Articles | Volume 19, issue 15
https://doi.org/10.5194/bg-19-3663-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
https://doi.org/10.5194/bg-19-3663-2022
© Author(s) 2022. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Research article
| 
05 Aug 2022
Research article |
| 05 Aug 2022
| 05 Aug 2022
Assessing the spatial and temporal variability of methylmercury biogeochemistry and bioaccumulation in the Mediterranean Sea with a coupled 3D model
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Donata Canu
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Paolo Lazzari
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Cosimo Solidoro
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
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Eva Álvarez, Gianpiero Cossarini, Anna Teruzzi, Jorn Bruggeman, Karsten Bolding, Stefano Ciavatta, Vincenzo Vellucci, Fabrizio D'Ortenzio, David Antoine, and Paolo Lazzari
Biogeosciences, 20, 4591–4624, https://doi.org/10.5194/bg-20-4591-2023, https://doi.org/10.5194/bg-20-4591-2023, 2023
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Chromophoric dissolved organic matter (CDOM) interacts with the ambient light and gives the waters of the Mediterranean Sea their colour. We propose a novel parameterization of the CDOM cycle, whose parameter values have been optimized by using the data of the monitoring site BOUSSOLE. Nutrient and light limitations for locally produced CDOM caused aCDOM(λ) to covary with chlorophyll, while the above-average CDOM concentrations observed at this site were maintained by allochthonous sources.
Simone Spada, Anna Teruzzi, Stefano Maset, Stefano Salon, Cosimo Solidoro, and Gianpiero Cossarini
Geosci. Model Dev. Discuss., https://doi.org/10.5194/gmd-2023-170, https://doi.org/10.5194/gmd-2023-170, 2023
Preprint under review for GMD
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In geosciences, data assimilation (DA) combines modeled dynamics and observations to reduce simulation uncertainties. Uncertainties can be dynamically and effectively estimated in ensemble DA methods. With respect to current techniques, the novel GHOSH ensemble DA scheme is designed to improve accuracy by reaching a higher approximation order, without increasing computational costs, as demonstrated in idealized Lorenz96 tests and in realistic simulations of the Mediterranean Sea biogeochemistry
Giovanni Coppini, Emanuela Clementi, Gianpiero Cossarini, Stefano Salon, Gerasimos Korres, Michalis Ravdas, Rita Lecci, Jenny Pistoia, Anna Chiara Goglio, Massimiliano Drudi, Alessandro Grandi, Ali Aydogdu, Romain Escudier, Andrea Cipollone, Vladyslav Lyubartsev, Antonio Mariani, Sergio Cretì, Francesco Palermo, Matteo Scuro, Simona Masina, Nadia Pinardi, Antonio Navarra, Damiano Delrosso, Anna Teruzzi, Valeria Di Biagio, Giorgio Bolzon, Laura Feudale, Gianluca Coidessa, Carolina Amadio, Alberto Brosich, Arnau Miró, Eva Alvarez, Paolo Lazzari, Cosimo Solidoro, Charikleia Oikonomou, and Anna Zacharioudaki
Ocean Sci., 19, 1483–1516, https://doi.org/10.5194/os-19-1483-2023, https://doi.org/10.5194/os-19-1483-2023, 2023
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The paper presents the Mediterranean Forecasting System evolution and performance developed in the framework of the Copernicus Marine Service.
Alexandre Mignot, Hervé Claustre, Gianpiero Cossarini, Fabrizio D'Ortenzio, Elodie Gutknecht, Julien Lamouroux, Paolo Lazzari, Coralie Perruche, Stefano Salon, Raphaëlle Sauzède, Vincent Taillandier, and Anna Teruzzi
Biogeosciences, 20, 1405–1422, https://doi.org/10.5194/bg-20-1405-2023, https://doi.org/10.5194/bg-20-1405-2023, 2023
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Numerical models of ocean biogeochemistry are becoming a major tool to detect and predict the impact of climate change on marine resources and monitor ocean health. Here, we demonstrate the use of the global array of BGC-Argo floats for the assessment of biogeochemical models. We first detail the handling of the BGC-Argo data set for model assessment purposes. We then present 23 assessment metrics to quantify the consistency of BGC model simulations with respect to BGC-Argo data.
Marco Reale, Gianpiero Cossarini, Paolo Lazzari, Tomas Lovato, Giorgio Bolzon, Simona Masina, Cosimo Solidoro, and Stefano Salon
Biogeosciences, 19, 4035–4065, https://doi.org/10.5194/bg-19-4035-2022, https://doi.org/10.5194/bg-19-4035-2022, 2022
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Future projections under the RCP8.5 and RCP4.5 emission scenarios of the Mediterranean Sea biogeochemistry at the end of the 21st century show different levels of decline in nutrients, oxygen and biomasses and an acidification of the water column. The signal intensity is stronger under RCP8.5 and in the eastern Mediterranean. Under RCP4.5, after the second half of the 21st century, biogeochemical variables show a recovery of the values observed at the beginning of the investigated period.
Paolo Lazzari, Stefano Salon, Elena Terzić, Watson W. Gregg, Fabrizio D'Ortenzio, Vincenzo Vellucci, Emanuele Organelli, and David Antoine
Ocean Sci., 17, 675–697, https://doi.org/10.5194/os-17-675-2021, https://doi.org/10.5194/os-17-675-2021, 2021
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Multispectral optical sensors and models are increasingly adopted to study marine systems. In this work, bio-optical mooring and biogeochemical Argo float optical observations are combined with the Ocean-Atmosphere Spectral Irradiance Model (OASIM) to analyse the variability of sunlight at the sea surface. We show that the model skill in simulating data varies according to the wavelength of light and temporal scale considered and that it is significantly affected by cloud dynamics.
