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1
Launois, T., S. Belviso, L. Bopp, C. G. Fichot, and P. Peylin. "A new model for the global biogeochemical cycle of carbonyl sulfide – Part 1: Assessment of direct marine emissions with an oceanic general circulation and biogeochemistry model." Atmospheric Chemistry and Physics Discussions 14, no. 14 (August 11, 2014): 20677–720. http://dx.doi.org/10.5194/acpd-14-20677-2014.
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Abstract. The global budget of tropospheric carbonyl sulfide (OCS) is believed to be at equilibrium because background air concentrations have remained roughly stable over at least the last decade. Since the uptakes of OCS by leaves (associated to photosynthesis) and soils have been revised significantly upwards recently, an equilibrated budget can only be obtained with a compensatory source of OCS. It has been assumed that the missing source of OCS comes from the low latitude ocean, following the incident solar flux. The present work uses parameterizations of major production and removal processes of organic compounds in the NEMO-PISCES Ocean General Circulation and Biogeochemistry Model to assess the marine source of OCS. In addition, the OCS photo-production rates computed with the NEMO-PISCES model were evaluated independently using UV absorption coefficient of chromophoric dissolved organic matter (derived from satellite ocean color) and apparent quantum yields available in the literature. Our simulations show global direct marine emissions of COS in the range of 573–3997 Gg S yr−1, depending mostly on the quantification of the absorption rate of chromophoric dissolved organic matter. The high estimates on that range are unlikely, as they correspond to a formulation that most likely overestimate photo-production process. Low and medium (813 Gg S yr−1) estimates derived from the NEMO-PISCES model are however consistent spatially and temporally with the suggested missing source of Berry et al. (2013), allowing thus to close the global budget of OCS given the recent estimates of leaf and soil OCS uptakes.
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Launois, T., S. Belviso, L. Bopp, C. G. Fichot, and P. Peylin. "A new model for the global biogeochemical cycle of carbonyl sulfide – Part 1: Assessment of direct marine emissions with an oceanic general circulation and biogeochemistry model." Atmospheric Chemistry and Physics 15, no. 5 (March 3, 2015): 2295–312. http://dx.doi.org/10.5194/acp-15-2295-2015.
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Abstract. The global budget of tropospheric carbonyl sulfide (OCS) is believed to be at equilibrium because background air concentrations have remained roughly stable over at least the last decade. Since the uptake of OCS by leaves (associated with photosynthesis) and soils have been revised significantly upwards recently, an equilibrated budget can only be obtained with a compensatory source of OCS. It has been assumed that the missing source of OCS comes from the low-latitude ocean, following the incident solar flux. The present work uses parameterizations of major production and removal processes of organic compounds in the NEMO-PISCES (Nucleus for European Modelling of the Ocean, Pelagic Interaction Scheme for Carbon and Ecosystem Studies) ocean general circulation and biogeochemistry model to assess the marine source of OCS. In addition, the OCS photo-production rates computed with the NEMO-PISCES model~were evaluated independently using the UV absorption coefficient of chromophoric dissolved organic matter (derived from satellite ocean color data) and apparent quantum yields available in the literature. Our simulations show global direct marine emissions of OCS in the range of 573–3997 GgS yr−1, depending mostly on the quantification of the absorption rate of chromophoric dissolved organic matter. The high estimates of that range are unlikely, as they correspond to a formulation that most likely overestimate photo-production process. Low and medium (813 GgS yr−1) estimates derived from the NEMO-PISCES model are however consistent spatially and temporally~with the suggested missing source of Berry et al. (2013), allowing us thus to close the global budget of OCS given the recent estimates of leaf and soil OCS uptake.
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Aumont, O., C. Ethé, A. Tagliabue, L. Bopp, and M. Gehlen. "PISCES-v2: an ocean biogeochemical model for carbon and ecosystem studies." Geoscientific Model Development Discussions 8, no. 2 (February 16, 2015): 1375–509. http://dx.doi.org/10.5194/gmdd-8-1375-2015.
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Abstract. PISCES-v2 is a biogeochemical model which simulates the lower trophic levels of marine ecosystem (phytoplankton, microzooplankton and mesozooplankton) and the biogeochemical cycles of carbon and of the main nutrients (P, N, Fe, and Si). The model is intended to be used for both regional and global configurations at high or low spatial resolutions as well as for short-term (seasonal, interannual) and long-term (climate change, paleoceanography) analyses. There are twenty-four prognostic variables (tracers) including two phytoplankton compartments (diatoms and nanophytoplankton), two zooplankton size-classes (microzooplankton and mesozooplankton) and a description of the carbonate chemistry. Formulations in PISCES-v2 are based on a mixed Monod–Quota formalism: on one hand, stoichiometry of C/N/P is fixed and growth rate of phytoplankton is limited by the external availability in N, P and Si. On the other hand, the iron and silicium quotas are variable and growth rate of phytoplankton is limited by the internal availability in Fe. Various parameterizations can be activated in PISCES-v2, setting for instance the complexity of iron chemistry or the description of particulate organic materials. So far, PISCES-v2 has been coupled to the NEMO and ROMS systems. A full description of PISCES-v2 and of its optional functionalities is provided here. The results of a quasi-steady state simulation are presented and evaluated against diverse observational and satellite-derived data. Finally, some of the new functionalities of PISCES-v2 are tested in a series of sensitivity experiments.
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Aumont, O., C. Ethé, A. Tagliabue, L. Bopp, and M. Gehlen. "PISCES-v2: an ocean biogeochemical model for carbon and ecosystem studies." Geoscientific Model Development 8, no. 8 (August 13, 2015): 2465–513. http://dx.doi.org/10.5194/gmd-8-2465-2015.
