of the Nitrogen Isotope-Pairing Method for Measuring Benthic Denitrification: A Simulation Analysis, Limnol. Oceanogr., 41, 1839–1844, 1996a.
Middelburg, J. J., Soetaert, K., and Herman, P. M. J.: Reply to the Comment by Nielsen et al, Limnol. Oceanogr., 41, 1846–1847, 1996b.
Minjeaud, L., Bonin, P. C., and Michotey, V. D.: Nitrogen fluxes from marine sediments: quantification of the associated co-occurring bacterial processes, Biogeochemistry, 90, 141–157, 2008.
Mulder, A., Graaf, A. A., Robertson, L. A., and Kuenen, J. G.: Anaerobic ammonium oxidation discovered in a denitrifying fluidized bed reactor, FEMS Microbiol. Ecol., 16, 177–184, 1995.
Naqvi, S. W. A., Bange, H. W., Farías, L., Monteiro, P. M. S., Scranton, M. I., and Zhang, J.: Marine hypoxia/anoxia as a source of CH4 and N2O, Biogeosciences, 7, 2159–2190, https://doi.org/10.5194/bg-7-2159-2010, 2010.
Nielsen, L. P.: Denitrification in sediment determined from nitrogen isotope pairing, FEMS Microbiol. Lett., 86, 357–362, 1992.
Nielsen, L. P., Risgaard-Petersen, N., Rysgaard, S., and Blackburn, T. H.: Reply to the Note by Middelburg et al., Limnol. Oceanogr., 41, 1845–1846, 1996.
Pind, A., Risgaard-Petersen, N., and Revsbech, N. P.: Denitrification and microphytobenthic NO3- consumption in a Danish lowland stream: Diurnal and seasonal variation, Aquat. Microb. Ecol., 12, 275–284, 1997.
Poth, M., and Focht, D. D.: 15N kinetic analysis of N2O production by Nitrosomonas europaea: an examination of nitrifier denitrification, Appl. Environ. Microb., 49, 1134–1141, 1985.
Risgaard-Petersen, N., Rysgaard, S., Nielsen, L. P., and Revsbech, N. P.: Diurnal variation of denitrification and nitrification in sediments colonised by benthic microphytes, Limnol. Oceanogr., 39, 573–579, 1994.
Risgaard-Petersen, N., Nielsen, L. P., Rysgaard, S., Dalsgaard, T., and Meyer, R. L.: Application of the isotope pairing technique in sediments where anammox and denitrification coexist, Limnol. Oceanogr.-Methods, 1, 63–73, 2003.
Risgaard-Petersen, N., Meyer, R. L., Schmid, M., Jetten, M. S. M., Enrich-Prast, A., Rysgaard, S., and Revsbech, N. P.: Anaerobic ammonium oxidation in an estuarine sediment, Aquat. Microb. Ecol., 36, 293–304, 2004.
Rysgaard, S., Risgaard-Petersen, N., Sloth, N. P., Jensen, K., and Nielsen, L. P.: Oxygen regulation of nitrification and denitrification in sediments, Limnol. Oceanogr., 39, 1643–1652, 1994.
Seitzinger, S. P. and Kroeze, C.: Global distribution of nitrous oxide production and N inputs in freshwater and coastal marine ecosystems, Global Biogeochem. Cy., 12, 93–113, 1998.
Simon, J.: Enzymology and bioenergetics of respiratory nitrite ammonification, FEMS Microbiol. Rev., 26, 285–309, https://doi.org/10.1111/j.1574-6976.2002.tb00616.x, 2002.
Smith, M. S.: Dissimilatory Reduction of NO2- to NH4+ and N2O by a Soil Citrobacter sp., Appl. Environ. Microb., 43, 854–860, 1982.
Smith, M. S. and Zimmerman, K.: Nitrous oxide production by nondenitrifying soil nitrate reducers, Soil Sci. Soc. Am. J., 45, 865–871, 1981.
Spott, O. and Stange, C. F.: Formation of hybrid N2O in a suspended soil due to co- denitrification of NH2OH, J. Plant Nutr. Soil Sci., 174, 554–567, 2011.
Spott, O., Russow, R., Apelt, B., and Stange, C. F.: A 15N-aided artificial atmosphere gas flow technique for online determination of soil N2 release using the zeolite Köstrolith SX6\textsuperscript\textregistered, Rapid Commun. Mass Sp., 20, 3267–3274, 2006.
Stevens, R. J., Laughlin, R. J., Atkins, G. J., and Prosser, S. J.: Automated determination of nitrogen-15-labeled dinitrogen and nitrous oxide by mass spectrometry, Soil Sci. Soc. Am. J., 57, 981–988, 1993.
Stief, P., Beer, D., and Neumann, D.: Small-scale distribution of interstitial nitrite in freshwater sediment microcosms: the role of nitrate and oxygen availability, and sediment permeability, Microb. Ecol., 43, 367–377, 2002.
Strous, M., Heijnen, J. J., Kuenen, J. G., and Jetten, M. S. M.: The sequencing batch reactor as a powerful tool for the study of slowly growing anaerobic ammonium-oxidizing microorganisms, Appl. Microbiol. Biot., 50, 589–596, 1998.
Sundbäck, K., Miles, A., and Göransson, E.: Nitrogen fluxes, denitrification and the role of microphytobenthos in microtidal shallow-water sediments: an annual study, Mar. Ecol.-Prog. Ser., 200, 59–76, 2000.
Tanimoto, T., Hatano, K., Kim, D., Uchiyama, H., and Shoun, H.: Co-denitrification by the denitrifying system of the fungus Fusarium oxysporum, FEMS Microbiol. Lett., 93, 177–180, 1992.
Thamdrup, B. and Dalsgaard, T.: Production of N2 through anaerobic ammonium oxidation coupled to nitrate reduction in marine sediments, Appl. Environ. Microb., 68, 1312–1318, 2002.
Trimmer, M. and Nicholls, J. C.: Production of nitrogen gas via anammox and denitrification in intact sediment cores along a continental shelf to slope transect in the North Atlantic, Limnol. Oceanogr., 54, 577–589, 2009.
Trimmer, M., Risgaard-Petersen, N., Nicholls, J. C., and Engström, P.: Direct measurement of anaerobic ammonium oxidation (anammox) and denitrification in intact sediment cores, Mar. Ecol.-Prog. Ser., 326, 37–47, 2006.
van de Graaf, A. A., de Bruijn, P., Robertson, L. A., Jetten, M. S. M., and Kuenen, J. G.: Metabolic pathway of anaerobic ammonium oxidation on the basis of 15N studies in a fluidized bed reactor, Microbiol., 143, 2415–2421, 1997.
Welsh, D., Castadelli, G., Bartoli, M., Poli, D., Careri, M., de Wit, R., and Viaroli, P.: Denitrification in an intertidal seagrass meadow, a comparison of 15N-isotope and acetylene-block techniques: dissimilatory nitrate reduction to ammonia as a source of N2O?, Mar. Biol., 139, 1029–1036, 2001.
Wrage, N., Velthof, G. L., Van Beusichem, M. L., and Oenema, O.: Role of nitrifier denitrification in the production of nitrous oxide, Soil Biol. Biochem., 33, 1723–1732, 2001.
Wrage, N., Groenigen, J. W. v., Oenema, O., and Baggs, E. M.: A novel dual-isotope labelling method for distinguishing between soil sources of N2O, Rapid Commun. Mass Sp., 19, 3298–3306, https://doi.org/10.1002/rcm.2191, 2005.
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