Elena Terzić, Arnau Miró, Paolo Lazzari, Emanuele Organelli, and Fabrizio D'Ortenzio
Biogeosciences Discuss., https://doi.org/10.5194/bg-2020-473, https://doi.org/10.5194/bg-2020-473, 2021
Preprint withdrawn
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This study integrates numerical simulations (using a multi-spectral optical model) with in-situ measurements of floats and remotely sensed observations from satellites. It aims at improving our current understanding of the impact that different constituents (such as pure water, colored dissolved organic matter, detritus and phytoplankton) have on the in-water light propagation.
Valeria Di Biagio, Gianpiero Cossarini, Stefano Salon, and Cosimo Solidoro
Biogeosciences, 17, 5967–5988, https://doi.org/10.5194/bg-17-5967-2020, https://doi.org/10.5194/bg-17-5967-2020, 2020
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Events that influence the functioning of the Earth’s ecosystems are of interest in relation to a changing climate. We propose a method to identify and characterise
wavesof extreme events affecting marine ecosystems for multi-week periods over wide areas. Our method can be applied to suitable ecosystem variables and has been used to describe different kinds of extreme event waves of phytoplankton chlorophyll in the Mediterranean Sea, by analysing the output from a high-resolution model.
Stefano Salon, Gianpiero Cossarini, Giorgio Bolzon, Laura Feudale, Paolo Lazzari, Anna Teruzzi, Cosimo Solidoro, and Alessandro Crise
Ocean Sci., 15, 997–1022, https://doi.org/10.5194/os-15-997-2019, https://doi.org/10.5194/os-15-997-2019, 2019
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After 10 years of research and development, validated analysis and forecasts of the main parameters of the Mediterranean Sea biogeochemistry (e.g. phytoplankton, nutrients, oxygen, pH, carbon fluxes) at high spatial and temporal resolution are provided in the frame of the EU Copernicus Marine Environment Monitoring Service. Along with a traditional skill performance assessment, novel metrics exploiting the Biogeochemical Argo floats data are designed to estimate the forecasts uncertainty.
Elena Terzić, Paolo Lazzari, Emanuele Organelli, Cosimo Solidoro, Stefano Salon, Fabrizio D'Ortenzio, and Pascal Conan
Biogeosciences, 16, 2527–2542, https://doi.org/10.5194/bg-16-2527-2019, https://doi.org/10.5194/bg-16-2527-2019, 2019
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Measuring ecosystem properties in the ocean is a hard business. Recent availability of data from Biogeochemical-Argo floats can help make this task easier. Numerical models can integrate these new data in a coherent picture and can be used to investigate the functioning of ecosystem processes. Our new approach merges experimental information and model capabilities to quantitatively demonstrate the importance of light and water vertical mixing for algae dynamics in the Mediterranean Sea.
Gianpiero Cossarini, Stefano Querin, Cosimo Solidoro, Gianmaria Sannino, Paolo Lazzari, Valeria Di Biagio, and Giorgio Bolzon
Geosci. Model Dev., 10, 1423–1445, https://doi.org/10.5194/gmd-10-1423-2017, https://doi.org/10.5194/gmd-10-1423-2017, 2017
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The BFMCOUPLER (v1.0) is a coupling scheme that links the MITgcm and BFM models for ocean biogeochemistry simulations. The online coupling is based on an open-source code characterizd by a modular structure. Modularity preserves the potentials of the two models, allowing for a sustainable programming effort to handle future evolutions in the two codes. The BFMCOUPLER code is released along with an idealized problem (a cyclonic gyre in a mid-latitude closed basin).
E. Akoglu, S. Libralato, B. Salihoglu, T. Oguz, and C. Solidoro
Geosci. Model Dev., 8, 2687–2699, https://doi.org/10.5194/gmd-8-2687-2015, https://doi.org/10.5194/gmd-8-2687-2015, 2015
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Ecosystem-based marine management requires coupling/integrating multiple models in one unified scheme. The widely adopted Ecopath with Ecosim (EwE) is potentially a crucial high trophic level component of such schemes. However, being written in Visual Basic, integration of EwE with physical and/or biogeochemical oceanographic models, which were mostly written in Fortran, is complicated. We release a re-coding of EwE in Fortran (EwE-F) so as to facilitate its coupling/integration in such schemes.
G. Cossarini, P. Lazzari, and C. Solidoro
Biogeosciences, 12, 1647–1658, https://doi.org/10.5194/bg-12-1647-2015, https://doi.org/10.5194/bg-12-1647-2015, 2015
Related subject area
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Including filter-feeding gelatinous macrozooplankton in a global marine biogeochemical model: model–data comparison and impact on the ocean carbon cycle
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Subsurface oxygen maximum in oligotrophic marine ecosystems: mapping the interaction between physical and biogeochemical processes
Quantifying biological carbon pump pathways with a data-constrained mechanistic model ensemble approach
Hydrodynamic and biochemical impacts on the development of hypoxia in the Louisiana–Texas shelf – Part 2: statistical modeling and hypoxia prediction
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Improved prediction of dimethyl sulfide (DMS) distributions in the northeast subarctic Pacific using machine-learning algorithms
Nutrient transport and transformation in macrotidal estuaries of the French Atlantic coast: a modeling approach using the Carbon-Generic Estuarine Model
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Global trends in marine nitrate N isotopes from observations and a neural network-based climatology
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Model constraints on the anthropogenic carbon budget of the Arctic Ocean
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Biogeochemical response of the Mediterranean Sea to the transient SRES-A2 climate change scenario
Modelling the biogeochemical effects of heterotrophic and autotrophic N2 fixation in the Gulf of Aqaba (Israel), Red Sea
A perturbed biogeochemistry model ensemble evaluated against in situ and satellite observations
Diazotrophy as the main driver of the oligotrophy gradient in the western tropical South Pacific Ocean: results from a one-dimensional biogeochemical–physical coupled model
Causes of simulated long-term changes in phytoplankton biomass in the Baltic proper: a wavelet analysis
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Long-term response of oceanic carbon uptake to global warming via physical and biological pumps
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Ieuan Higgs, Jozef Skákala, Ross Bannister, Alberto Carrassi, and Stefano Ciavatta
Biogeosciences, 21, 731–746, https://doi.org/10.5194/bg-21-731-2024, https://doi.org/10.5194/bg-21-731-2024, 2024
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A complex network is a way of representing which parts of a system are connected to other parts. We have constructed a complex network based on an ecosystem–ocean model. From this, we can identify patterns in the structure and areas of similar behaviour. This can help to understand how natural, or human-made, changes will affect the shelf sea ecosystem, and it can be used in multiple future applications such as improving modelling, data assimilation, or machine learning.