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Abstract. PISCES-v2 (Pelagic Interactions Scheme for Carbon and Ecosystem Studies volume 2) is a biogeochemical model which simulates the lower trophic levels of marine ecosystems (phytoplankton, microzooplankton and mesozooplankton) and the biogeochemical cycles of carbon and of the main nutrients (P, N, Fe, and Si). The model is intended to be used for both regional and global configurations at high or low spatial resolutions as well as for short-term (seasonal, interannual) and long-term (climate change, paleoceanography) analyses. There are 24 prognostic variables (tracers) including two phytoplankton compartments (diatoms and nanophytoplankton), two zooplankton size classes (microzooplankton and mesozooplankton) and a description of the carbonate chemistry. Formulations in PISCES-v2 are based on a mixed Monod–quota formalism. On the one hand, stoichiometry of C / N / P is fixed and growth rate of phytoplankton is limited by the external availability in N, P and Si. On the other hand, the iron and silicon quotas are variable and the growth rate of phytoplankton is limited by the internal availability in Fe. Various parameterizations can be activated in PISCES-v2, setting, for instance, the complexity of iron chemistry or the description of particulate organic materials. So far, PISCES-v2 has been coupled to the Nucleus for European Modelling of the Ocean (NEMO) and Regional Ocean Modeling System (ROMS) systems. A full description of PISCES-v2 and of its optional functionalities is provided here. The results of a quasi-steady-state simulation are presented and evaluated against diverse observational and satellite-derived data. Finally, some of the new functionalities of PISCES-v2 are tested in a series of sensitivity experiments.
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Tussadiah, Armyanda, Joko Subandriyo, Sari Novita, and Widodo Setyo Pranowo. "VERIFICATION OF PISCES DISSOLVED OXYGEN MODEL USING IN SITU MEASUREMENT IN BIAK, ROTE, AND TANIMBAR SEAS, INDONESIA." International Journal of Remote Sensing and Earth Sciences (IJReSES) 14, no. 1 (June 21, 2017): 37. http://dx.doi.org/10.30536/j.ijreses.2017.v14.a2681.
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Dissolved oxygen (DO) is one of the most chemical primary data in supported life for marine organisms. Ministry of Marine Affairs and Fisheries Republic of Indonesia through Infrastructure Development for Space Oceanography (INDESO) Project provides dissolved oxygen data services in Indonesian Seas for 7 days backward and 10 days ahead (9,25 km x 9.25 km, 1 daily). The data based on Biogeochemical model (PISCES) coupled with hydrodynamic model (NEMO), with input data from satellite acquisition. This study investigated the performance and accuracy of dissolved oxygen from PISCES model, by comparing with the measurement in situ data in Indonesian Seas specifically in three outermost islands of Indonesia (Biak Island, Rote Island, and Tanimbar Island). Results of standard deviation values between in situ DO and model are around two (St.dev ± 2). Based on the calculation of linear regression between in situ DO with the standard deviation obtained a high determinant coefficient, greater than 0.9 (R2 ≥ 0.9). Furthermore, RMSE calculation showed a minor error, less than 0.05. These results showed that the equation of the linear regression might be used as a correction equation to gain the verified dissolved oxygen.
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Gutknecht, Elodie, Guillaume Reffray, Alexandre Mignot, Tomasz Dabrowski, and Marcos G. Sotillo. "Modelling the marine ecosystem of Iberia–Biscay–Ireland (IBI) European waters for CMEMS operational applications." Ocean Science 15, no. 6 (November 15, 2019): 1489–516. http://dx.doi.org/10.5194/os-15-1489-2019.
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Abstract. As part of the Copernicus Marine Environment Monitoring Service (CMEMS), a physical–biogeochemical coupled model system has been developed to monitor and forecast the ocean dynamics and marine ecosystem of the European waters and more specifically on the Iberia–Biscay–Ireland (IBI) area. The CMEMS IBI coupled model covers the north-east Atlantic Ocean from the Canary Islands to Iceland, including the North Sea and the western Mediterranean, with a NEMO-PISCES 1∕36∘ model application. The coupled system has been providing 7 d weekly ocean forecasts for CMEMS since April 2018. Prior to its operational launch, a pre-operational qualification simulation (2010–2016) has allowed assessing the model's capacity to reproduce the main biogeochemical and ecosystem features of the IBI area. The objective of this paper is then to describe the consistency and skill assessment of the PISCES biogeochemical model using this 7-year qualification simulation. The model results are compared with available satellite estimates as well as in situ observations (ICES, EMODnet and BGC-Argo). The simulation successfully reproduces the spatial distribution and seasonal cycles of oxygen, nutrients, chlorophyll a and net primary production, and confirms that PISCES is suitable at such a resolution and can be used for operational analysis and forecast applications. This model system can be a useful tool to better understand the current state and changes in the marine biogeochemistry of European waters and can also provide key variables for developing indicators to monitor the health of marine ecosystems. These indicators may be of interest to scientists, policy makers, environmental agencies and the general public.
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Bricaud, Clément, Julien Le Sommer, Gurvan Madec, Christophe Calone, Julie Deshayes, Christian Ethe, Jérôme Chanut, and Marina Levy. "Multi-grid algorithm for passive tracer transport in the NEMO ocean circulation model: a case study with the NEMO OGCM (version 3.6)." Geoscientific Model Development 13, no. 11 (November 10, 2020): 5465–83. http://dx.doi.org/10.5194/gmd-13-5465-2020.
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Abstract. Ocean biogeochemical models are key tools for both scientific and operational applications. Nevertheless the cost of these models is often expensive because of the large number of biogeochemical tracers. This has motivated the development of multi-grid approaches where ocean dynamics and tracer transport are computed on grids of different spatial resolution. However, existing multi-grid approaches to tracer transport in ocean modelling do not allow the computation of ocean dynamics and tracer transport simultaneously. This paper describes a new multi-grid approach developed for accelerating the computation of passive tracer transport in the Nucleus for European Modelling of the Ocean (NEMO) ocean circulation model. In practice, passive tracer transport is computed at runtime on a grid with coarser spatial resolution than the hydrodynamics, which reduces the CPU cost of computing the evolution of tracers. We describe the multi-grid algorithm, its practical implementation in the NEMO ocean model, and discuss its performance on the basis of a series of sensitivity experiments with global ocean model configurations. Our experiments confirm that the spatial resolution of hydrodynamical fields can be coarsened by a factor of 3 in both horizontal directions without significantly affecting the resolved passive tracer fields. Overall, the proposed algorithm yields a reduction by a factor of 7 of the overhead associated with running a full biogeochemical model like PISCES (with 24 passive tracers). Propositions for further reducing this cost without affecting the resolved solution are discussed.
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Hayashida, Hakase, James R. Christian, Amber M. Holdsworth, Xianmin Hu, Adam H. Monahan, Eric Mortenson, Paul G. Myers, Olivier G. J. Riche, Tessa Sou, and Nadja S. Steiner. "CSIB v1 (Canadian Sea-ice Biogeochemistry): a sea-ice biogeochemical model for the NEMO community ocean modelling framework." Geoscientific Model Development 12, no. 5 (May 15, 2019): 1965–90. http://dx.doi.org/10.5194/gmd-12-1965-2019.
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Abstract. Process-based numerical models are a useful tool for studying marine ecosystems and associated biogeochemical processes in ice-covered regions where observations are scarce. To this end, CSIB v1 (Canadian Sea-ice Biogeochemistry version 1), a new sea-ice biogeochemical model, has been developed and embedded into the Nucleus for European Modelling of the Ocean (NEMO) modelling system. This model consists of a three-compartment (ice algae, nitrate, and ammonium) sea-ice ecosystem and a two-compartment (dimethylsulfoniopropionate and dimethylsulfide) sea-ice sulfur cycle which are coupled to pelagic ecosystem and sulfur-cycle models at the sea-ice–ocean interface. In addition to biological and chemical sources and sinks, the model simulates the horizontal transport of biogeochemical state variables within sea ice through a one-way coupling to a dynamic-thermodynamic sea-ice model (LIM2; the Louvain-la-Neuve Sea Ice Model version 2). The model results for 1979 (after a decadal spin-up) are presented and compared to observations and previous model studies for a brief discussion on the model performance. Furthermore, this paper provides discussion on technical aspects of implementing the sea-ice biogeochemistry and assesses the model sensitivity to (1) the temporal resolution of the snowfall forcing data, (2) the representation of light penetration through snow, (3) the horizontal transport of sea-ice biogeochemical state variables, and (4) light attenuation by ice algae. The sea-ice biogeochemical model has been developed within the generic framework of NEMO to facilitate its use within different configurations and domains, and can be adapted for use with other NEMO-based sub-models such as LIM3 (the Louvain-la-Neuve Sea Ice Model version 3) and PISCES (Pelagic Interactions Scheme for Carbon and Ecosystem Studies).
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Garnier, F., J. M. Brankart, P. Brasseur, and E. Cosme. "Stochastic parameterizations of biogeochemical uncertainties in a 1/4° NEMO/PISCES model for probabilistic comparisons with ocean color data." Journal of Marine Systems 155 (March 2016): 59–72. http://dx.doi.org/10.1016/j.jmarsys.2015.10.012.
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Damien, Pierre, Julio Sheinbaum, Orens Pasqueron de Fommervault, Julien Jouanno, Lorena Linacre, and Olaf Duteil. "Do Loop Current eddies stimulate productivity in the Gulf of Mexico?" Biogeosciences 18, no. 14 (July 22, 2021): 4281–303. http://dx.doi.org/10.5194/bg-18-4281-2021.
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Abstract. Surface chlorophyll concentrations inferred from satellite images suggest a strong influence of the mesoscale activity on biogeochemical variability within the oligotrophic regions of the Gulf of Mexico (GoM). More specifically, long-living anticyclonic Loop Current eddies (LCEs) are shed episodically from the Loop Current and propagate westward. This study addresses the biogeochemical response of the LCEs to seasonal forcing and show their role in driving phytoplankton biomass distribution in the GoM. Using an eddy resolving (1/12∘) interannual regional simulation, it is shown that the LCEs foster a large biomass increase in winter in the upper ocean. It is based on the coupled physical–biogeochemical model NEMO-PISCES (Nucleus for European Modeling of the Ocean and Pelagic Interaction Scheme for Carbon and Ecosystem Studies) that yields a realistic representation of the surface chlorophyll distribution. The primary production in the LCEs is larger than the average rate in the surrounding open waters of the GoM. This behavior cannot be directly identified from surface chlorophyll distribution alone since LCEs are associated with a negative surface chlorophyll anomaly all year long. This anomalous biomass increase in the LCEs is explained by the mixed-layer response to winter convective mixing that reaches deeper and nutrient-richer waters.
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Clerc, Corentin, Laurent Bopp, Fabio Benedetti, Meike Vogt, and Olivier Aumont. "Including filter-feeding gelatinous macrozooplankton in a global marine biogeochemical model: model–data comparison and impact on the ocean carbon cycle." Biogeosciences 20, no. 4 (February 28, 2023): 869–95. http://dx.doi.org/10.5194/bg-20-869-2023.