Joelle Habib, Caroline Ulses, Claude Estournel, Milad Fakhri, Patrick Marsaleix, Mireille Pujo-Pay, Marine Fourrier, Laurent Coppola, Alexandre Mignot, Laurent Mortier, and Pascal Conan
Biogeosciences, 20, 3203–3228, https://doi.org/10.5194/bg-20-3203-2023, https://doi.org/10.5194/bg-20-3203-2023, 2023
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The Rhodes Gyre, eastern Mediterranean Sea, is the main Levantine Intermediate Water formation site. In this study, we use a 3D physical–biogeochemical model to investigate the seasonal and interannual variability of organic carbon dynamics in the gyre. Our results show its autotrophic nature and its high interannual variability, with enhanced primary production, downward exports, and onward exports to the surrounding regions during years marked by intense heat losses and deep mixed layers.
Itzel Ruvalcaba Baroni, Elin Almroth-Rosell, Lars Axell, Sam T. Fredriksson, Jenny Hieronymus, Magnus Hieronymus, Sandra-Esther Brunnabend, Matthias Gröger, and Lars Arneborg
Biogeosciences Discuss., https://doi.org/10.5194/bg-2023-116, https://doi.org/10.5194/bg-2023-116, 2023
Revised manuscript accepted for BG
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The health of the Baltic Sea and the North Sea is threatened due to high anthropogenic pressure and different methods to assess its status are urgently needed. Here, we validated a novel model simulating the ocean dynamics and biogeochemistry of the Baltic Sea and the North Sea that can be used to create future climate and nutrient scenarios and can keep contributing to European initiatives on de-eutrophication, water quality advice and support on nutrient reduction loads for both seas.
Masihullah Hasanyar, Thomas Romary, Shuaitao Wang, and Nicolas Flipo
Biogeosciences, 20, 1621–1633, https://doi.org/10.5194/bg-20-1621-2023, https://doi.org/10.5194/bg-20-1621-2023, 2023
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The results of this study indicate that biodegradable dissolved organic matter is responsible for oxygen depletion at low flow during summer seasons when heterotrophic bacterial activity is so intense. Therefore, the dissolved organic matter must be well measured in the water monitoring networks in order to have more accurate water quality models. It also advocates for high-frequency data collection for better quantification of the uncertainties related to organic matter.
Xiangyu Liu and Qianlai Zhuang
Biogeosciences, 20, 1181–1193, https://doi.org/10.5194/bg-20-1181-2023, https://doi.org/10.5194/bg-20-1181-2023, 2023
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We are among the first to quantify methane emissions from inland water system in the pan-Arctic. The total CH4 emissions are 36.46 Tg CH4 yr−1 during 2000–2015, of which wetlands and lakes were 21.69 Tg yr−1 and 14.76 Tg yr−1, respectively. By using two non-overlap area change datasets with land and lake models, our simulation avoids small lakes being counted twice as both lake and wetland, and it narrows the gap between two different methods used to quantify regional CH4 emissions.
Corentin Clerc, Laurent Bopp, Fabio Benedetti, Meike Vogt, and Olivier Aumont
Biogeosciences, 20, 869–895, https://doi.org/10.5194/bg-20-869-2023, https://doi.org/10.5194/bg-20-869-2023, 2023
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Gelatinous zooplankton play a key role in the ocean carbon cycle. In particular, pelagic tunicates, which feed on a wide size range of prey, produce rapidly sinking detritus. Thus, they efficiently transfer carbon from the surface to the depths. Consequently, we added these organisms to a marine biogeochemical model (PISCES-v2) and evaluated their impact on the global carbon cycle. We found that they contribute significantly to carbon export and that this contribution increases with depth.
Shuang Gao, Jörg Schwinger, Jerry Tjiputra, Ingo Bethke, Jens Hartmann, Emilio Mayorga, and Christoph Heinze
Biogeosciences, 20, 93–119, https://doi.org/10.5194/bg-20-93-2023, https://doi.org/10.5194/bg-20-93-2023, 2023
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We assess the impact of riverine nutrients and carbon (C) on projected marine primary production (PP) and C uptake using a fully coupled Earth system model. Riverine inputs alleviate nutrient limitation and thus lessen the projected PP decline by up to 0.7 Pg C yr−1 globally. The effect of increased riverine C may be larger than the effect of nutrient inputs in the future on the projected ocean C uptake, while in the historical period increased nutrient inputs are considered the largest driver.
Valeria Di Biagio, Stefano Salon, Laura Feudale, and Gianpiero Cossarini
Biogeosciences, 19, 5553–5574, https://doi.org/10.5194/bg-19-5553-2022, https://doi.org/10.5194/bg-19-5553-2022, 2022
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The amount of dissolved oxygen in the ocean is the result of interacting physical and biological processes. Oxygen vertical profiles show a subsurface maximum in a large part of the ocean. We used a numerical model to map this subsurface maximum in the Mediterranean Sea and to link local differences in its properties to the driving processes. This emerging feature can help the marine ecosystem functioning to be better understood, also under the impacts of climate change.