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Abstract. Filter-feeding gelatinous macrozooplankton (FFGM), namely salps, pyrosomes and doliolids, are increasingly recognized as an essential component of the marine ecosystem. Unlike crustacean zooplankton (e.g., copepods) that feed on prey that are an order of magnitude smaller, filter feeding allows FFGM to have access to a wider range of organisms, with predator-over-prey size ratios as high as 105:1. In addition, most FFGM produce carcasses and/or fecal pellets that sink 10 times faster than those of copepods. This implies a rapid and efficient export of organic matter to depth. Even if these organisms represent < 5 % of the overall planktonic biomass, their associated organic matter flux could be substantial. Here we present a first estimate of the influence of FFGM on the export of particulate organic matter to the deep ocean based on the marine biogeochemical model NEMO-PISCES (Nucleus for European Modelling of the Ocean, Pelagic Interaction Scheme for Carbon and Ecosystem Studies). In this new version of PISCES, two processes characterize FFGM: the preference for small organisms due to filter feeding and the rapid sinking of carcasses and fecal pellets. To evaluate our simulated FFGM distribution, we compiled FFGM abundance observations into a monthly biomass climatology using a taxon-specific biomass–abundance conversion. Model–observation comparison supports the model's ability to quantify the global and large-scale patterns of FFGM biomass distribution but reveals an urgent need to better understand the factors triggering the boom-and-bust FFGM dynamics before we can reproduce the observed spatio-temporal variability of FFGM. FFGM substantially contribute to carbon export at depth (0.4 Pg C yr−1 at 1000 m), particularly in low-productivity regions (up to 40 % of organic carbon export at 1000 m), where they dominate macrozooplankton biomass by a factor of 2. The FFGM-induced export increases in importance with depth, with a simulated transfer efficiency close to 1.
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Santana-Falcón, Yeray, Pierre Brasseur, Jean Michel Brankart, and Florent Garnier. "Assimilation of chlorophyll data into a stochastic ensemble simulation for the North Atlantic Ocean." Ocean Science 16, no. 5 (October 29, 2020): 1297–315. http://dx.doi.org/10.5194/os-16-1297-2020.
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Abstract. Satellite-derived surface chlorophyll data are assimilated daily into a three-dimensional 24-member ensemble configuration of an online-coupled NEMO (Nucleus for European Modeling of the Ocean)–PISCES (Pelagic Interaction Scheme of Carbon and Ecosystem Studies) model for the North Atlantic Ocean. A 1-year multivariate assimilation experiment is performed to evaluate the impacts on analyses and forecast ensembles. Our results demonstrate that the integration of data improves surface analysis and forecast chlorophyll representation in a major part of the model domain, where the assimilated simulation outperforms the probabilistic skills of a non-assimilated analogous simulation. However, improvements are dependent on the reliability of the prior free ensemble. A regional diagnosis shows that surface chlorophyll is overestimated in the northern limit of the subtropical North Atlantic, where the prior ensemble spread does not cover the observation's variability. There, the system cannot deal with corrections that alter the equilibrium between the observed and unobserved state variables producing instabilities that propagate into the forecast. To alleviate these inconsistencies, a 1-month sensitivity experiment in which the assimilation process is only applied to model fluctuations is performed. Results suggest the use of this methodology may decrease the effect of corrections on the correlations between state vectors. Overall, the experiments presented here evidence the need of refining the description of model's uncertainties according to the biogeochemical characteristics of each oceanic region.
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van Hulten, Marco, Jean-Claude Dutay, and Matthieu Roy-Barman. "A global scavenging and circulation ocean model of thorium-230 and protactinium-231 with improved particle dynamics (NEMO–ProThorP 0.1)." Geoscientific Model Development 11, no. 9 (August 31, 2018): 3537–56. http://dx.doi.org/10.5194/gmd-11-3537-2018.
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Abstract. In this paper we set forth a 3-D ocean model of the radioactive trace isotopes 230Th and 231Pa. The interest arises from the fact that these isotopes are extensively used for investigating particle transport in the ocean and reconstructing past ocean circulation. The tracers are reversibly scavenged by biogenic and lithogenic particles. Our simulations of 230Th and 231Pa are based on the NEMO–PISCES ocean biogeochemistry general circulation model, which includes biogenic particles, namely small and big particulate organic carbon, calcium carbonate and biogenic silica. Small and big lithogenic particles from dust deposition are included in our model as well. Their distributions generally compare well with the small and big lithogenic particle concentrations from recent observations from the GEOTRACES programme, except for boundary nepheloid layers for which, as of today, there are no non-trivial prognostic models available on a global scale. Our simulations reproduce 230Th and 231Pa dissolved concentrations: they compare well with recent GEOTRACES observations in many parts of the ocean. Particulate 230Th and 231Pa concentrations are significantly improved compared to previous studies, but they are still too low because of missing particles from nepheloid layers. Our simulation reproduces the main characteristics of the 231Pa∕230Th ratio observed in the sediments and supports a moderate affinity of 231Pa to biogenic silica as suggested by recent observations relative to 230Th. Future model development may further improve understanding, especially when this will include a more complete representation of all particles, including different size classes, manganese hydroxides and nepheloid layers. This can be done based on our model as its source code is readily available.
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Person, Renaud, Olivier Aumont, Gurvan Madec, Martin Vancoppenolle, Laurent Bopp, and Nacho Merino. "Sensitivity of ocean biogeochemistry to the iron supply from the Antarctic Ice Sheet explored with a biogeochemical model." Biogeosciences 16, no. 18 (September 24, 2019): 3583–603. http://dx.doi.org/10.5194/bg-16-3583-2019.
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Abstract. Iron (Fe) delivery by the Antarctic Ice Sheet (AIS) through ice shelf and iceberg melting enhances primary productivity in the largely iron-limited Southern Ocean (SO). To explore this fertilization capacity, we implement a simple representation of the AIS iron source in the global ocean biogeochemical model NEMO-PISCES. We evaluate the response of Fe, surface chlorophyll, primary production, and carbon (C) export to the magnitude and hypothesized vertical distributions of the AIS Fe fluxes. Surface Fe and chlorophyll concentrations are increased up to 24 % and 12 %, respectively, over the whole SO. The AIS Fe delivery is found to have a relatively modest impact on SO primary production and C export, which are increased by 0.063±0.036 PgC yr−1 and 0.028±0.016, respectively. However, in highly fertilized areas, primary production and C export can be increased by up to 30 % and 42 %, respectively. Icebergs are predicted to have a much larger impact on Fe, surface chlorophyll, and primary productivity than ice shelves in the SO. The response of surface Fe and chlorophyll is maximum in the Atlantic sector, northeast of the tip of the Antarctic Peninsula, and along the East Antarctic coast. The iceberg Fe delivery below the mixed layer may, depending on its assumed vertical distribution, fuel a non-negligible subsurface reservoir of Fe. The AIS Fe supply is effective all year round. The seasonal variations of the iceberg Fe fluxes have regional impacts that are small for annual mean primary productivity and C export at the scale of the SO.
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Bourgeois, Timothée, James C. Orr, Laure Resplandy, Jens Terhaar, Christian Ethé, Marion Gehlen, and Laurent Bopp. "Coastal-ocean uptake of anthropogenic carbon." Biogeosciences 13, no. 14 (July 22, 2016): 4167–85. http://dx.doi.org/10.5194/bg-13-4167-2016.
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Abstract. Anthropogenic changes in atmosphere–ocean and atmosphere–land CO2 fluxes have been quantified extensively, but few studies have addressed the connection between land and ocean. In this transition zone, the coastal ocean, spatial and temporal data coverage is inadequate to assess its global budget. Thus we use a global ocean biogeochemical model to assess the coastal ocean's global inventory of anthropogenic CO2 and its spatial variability. We used an intermediate resolution, eddying version of the NEMO-PISCES model (ORCA05), varying from 20 to 50 km horizontally, i.e. coarse enough to allow multiple century-scale simulations but finer than coarse-resolution models (∼ 200 km) to better resolve coastal bathymetry and complex coastal currents. Here we define the coastal zone as the continental shelf area, excluding the proximal zone. Evaluation of the simulated air–sea fluxes of total CO2 for 45 coastal regions gave a correlation coefficient R of 0.8 when compared to observation-based estimates. Simulated global uptake of anthropogenic carbon results averaged 2.3 Pg C yr−1 during the years 1993–2012, consistent with previous estimates. Yet only 0.1 Pg C yr−1 of that is absorbed by the global coastal ocean. That represents 4.5 % of the anthropogenic carbon uptake of the global ocean, less than the 7.5 % proportion of coastal-to-global-ocean surface areas. Coastal uptake is weakened due to a bottleneck in offshore transport, which is inadequate to reduce the mean anthropogenic carbon concentration of coastal waters to the mean level found in the open-ocean mixed layer.
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Masotti, I., C. Moulin, S. Alvain, L. Bopp, A. Tagliabue, and D. Antoine. "Large-scale shifts in phytoplankton groups in the Equatorial Pacific during ENSO cycles." Biogeosciences 8, no. 3 (March 4, 2011): 539–50. http://dx.doi.org/10.5194/bg-8-539-2011.
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Abstract. The El Niño Southern Oscillation (ENSO) drives important changes in the marine productivity of the Equatorial Pacific, in particular during major El Niño/La Niña transitions. Changes in environmental conditions associated with these climatic events also likely impact phytoplankton composition. In this work, the distribution of four major phytoplankton groups (nanoeucaryotes, Prochlorococcus, Synechococcus, and diatoms) was examined between 1996 and 2007 by applying the PHYSAT algorithm to the ocean color data archive from the Ocean Color and Temperature Sensor (OCTS) and Sea-viewing Wide Field-of-view Sensor (SeaWiFS). Coincident with the decrease in chlorophyll concentrations, a large-scale shift in the phytoplankton composition of the Equatorial Pacific, that was characterized by a decrease in Synechococcus and an increase in nanoeucaryote dominance, was observed during the early stages of both the strong El Niño of 1997 and the moderate El Niño of 2006. A significant increase in diatoms dominance was observed in the Equatorial Pacific during the 1998 La Niña and was associated with elevated marine productivity. An analysis of the environmental variables using a coupled physical-biogeochemical model (NEMO-PISCES) suggests that the Synechococcus dominance decrease during the two El Niño events was associated with an abrupt decline in nutrient availability (−0.9 to −2.5 μM NO3 month−1). Alternatively, increased nutrient availability (3 μM NO3 month−1) during the 1998 La Niña resulted in Equatorial Pacific dominance diatom increase. Despite these phytoplankton community shifts, the mean composition is restored after a few months, which suggests resilience in community structure.
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Popov, Mikhail, Jean-Michel Brankart, Arthur Capet, Emmanuel Cosme, and Pierre Brasseur. "Ensemble analysis and forecast of ecosystem indicators in the North Atlantic using ocean colour observations and prior statistics from a stochastic NEMO–PISCES simulator." Ocean Science 20, no. 1 (February 16, 2024): 155–80. http://dx.doi.org/10.5194/os-20-155-2024.