Michael R. Stukel, Moira Décima, and Michael R. Landry
Biogeosciences, 19, 3595–3624, https://doi.org/10.5194/bg-19-3595-2022, https://doi.org/10.5194/bg-19-3595-2022, 2022
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The biological carbon pump (BCP) transports carbon into the deep ocean, leading to long-term marine carbon sequestration. It is driven by many physical, chemical, and ecological processes. We developed a model of the BCP constrained using data from 11 cruises in 4 different ocean regions. Our results show that sinking particles and vertical mixing are more important than transport mediated by vertically migrating zooplankton. They also highlight the uncertainty in current estimates of the BCP.
Yanda Ou, Bin Li, and Z. George Xue
Biogeosciences, 19, 3575–3593, https://doi.org/10.5194/bg-19-3575-2022, https://doi.org/10.5194/bg-19-3575-2022, 2022
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Over the past decades, the Louisiana–Texas shelf has been suffering recurring hypoxia (dissolved oxygen < 2 mg L−1). We developed a novel prediction model using state-of-the-art statistical techniques based on physical and biogeochemical data provided by a numerical model. The model can capture both the magnitude and onset of the annual hypoxia events. This study also demonstrates that it is possible to use a global model forecast to predict regional ocean water quality.
Eva Ehrnsten, Oleg Pavlovitch Savchuk, and Bo Gustav Gustafsson
Biogeosciences, 19, 3337–3367, https://doi.org/10.5194/bg-19-3337-2022, https://doi.org/10.5194/bg-19-3337-2022, 2022
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We studied the effects of benthic fauna, animals living on or in the seafloor, on the biogeochemical cycles of carbon, nitrogen and phosphorus using a model of the Baltic Sea ecosystem. By eating and excreting, the animals transform a large part of organic matter sinking to the seafloor into inorganic forms, which fuel plankton blooms. Simultaneously, when they move around (bioturbate), phosphorus is bound in the sediments. This reduces nitrogen-fixing plankton blooms and oxygen depletion.
Brandon J. McNabb and Philippe D. Tortell
Biogeosciences, 19, 1705–1721, https://doi.org/10.5194/bg-19-1705-2022, https://doi.org/10.5194/bg-19-1705-2022, 2022
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The trace gas dimethyl sulfide (DMS) plays an important role in the ocean sulfur cycle and can also influence Earth’s climate. Our study used two statistical methods to predict surface ocean concentrations and rates of sea–air exchange of DMS in the northeast subarctic Pacific. Our results show improved predictive power over previous approaches and suggest that nutrient availability, light-dependent processes, and physical mixing may be important controls on DMS in this region.
Xi Wei, Josette Garnier, Vincent Thieu, Paul Passy, Romain Le Gendre, Gilles Billen, Maia Akopian, and Goulven Gildas Laruelle
Biogeosciences, 19, 931–955, https://doi.org/10.5194/bg-19-931-2022, https://doi.org/10.5194/bg-19-931-2022, 2022
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Estuaries are key reactive ecosystems along the land–ocean aquatic continuum and are often strongly impacted by anthropogenic activities. We calculated nutrient in and out fluxes by using a 1-D transient model for seven estuaries along the French Atlantic coast. Among these, large estuaries with high residence times showed higher retention rates than medium and small ones. All reveal coastal eutrophication due to the excess of diffused nitrogen from intensive agricultural river basins.
Yanda Ou and Z. George Xue
Biogeosciences Discuss., https://doi.org/10.5194/bg-2022-3, https://doi.org/10.5194/bg-2022-3, 2022
Revised manuscript accepted for BG
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The Louisiana-Texas Shelf has been suffering recurring hypoxia (dissolved oxygen < 2 mg/L) over the past decades. In this study, we adapt and further developed a numerical ocean model to the Gulf of Mexico to simulate the physics and associated biogeochemical process to understand the mechanism of the hypoxia development. We performed a 15-year model simulation covering 2006–2020 and explore the controlling mechanism of hypoxia development in different parts of the shelf.
Krysten Rutherford, Katja Fennel, Dariia Atamanchuk, Douglas Wallace, and Helmuth Thomas
Biogeosciences, 18, 6271–6286, https://doi.org/10.5194/bg-18-6271-2021, https://doi.org/10.5194/bg-18-6271-2021, 2021
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Using a regional model of the northwestern North Atlantic shelves in combination with a surface water time series and repeat transect observations, we investigate surface CO2 variability on the Scotian Shelf. The study highlights a strong seasonal cycle in shelf-wide pCO2 and spatial variability throughout the summer months driven by physical events. The simulated net flux of CO2 on the Scotian Shelf is out of the ocean, deviating from the global air–sea CO2 flux trend in continental shelves.
Frerk Pöppelmeier, David J. Janssen, Samuel L. Jaccard, and Thomas F. Stocker
Biogeosciences, 18, 5447–5463, https://doi.org/10.5194/bg-18-5447-2021, https://doi.org/10.5194/bg-18-5447-2021, 2021
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Chromium (Cr) is a redox-sensitive element that holds promise as a tracer of ocean oxygenation and biological activity. We here implemented the oxidation states Cr(III) and Cr(VI) in the Bern3D model to investigate the processes that shape the global Cr distribution. We find a Cr ocean residence time of 5–8 kyr and that the benthic source dominates the tracer budget. Further, regional model–data mismatches suggest strong Cr removal in oxygen minimum zones and a spatially variable benthic source.