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Abstract. This study is anchored in the H2020 SEAMLESS project (https://www.seamlessproject.org, last access: 29 January 2024), which aims to develop ensemble assimilation methods to be implemented in Copernicus Marine Service monitoring and forecasting systems, in order to operationally estimate a set of targeted ecosystem indicators in various regions, including uncertainty estimates. In this paper, a simplified approach is introduced to perform a 4D (space–time) ensemble analysis describing the evolution of the ocean ecosystem. An example application is provided, which covers a limited time period in a limited subregion of the North Atlantic (between 31 and 21∘ W, between 44 and 50.5∘ N, between 15 March and 15 June 2019, at a 1/4∘ and a 1 d resolution). The ensemble analysis is based on prior ensemble statistics from a stochastic NEMO (Nucleus for European Modelling of the Ocean)–PISCES simulator. Ocean colour observations are used as constraints to condition the 4D prior probability distribution. As compared to classic data assimilation, the simplification comes from the decoupling between the forward simulation using the complex modelling system and the update of the 4D ensemble to account for the observation constraint. The shortcomings and possible advantages of this approach for biogeochemical applications are discussed in the paper. The results show that it is possible to produce a multivariate ensemble analysis continuous in time and consistent with the observations. Furthermore, we study how the method can be used to extrapolate analyses calculated from past observations into the future. The resulting 4D ensemble statistical forecast is shown to contain valuable information about the evolution of the ecosystem for a few days after the last observation. However, as a result of the short decorrelation timescale in the prior ensemble, the spread of the ensemble forecast increases quickly with time. Throughout the paper, a special emphasis is given to discussing the statistical reliability of the solution. Two different methods have been applied to perform this 4D statistical analysis and forecast: the analysis step of the ensemble transform Kalman filter (with domain localization) and a Monte Carlo Markov chain (MCMC) sampler (with covariance localization), both enhanced by the application of anamorphosis to the original variables. Despite being very different, the two algorithms produce very similar results, thus providing support to each other's estimates. As shown in the paper, the decoupling of the statistical analysis from the dynamical model allows us to restrict the analysis to a few selected variables and, at the same time, to produce estimates of additional ecological indicators (in our example: phenology, trophic efficiency, downward flux of particulate organic matter). This approach can easily be appended to existing operational systems to focus on dedicated users' requirements, at a small additional cost, as long as a reliable prior ensemble simulation is available. It can also serve as a baseline to compare with the dynamical ensemble forecast and as a possible substitute whenever useful.
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Masotti, I., C. Moulin, S. Alvain, L. Bopp, A. Tagliabue, and D. Antoine. "Large-scale shifts in phytoplankton groups in the Equatorial Pacific during ENSO cycles." Biogeosciences Discussions 7, no. 2 (April 8, 2010): 2523–48. http://dx.doi.org/10.5194/bgd-7-2523-2010.
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Abstract. The El Niño Southern Oscillation (ENSO) drives important changes in the marine productivity of the Equatorial Pacific, in particular during major El Niño/La Niña transitions. Changes in environmental conditions associated with these climatic events also likely impact phytoplankton composition. In this work, the distribution of four major phytoplankton groups (nanoeucaryotes, Prochlorococcus, Synechococcus, and diatoms) was examined between 1996 and 2007 by applying the PHYSAT algorithm to the ocean color data archive from the Ocean Color and Temperature Sensor (OCTS) and Sea-viewing Wide Field-of-view Sensor (SeaWiFS). Coincident with the decrease in chlorophyll concentrations, a large-scale shift in the phytoplankton composition of the Equatorial Pacific, that was characterized by a decrease in Synechococcus and an increase in nanoeucaryotes dominance, was observed during the early stages of both the strong El Niño of 1997 and the moderate El Niño of 2006. A significant increase in diatoms dominance was observed in the Equatorial Pacific during the 1998 La Niña and was associated with elevated marine productivity. An analysis of the environmental variables using a coupled physical-biogeochemical model (NEMO-PISCES) suggests that the Synechococcus dominance decrease during the two El Niño events was associated with an abrupt decline in nutrient availability (−0.9 to −2.5 μM NO3 month−1). Alternatively, increased nutrient availability (3 μM NO3 month−1) during the 1998 La Niña resulted in Equatorial Pacific dominance diatom increase. Despite these phytoplankton community shifts, the mean composition is restored after a few months, which suggests resilience in community structure. Such rapid changes to the composition of phytoplankton groups should be considered in future modeling approaches to represent variability of the marine productivity in the Equatorial Pacific and to quantify its potential implications on food-web and on global carbon cycle.
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Gutknecht, E., G. Reffray, M. Gehlen, I. Triyulianti, D. Berlianty, and P. Gaspar. "Evaluation of an operational ocean model configuration at 1/12° spatial resolution for the Indonesian seas – Part 2: Biogeochemistry." Geoscientific Model Development Discussions 8, no. 8 (August 19, 2015): 6669–706. http://dx.doi.org/10.5194/gmdd-8-6669-2015.
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Abstract. In the framework of the INDESO (Infrastructure evelopment of Space Oceanography) project, an operational ocean forecasting system was developed to monitor the state of the Indonesian seas in terms of circulation, biogeochemistry and fisheries. This forecasting system combines a suite of numerical models connecting physical and biogeochemical variables to population dynamics of large marine predators (tunas). The physical/biogeochemical coupled component (INDO12BIO configuration) covers a large region extending from the western Pacific Ocean to the Eastern Indian Ocean at 1/12° resolution. The OPA/NEMO physical ocean model and the PISCES biogeochemical model are coupled in "on-line" mode without degradation in space and time. The operational global ocean forecasting system (1/4°) operated by Mercator Ocean provides the physical forcing while climatological open boundary conditions are prescribed for the biogeochemistry. This paper describes the skill assessment of the INDO12BIO configuration. Model skill is assessed by evaluating a reference hindcast simulation covering the last 8 years (2007–2014). Model results are compared to satellite, climatological and in situ observations. Diagnostics are performed on chlorophyll a, primary production, mesozooplankton, nutrients and oxygen. Model results reproduce the main characteristics of biogeochemical tracer distributions in space and time. The seasonal cycle of chlorophyll a is in phase with satellite observations. The northern and southern parts of the archipelago present a distinct seasonal cycle, with higher chlorophyll biomass in the southern (northern) part during SE (NW) monsoon. Nutrient and oxygen concentrations are correctly reproduced in terms of horizontal and vertical distributions. The biogeochemical content of water masses entering in the archipelago as well as the water mass transformation across the archipelago conserves realistic vertical distribution in Banda Sea and at the exit of the archipelago.
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Martinez-Rey, J., L. Bopp, M. Gehlen, A. Tagliabue, and N. Gruber. "Oceanic N<sub>2</sub>O emissions in the 21st century." Biogeosciences Discussions 11, no. 12 (December 4, 2014): 16703–42. http://dx.doi.org/10.5194/bgd-11-16703-2014.