Felipe S. Freitas, Philip A. Pika, Sabine Kasten, Bo B. Jørgensen, Jens Rassmann, Christophe Rabouille, Shaun Thomas, Henrik Sass, Richard D. Pancost, and Sandra Arndt
Biogeosciences, 18, 4651–4679, https://doi.org/10.5194/bg-18-4651-2021, https://doi.org/10.5194/bg-18-4651-2021, 2021
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It remains challenging to fully understand what controls carbon burial in marine sediments globally. Thus, we use a model–data approach to identify patterns of organic matter reactivity at the seafloor across distinct environmental conditions. Our findings support the notion that organic matter reactivity is a dynamic ecosystem property and strongly influences biogeochemical cycling and exchange. Our results are essential to improve predictions of future changes in carbon cycling and climate.
Josué Bock, Martine Michou, Pierre Nabat, Manabu Abe, Jane P. Mulcahy, Dirk J. L. Olivié, Jörg Schwinger, Parvadha Suntharalingam, Jerry Tjiputra, Marco van Hulten, Michio Watanabe, Andrew Yool, and Roland Séférian
Biogeosciences, 18, 3823–3860, https://doi.org/10.5194/bg-18-3823-2021, https://doi.org/10.5194/bg-18-3823-2021, 2021
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In this study we analyse surface ocean dimethylsulfide (DMS) concentration and flux to the atmosphere from four CMIP6 Earth system models over the historical and ssp585 simulations.
Our analysis of contemporary (1980–2009) climatologies shows that models better reproduce observations in mid to high latitudes. The models disagree on the sign of the trend of the global DMS flux from 1980 onwards. The models agree on a positive trend of DMS over polar latitudes following sea-ice retreat dynamics.
Mariana Hill Cruz, Iris Kriest, Yonss Saranga José, Rainer Kiko, Helena Hauss, and Andreas Oschlies
Biogeosciences, 18, 2891–2916, https://doi.org/10.5194/bg-18-2891-2021, https://doi.org/10.5194/bg-18-2891-2021, 2021
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In this study we use a regional biogeochemical model of the eastern tropical South Pacific Ocean to implicitly simulate the effect that fluctuations in populations of small pelagic fish, such as anchovy and sardine, may have on the biogeochemistry of the northern Humboldt Current System. To do so, we vary the zooplankton mortality in the model, under the assumption that these fishes eat zooplankton. We also evaluate the model for the first time against mesozooplankton observations.
Roman Bezhenar, Kyeong Ok Kim, Vladimir Maderich, Govert de With, and Kyung Tae Jung
Biogeosciences, 18, 2591–2607, https://doi.org/10.5194/bg-18-2591-2021, https://doi.org/10.5194/bg-18-2591-2021, 2021
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A new approach to predicting the accumulation of radionuclides in fish was developed by taking into account heterogeneity of distribution of contamination in the organism and dependence of metabolic process rates on the fish mass. Predicted concentrations of radionuclides in fish agreed well with the laboratory and field measurements. The model with the defined generic parameters could be used in marine environments without local calibration, which is important for emergency decision support.
Emil De Borger, Justin Tiano, Ulrike Braeckman, Adriaan D. Rijnsdorp, and Karline Soetaert
Biogeosciences, 18, 2539–2557, https://doi.org/10.5194/bg-18-2539-2021, https://doi.org/10.5194/bg-18-2539-2021, 2021
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Bottom trawling alters benthic mineralization: the recycling of organic material (OM) to free nutrients. To better understand how this occurs, trawling events were added to a model of seafloor OM recycling. Results show that bottom trawling reduces OM and free nutrients in sediments through direct removal thereof and of fauna which transport OM to deeper sediment layers protected from fishing. Our results support temporospatial trawl restrictions to allow key sediment functions to recover.
Britta Munkes, Ulrike Löptien, and Heiner Dietze
Biogeosciences, 18, 2347–2378, https://doi.org/10.5194/bg-18-2347-2021, https://doi.org/10.5194/bg-18-2347-2021, 2021
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Cyanobacteria blooms can strongly aggravate eutrophication problems of water bodies. Their controls are, however, not comprehensively understood, which impedes effective management and protection plans. Here we review the current understanding of cyanobacteria blooms. Juxtaposition of respective field and laboratory studies with state-of-the-art mathematical models reveals substantial uncertainty associated with nutrient demands, grazing, and death of cyanobacteria.
Jens Terhaar, Olivier Torres, Timothée Bourgeois, and Lester Kwiatkowski
Biogeosciences, 18, 2221–2240, https://doi.org/10.5194/bg-18-2221-2021, https://doi.org/10.5194/bg-18-2221-2021, 2021
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The uptake of carbon, emitted as a result of human activities, results in ocean acidification. We analyse 21st-century projections of acidification in the Arctic Ocean, a region of particular vulnerability, using the latest generation of Earth system models. In this new generation of models there is a large decrease in the uncertainty associated with projections of Arctic Ocean acidification, with freshening playing a greater role in driving acidification than previously simulated.
Tobias R. Vonnahme, Martial Leroy, Silke Thoms, Dick van Oevelen, H. Rodger Harvey, Svein Kristiansen, Rolf Gradinger, Ulrike Dietrich, and Christoph Völker
Biogeosciences, 18, 1719–1747, https://doi.org/10.5194/bg-18-1719-2021, https://doi.org/10.5194/bg-18-1719-2021, 2021
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Diatoms are crucial for Arctic coastal spring blooms, and their growth is controlled by nutrients and light. At the end of the bloom, inorganic nitrogen or silicon can be limiting, but nitrogen can be regenerated by bacteria, extending the algal growth phase. Modeling these multi-nutrient dynamics and the role of bacteria is challenging yet crucial for accurate modeling. We recreated spring bloom dynamics in a cultivation experiment and developed a representative dynamic model.
Rebecca M. Wright, Corinne Le Quéré, Erik Buitenhuis, Sophie Pitois, and Mark J. Gibbons
Biogeosciences, 18, 1291–1320, https://doi.org/10.5194/bg-18-1291-2021, https://doi.org/10.5194/bg-18-1291-2021, 2021
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Jellyfish have been included in a global ocean biogeochemical model for the first time. The global mean jellyfish biomass in the model is within the observational range. Jellyfish are found to play an important role in the plankton ecosystem, influencing community structure, spatiotemporal dynamics and biomass. The model raises questions about the sensitivity of the zooplankton community to jellyfish mortality and the interactions between macrozooplankton and jellyfish.
Valeria Di Biagio, Gianpiero Cossarini, Stefano Salon, and Cosimo Solidoro
Biogeosciences, 17, 5967–5988, https://doi.org/10.5194/bg-17-5967-2020, https://doi.org/10.5194/bg-17-5967-2020, 2020
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Events that influence the functioning of the Earth’s ecosystems are of interest in relation to a changing climate. We propose a method to identify and characterise
wavesof extreme events affecting marine ecosystems for multi-week periods over wide areas. Our method can be applied to suitable ecosystem variables and has been used to describe different kinds of extreme event waves of phytoplankton chlorophyll in the Mediterranean Sea, by analysing the output from a high-resolution model.
Maria Paula da Silva, Lino A. Sander de Carvalho, Evlyn Novo, Daniel S. F. Jorge, and Claudio C. F. Barbosa
Biogeosciences, 17, 5355–5364, https://doi.org/10.5194/bg-17-5355-2020, https://doi.org/10.5194/bg-17-5355-2020, 2020
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In this study, we analyze the seasonal changes in the dissolved organic matter (DOM) quality (based on its optical properties) in four Amazon floodplain lakes. DOM plays a fundamental role in surface water chemistry, controlling metal bioavailability and mobility, and nutrient cycling. The model proposed in our paper highlights the potential to study DOM quality at a wider spatial scale, which may help to better understand the persistence and fate of DOM in the ecosystem.
Zhengchen Zang, Z. George Xue, Kehui Xu, Samuel J. Bentley, Qin Chen, Eurico J. D'Sa, Le Zhang, and Yanda Ou
Biogeosciences, 17, 5043–5055, https://doi.org/10.5194/bg-17-5043-2020, https://doi.org/10.5194/bg-17-5043-2020, 2020
Taylor A. Shropshire, Steven L. Morey, Eric P. Chassignet, Alexandra Bozec, Victoria J. Coles, Michael R. Landry, Rasmus Swalethorp, Glenn Zapfe, and Michael R. Stukel
Biogeosciences, 17, 3385–3407, https://doi.org/10.5194/bg-17-3385-2020, https://doi.org/10.5194/bg-17-3385-2020, 2020
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Zooplankton are the smallest animals in the ocean and important food for fish. Despite their importance, zooplankton have been relatively undersampled. To better understand the zooplankton community in the Gulf of Mexico (GoM), we developed a model to simulate their dynamics. We found that heterotrophic protists are important for supporting mesozooplankton, which are the primary prey of larval fish. The model developed in this study has the potential to improve fisheries management in the GoM.
Iris Kriest, Paul Kähler, Wolfgang Koeve, Karin Kvale, Volkmar Sauerland, and Andreas Oschlies
Biogeosciences, 17, 3057–3082, https://doi.org/10.5194/bg-17-3057-2020, https://doi.org/10.5194/bg-17-3057-2020, 2020
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Constants of global biogeochemical ocean models are often tuned
by handto match observations of nutrients or oxygen. We investigate the effect of this tuning by optimising six constants of a global biogeochemical model, simulated in five different offline circulations. Optimal values for three constants adjust to distinct features of the circulation applied and can afterwards be swapped among the circulations, without losing too much of the model's fit to observed quantities.
Laura Haffert, Matthias Haeckel, Henko de Stigter, and Felix Janssen
Biogeosciences, 17, 2767–2789, https://doi.org/10.5194/bg-17-2767-2020, https://doi.org/10.5194/bg-17-2767-2020, 2020
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Deep-sea mining for polymetallic nodules is expected to have severe environmental impacts. Through prognostic modelling, this study aims to provide a holistic assessment of the biogeochemical recovery after a disturbance event. It was found that the recovery strongly depends on the impact type; e.g. complete removal of the surface sediment reduces seafloor nutrient fluxes over centuries.
Fabian A. Gomez, Rik Wanninkhof, Leticia Barbero, Sang-Ki Lee, and Frank J. Hernandez Jr.
Biogeosciences, 17, 1685–1700, https://doi.org/10.5194/bg-17-1685-2020, https://doi.org/10.5194/bg-17-1685-2020, 2020
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We use a numerical model to infer annual changes of surface carbon chemistry in the Gulf of Mexico (GoM). The main seasonality drivers of partial pressure of carbon dioxide and aragonite saturation state from the model are temperature and river runoff. The GoM basin is a carbon sink in winter–spring and carbon source in summer–fall, but uptake prevails near the Mississippi Delta year-round due to high biological production. Our model results show good correspondence with observational studies.
Simon J. Parker
Biogeosciences, 17, 305–315, https://doi.org/10.5194/bg-17-305-2020, https://doi.org/10.5194/bg-17-305-2020, 2020
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Dissolved oxygen (DO) models typically assume constant ecosystem respiration over the course of a single day. Using a data-driven approach, this research examines this assumption in four streams across two (hydro-)geological types (Chalk and Greensand). Despite hydrogeological equivalence in terms of baseflow index for each hydrogeological pairing, model suitability differed within, rather than across, geology types. This corresponded with associated differences in timings of DO minima.