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Abstract. The ocean is a substantial source of nitrous oxide (N2O) to the atmosphere, but little is known on how this flux might change in the future. Here, we investigate the potential evolution of marine N2O emissions in the 21st century in response to anthropogenic climate change using the global ocean biogeochemical model NEMO-PISCES. We implemented two different parameterizations of N2O production, which differ primarily at low oxygen (O2) conditions. When forced with output from a climate model simulation run under the business-as-usual high CO2 concentration scenario (RCP8.5), our simulations suggest a decrease of 4 to 12% in N2O emissions from 2005 to 2100, i.e., a reduction from 4.03/3.71 to 3.54/3.56 Tg N yr−1 depending on the parameterization. The emissions decrease strongly in the western basins of the Pacific and Atlantic oceans, while they tend to increase above the Oxygen Minimum Zones (OMZs), i.e., in the Eastern Tropical Pacific and in the northern Indian Ocean. The reduction in N2O emissions is caused on the one hand by weakened nitrification as a consequence of reduced primary and export production, and on the other hand by stronger vertical stratification, which reduces the transport of N2O from the ocean interior to the ocean surface. The higher emissions over the OMZ are linked to an expansion of these zones under global warming, which leads to increased N2O production associated primarily with denitrification. From the perspective of a global climate system, the averaged feedback strength associated with the projected decrease in oceanic N2O emissions amounts to around −0.009 W m−2 K−1, which is comparable to the potential increase from terrestrial N2O sources. However, the assesment for a compensation between the terrestrial and marine feedbacks calls for an improved representation of N2O production terms in fully coupled next generation of Earth System Models.
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Myriokefalitakis, Stelios, Matthias Gröger, Jenny Hieronymus, and Ralf Döscher. "An explicit estimate of the atmospheric nutrient impact on global oceanic productivity." Ocean Science 16, no. 5 (October 17, 2020): 1183–205. http://dx.doi.org/10.5194/os-16-1183-2020.
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Abstract. State-of-the-art global nutrient deposition fields are coupled here to the Pelagic Interactions Scheme for Carbon and Ecosystem Studies (PISCES) biogeochemistry model to investigate their effect on ocean biogeochemistry in the context of atmospheric forcings for pre-industrial, present, and future periods. PISCES, as part of the European Community Earth system model (EC-Earth) model suite, runs in offline mode using prescribed dynamical fields as simulated by the Nucleus for European Modelling of the Ocean (NEMO) ocean model. Present-day atmospheric deposition fluxes of inorganic N, Fe, and P into the global ocean account for ∼ 40 Tg N yr−1, ∼ 0.28 Tg Fe yr−1, and ∼ 0.10 Tg P yr−1. Pre-industrial atmospheric nutrient deposition fluxes are lower compared to the present day (∼ 51 %, ∼ 36 %, and ∼ 40 % for N, Fe, and P, respectively). However, the overall impact on global productivity is low (∼ 3 %) since a large part of marine productivity is driven by nutrients recycled in the upper ocean layer or other local factors. Prominent changes are, nevertheless, found for regional productivity. Reductions of up to 20 % occur in oligotrophic regions such as the subtropical gyres in the Northern Hemisphere under pre-industrial conditions. In the subpolar Pacific, reduced pre-industrial Fe fluxes lead to a substantial decline of siliceous diatom production and subsequent accumulation of Si, P, and N, in the subpolar gyre. Transport of these nutrient-enriched waters leads to strongly elevated production of calcareous nanophytoplankton further south and southeast, where iron no longer limits productivity. The North Pacific is found to be the most sensitive to variations in depositional fluxes, mainly because the water exchange with nutrient-rich polar waters is hampered by land bridges. By contrast, large amounts of unutilized nutrients are advected equatorward in the Southern Ocean and North Atlantic, making these regions less sensitive to external nutrient inputs. Despite the lower aerosol N : P ratios with respect to the Redfield ratio during the pre-industrial period, the nitrogen fixation decreased in the subtropical gyres mainly due to diminished iron supply. Future changes in air pollutants under the Representative Concentration Pathway 8.5 (RCP8.5) emission scenario result in a modest decrease of the atmospheric nutrients inputs into the global ocean compared to the present day (∼ 13 %, ∼ 14 %, and ∼ 20 % for N, Fe, and P, respectively), without significantly affecting the projected primary production in the model. Sensitivity simulations further show that the impact of atmospheric organic nutrients on the global oceanic productivity has turned out roughly as high as the present-day productivity increase since the pre-industrial era when only the inorganic nutrients' supply is considered in the model. On the other hand, variations in atmospheric phosphorus supply have almost no effect on the calculated oceanic productivity.
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Conte, Ludivine, Sophie Szopa, Roland Séférian, and Laurent Bopp. "The oceanic cycle of carbon monoxide and its emissions to the atmosphere." Biogeosciences 16, no. 4 (February 22, 2019): 881–902. http://dx.doi.org/10.5194/bg-16-881-2019.
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Abstract. The ocean is a source of atmospheric carbon monoxide (CO), a key component for the oxidizing capacity of the atmosphere. It constitutes a minor source at the global scale, but could play an important role far from continental anthropized emission zones. To date, this natural source is estimated with large uncertainties, especially because the processes driving the oceanic CO are related to the biological productivity and can thus have a large spatial and temporal variability. Here we use the NEMO-PISCES (Nucleus for European Modelling of the Ocean, Pelagic Interaction Scheme for Carbon and Ecosystem Studies) ocean general circulation and biogeochemistry model to dynamically assess the oceanic CO budget and its emission to the atmosphere at the global scale. The main biochemical sources and sinks of oceanic CO are explicitly represented in the model. The sensitivity to different parameterizations is assessed. In combination to the model, we present here the first compilation of literature reported in situ oceanic CO data, collected around the world during the last 50 years. The main processes driving the CO concentration are photoproduction and bacterial consumption and are estimated to be 19.1 and 30.0 Tg C yr−1 respectively with our best-guess modeling setup. There are, however, very large uncertainties on their respective magnitude. Despite the scarcity of the in situ CO measurements in terms of spatiotemporal coverage, the proposed best simulation is able to represent most of the data (∼300 points) within a factor of 2. Overall, the global emissions of CO to the atmosphere are 4.0 Tg C yr−1, in the range of recent estimates, but are very different from those published by Erickson in (1989), which were the only gridded global emission available to date. These oceanic CO emission maps are relevant for use by atmospheric chemical models, especially to study the oxidizing capacity of the atmosphere above the remote ocean.