Fabrice Lacroix, Tatiana Ilyina, and Jens Hartmann
Biogeosciences, 17, 55–88, https://doi.org/10.5194/bg-17-55-2020, https://doi.org/10.5194/bg-17-55-2020, 2020
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Contributions of rivers to the oceanic cycling of carbon have been poorly represented in global models until now. Here, we assess the long–term implications of preindustrial riverine loads in the ocean in a novel framework which estimates the loads through a hierarchy of weathering and land–ocean export models. We investigate their impacts for the oceanic biological production and air–sea carbon flux. Finally, we assess the potential incorporation of the framework in an Earth system model.
Patrick A. Rafter, Aaron Bagnell, Dario Marconi, and Timothy DeVries
Biogeosciences, 16, 2617–2633, https://doi.org/10.5194/bg-16-2617-2019, https://doi.org/10.5194/bg-16-2617-2019, 2019
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The N isotopic composition of nitrate (
nitrate δ15N) is a useful tracer of ocean N cycling and many other ocean processes. Here, we use a global compilation of marine nitrate δ15N as an input, training, and validating dataset for an artificial neural network (a.k.a.,
machine learning) and examine basin-scale trends in marine nitrate δ15N from the surface to the seafloor.
Elena Terzić, Paolo Lazzari, Emanuele Organelli, Cosimo Solidoro, Stefano Salon, Fabrizio D'Ortenzio, and Pascal Conan
Biogeosciences, 16, 2527–2542, https://doi.org/10.5194/bg-16-2527-2019, https://doi.org/10.5194/bg-16-2527-2019, 2019
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Measuring ecosystem properties in the ocean is a hard business. Recent availability of data from Biogeochemical-Argo floats can help make this task easier. Numerical models can integrate these new data in a coherent picture and can be used to investigate the functioning of ecosystem processes. Our new approach merges experimental information and model capabilities to quantitatively demonstrate the importance of light and water vertical mixing for algae dynamics in the Mediterranean Sea.
Jens Terhaar, James C. Orr, Marion Gehlen, Christian Ethé, and Laurent Bopp
Biogeosciences, 16, 2343–2367, https://doi.org/10.5194/bg-16-2343-2019, https://doi.org/10.5194/bg-16-2343-2019, 2019
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A budget of anthropogenic carbon in the Arctic Ocean, the main driver of open-ocean acidification, was constructed for the first time using a high-resolution ocean model. The budget reveals that anthropogenic carbon enters the Arctic Ocean mainly by lateral transport; the air–sea flux plays a minor role. Coarser-resolution versions of the same model, typical of earth system models, store less anthropogenic carbon in the Arctic Ocean and thus underestimate ocean acidification in the Arctic Ocean.
Taylor S. Martin, François Primeau, and Karen L. Casciotti
Biogeosciences, 16, 347–367, https://doi.org/10.5194/bg-16-347-2019, https://doi.org/10.5194/bg-16-347-2019, 2019
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Nitrite is a key intermediate in many nitrogen (N) cycling processes in the ocean, particularly in areas with low oxygen that are hotspots for N loss. We have created a 3-D global N cycle model with nitrite as a tracer. Stable isotopes of N are also included in the model and we are able to model the isotope fractionation associated with each N cycling process. Our model accurately represents N concentrations and isotope distributions in the ocean.
Camille Richon, Jean-Claude Dutay, Laurent Bopp, Briac Le Vu, James C. Orr, Samuel Somot, and François Dulac
Biogeosciences, 16, 135–165, https://doi.org/10.5194/bg-16-135-2019, https://doi.org/10.5194/bg-16-135-2019, 2019
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We evaluate the effects of climate change and biogeochemical forcing evolution on the nutrient and plankton cycles of the Mediterranean Sea for the first time. We use a high-resolution coupled physical and biogeochemical model and perform 120-year transient simulations. The results indicate that changes in external nutrient fluxes and climate change may have synergistic or antagonistic effects on nutrient concentrations, depending on the region and the scenario.
Angela M. Kuhn, Katja Fennel, and Ilana Berman-Frank
Biogeosciences, 15, 7379–7401, https://doi.org/10.5194/bg-15-7379-2018, https://doi.org/10.5194/bg-15-7379-2018, 2018
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Recent studies demonstrate that marine N2 fixation can be carried out without light. However, direct measurements of N2 fixation in dark environments are relatively scarce. This study uses a model that represents biogeochemical cycles at a deep-ocean location in the Gulf of Aqaba (Red Sea). Different model versions are used to test assumptions about N2 fixers. Relaxing light limitation for marine N2 fixers improved the similarity between model results and observations of deep nitrate and oxygen.
Prima Anugerahanti, Shovonlal Roy, and Keith Haines
Biogeosciences, 15, 6685–6711, https://doi.org/10.5194/bg-15-6685-2018, https://doi.org/10.5194/bg-15-6685-2018, 2018
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Minor changes in the biogeochemical model equations lead to major dynamical changes. We assessed this structural sensitivity for the MEDUSA biogeochemical model on chlorophyll and nitrogen concentrations at five oceanographic stations over 10 years, using 1-D ensembles generated by combining different process equations. The ensemble performed better than the default model in most of the stations, suggesting that our approach is useful for generating a probabilistic biogeochemical ensemble model.
Audrey Gimenez, Melika Baklouti, Thibaut Wagener, and Thierry Moutin
Biogeosciences, 15, 6573–6589, https://doi.org/10.5194/bg-15-6573-2018, https://doi.org/10.5194/bg-15-6573-2018, 2018
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During the OUTPACE cruise conducted in the oligotrophic to ultra-oligotrophic region of the western tropical South Pacific, two contrasted regions were sampled in terms of N2 fixation rates, primary production rates and nutrient availability. The aim of this work was to investigate the role of N2 fixation in the differences observed between the two contrasted areas by comparing two simulations only differing by the presence or not of N2 fixers using a 1-D biogeochemical–physical coupled model.
Jenny Hieronymus, Kari Eilola, Magnus Hieronymus, H. E. Markus Meier, Sofia Saraiva, and Bengt Karlson
Biogeosciences, 15, 5113–5129, https://doi.org/10.5194/bg-15-5113-2018, https://doi.org/10.5194/bg-15-5113-2018, 2018
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This paper investigates how phytoplankton concentrations in the Baltic Sea co-vary with nutrient concentrations and other key variables on inter-annual timescales in a model integration over the years 1850–2008. The study area is not only affected by climate change; it has also been subjected to greatly increased nutrient loads due to extensive use of agricultural fertilizers. The results indicate the largest inter-annual coherence of phytoplankton with the limiting nutrient.
Cyril Dutheil, Olivier Aumont, Thomas Gorguès, Anne Lorrain, Sophie Bonnet, Martine Rodier, Cécile Dupouy, Takuhei Shiozaki, and Christophe Menkes
Biogeosciences, 15, 4333–4352, https://doi.org/10.5194/bg-15-4333-2018, https://doi.org/10.5194/bg-15-4333-2018, 2018
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N2 fixation is recognized as one of the major sources of nitrogen in the ocean. Thus, N2 fixation sustains a significant part of the primary production (PP) by supplying the most common limiting nutrient for phytoplankton growth. From numerical simulations, the local maximums of Trichodesmium biomass in the Pacific are found around islands, explained by the iron fluxes from island sediments. We assessed that 15 % of the PP may be due to Trichodesmium in the low-nutrient, low-chlorophyll areas.
Akitomo Yamamoto, Ayako Abe-Ouchi, and Yasuhiro Yamanaka
Biogeosciences, 15, 4163–4180, https://doi.org/10.5194/bg-15-4163-2018, https://doi.org/10.5194/bg-15-4163-2018, 2018
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Millennial-scale changes in oceanic CO2 uptake due to global warming are simulated by a GCM and offline biogeochemical model. Sensitivity studies show that decreases in oceanic CO2 uptake are mainly caused by a weaker biological pump and seawater warming. Enhanced CO2 uptake due to weaker equatorial upwelling cancels out reduced CO2 uptake due to weaker AMOC and AABW formation. Thus, circulation change plays only a small direct role in reduction of CO2 uptake due to global warming.
Fabian A. Gomez, Sang-Ki Lee, Yanyun Liu, Frank J. Hernandez Jr., Frank E. Muller-Karger, and John T. Lamkin
Biogeosciences, 15, 3561–3576, https://doi.org/10.5194/bg-15-3561-2018, https://doi.org/10.5194/bg-15-3561-2018, 2018
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Seasonal patterns in nanophytoplankton and diatom biomass in the Gulf of Mexico were examined with an ocean–biogeochemical model. We found silica limitation of model diatom growth in the deep GoM and Mississippi delta. Zooplankton grazing and both transport and vertical mixing of biomass substantially influence the model phytoplankton biomass seasonality. We stress the need for integrated analyses of biologically and physically driven biomass fluxes to describe phytoplankton seasonal changes.
Martí Galí, Maurice Levasseur, Emmanuel Devred, Rafel Simó, and Marcel Babin
Biogeosciences, 15, 3497–3519, https://doi.org/10.5194/bg-15-3497-2018, https://doi.org/10.5194/bg-15-3497-2018, 2018
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We developed a new algorithm to estimate the sea-surface concentration of dimethylsulfide (DMS) using satellite data. DMS is a gas produced by marine plankton that, once emitted to the atmosphere, plays a key climatic role by seeding cloud formation. We used the algorithm to produce global DMS maps and also regional DMS time series. The latter suggest that DMS can vary largely from one year to another, which should be taken into account in atmospheric studies.
Konstantin Stolpovsky, Andrew W. Dale, and Klaus Wallmann
Biogeosciences, 15, 3391–3407, https://doi.org/10.5194/bg-15-3391-2018, https://doi.org/10.5194/bg-15-3391-2018, 2018
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The paper describes a new way to parameterize G-type models in marine sediments using data about reactivity of organic carbon sinking to the seafloor.
Anne Marx, Marcus Conrad, Vadym Aizinger, Alexander Prechtel, Robert van Geldern, and Johannes A. C. Barth
Biogeosciences, 15, 3093–3106, https://doi.org/10.5194/bg-15-3093-2018, https://doi.org/10.5194/bg-15-3093-2018, 2018
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CO2 outgassing from small streams causes one of the main uncertainties in global carbon budgets. These are caused by variable flow conditions, changing stream surface areas, and groundwater seeps. Here we used groundwater data to improve a novel stable carbon isotope modelling approach. We found that CO2 outgassing contributed more than three-fourths of annual stream inorganic carbon loss in a small, silicate catchment. We underline the potential of this approach for global applications.
Malin Ödalen, Jonas Nycander, Kevin I. C. Oliver, Laurent Brodeau, and Andy Ridgwell
Biogeosciences, 15, 1367–1393, https://doi.org/10.5194/bg-15-1367-2018, https://doi.org/10.5194/bg-15-1367-2018, 2018
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We conclude that different initial states for an ocean model result in different capacities for ocean carbon storage due to differences in the ocean circulation state and the origin of the carbon in the initial ocean carbon reservoir. This could explain why it is difficult to achieve comparable responses of the ocean carbon system in model inter-comparison studies in which the initial states vary between models. We show that this effect of the initial state is quantifiable.
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Short summary
Methylmercury (MeHg) is produced and bioaccumulated in marine food webs, posing concerns for human exposure through seafood consumption. We modeled and analyzed the fate of MeHg in the lower food web of the Mediterranean Sea. The modeled spatial–temporal distribution of plankton bioaccumulation differs from the distribution of MeHg in surface water. We also show that MeHg exposure concentrations in temperate waters can be lowered by winter convection, which is declining due to climate change.
Methylmercury (MeHg) is produced and bioaccumulated in marine food webs, posing concerns for...
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