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Aumont, Olivier, Marco van Hulten, Matthieu Roy-Barman, Jean-Claude Dutay, Christian Éthé, and Marion Gehlen. "Variable reactivity of particulate organic matter in a global ocean biogeochemical model." Biogeosciences 14, no. 9 (May 5, 2017): 2321–41. http://dx.doi.org/10.5194/bg-14-2321-2017.
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Abstract. The marine biological carbon pump is dominated by the vertical transfer of particulate organic carbon (POC) from the surface ocean to its interior. The efficiency of this transfer plays an important role in controlling the amount of atmospheric carbon that is sequestered in the ocean. Furthermore, the abundance and composition of POC is critical for the removal of numerous trace elements by scavenging, a number of which, such as iron, are essential for the growth of marine organisms, including phytoplankton. Observations and laboratory experiments have shown that POC is composed of numerous organic compounds that can have very different reactivities. However, this variable reactivity of POC has never been extensively considered, especially in modelling studies. Here, we introduced in the global ocean biogeochemical model NEMO-PISCES a description of the variable composition of POC based on the theoretical reactivity continuum model proposed by Boudreau and Ruddick (1991). Our model experiments show that accounting for a variable lability of POC increases POC concentrations in the ocean's interior by 1 to 2 orders of magnitude. This increase is mainly the consequence of a better preservation of small particles that sink slowly from the surface. Comparison with observations is significantly improved both in abundance and in size distribution. Furthermore, the amount of carbon that reaches the sediments is increased by more than a factor of 2, which is in better agreement with global estimates of the sediment oxygen demand. The impact on the major macronutrients (nitrate and phosphate) remains modest. However, iron (Fe) distribution is strongly altered, especially in the upper mesopelagic zone as a result of more intense scavenging: vertical gradients in Fe are milder in the upper ocean, which appears to be closer to observations. Thus, our study shows that the variable lability of POC can play a critical role in the marine biogeochemical cycles which advocates for more dedicated in situ and laboratory experiments.
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Racapé, Virginie, Patricia Zunino, Herlé Mercier, Pascale Lherminier, Laurent Bopp, Fiz F. Pérèz, and Marion Gehlen. "Transport and storage of anthropogenic C in the North Atlantic Subpolar Ocean." Biogeosciences 15, no. 14 (July 30, 2018): 4661–82. http://dx.doi.org/10.5194/bg-15-4661-2018.
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Abstract. The North Atlantic Ocean is a major sink region for atmospheric CO2 and contributes to the storage of anthropogenic carbon (Cant). While there is general agreement that the intensity of the meridional overturning circulation (MOC) modulates uptake, transport and storage of Cant in the North Atlantic Subpolar Ocean, processes controlling their recent variability and evolution over the 21st century remain uncertain. This study investigates the relationship between transport, air–sea flux and storage rate of Cant in the North Atlantic Subpolar Ocean over the past 53 years. Its relies on the combined analysis of a multiannual in situ data set and outputs from a global biogeochemical ocean general circulation model (NEMO–PISCES) at 1∕2∘ spatial resolution forced by an atmospheric reanalysis. Despite an underestimation of Cant transport and an overestimation of anthropogenic air–sea CO2 flux in the model, the interannual variability of the regional Cant storage rate and its driving processes were well simulated by the model. Analysis of the multi-decadal simulation revealed that the MOC intensity variability was the major driver of the Cant transport variability at 25 and 36∘ N, but not at OVIDE. At the subpolar OVIDE section, the interannual variability of Cant transport was controlled by the accumulation of Cant in the MOC upper limb. At multi-decadal timescales, long-term changes in the North Atlantic storage rate of Cant were driven by the increase in air–sea fluxes of anthropogenic CO2. North Atlantic Central Water played a key role for storing Cant in the upper layer of the subtropical region and for supplying Cant to Intermediate Water and North Atlantic Deep Water. The transfer of Cant from surface to deep waters occurred mainly north of the OVIDE section. Most of the Cant transferred to the deep ocean was stored in the subpolar region, while the remainder was exported to the subtropical gyre within the lower MOC.
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Masotti, Italo, Sauveur Belviso, Laurent Bopp, Alessandro Tagliabue, and Eva Bucciarelli. "Effects of light and phosphorus on summer DMS dynamics in subtropical waters using a global ocean biogeochemical model." Environmental Chemistry 13, no. 2 (2016): 379. http://dx.doi.org/10.1071/en14265.
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Environmental context Models are needed to predict the importance of the changes in marine emissions of dimethylsulfide (DMS) in response to ocean warming, increased stratification and acidification, and to evaluate the potential effects on the Earth’s climate. We use complementary simulations to further our understanding of the marine cycle of DMS in subtropical waters, and show that a lack of phosphorus may exert a more important control on surface DMS concentrations than an excess of light. Abstract The occurrence of a summer DMS paradox in the vast subtropical gyres is a strong matter of debate because approaches using discrete measurements, climatological data and model simulations yielded contradictory results. The major conclusion of the first appraisal of prognostic ocean DMS models was that such models need to give more weight to the direct effect of environmental forcings (e.g. irradiance) on DMS dynamics to decouple them from ecological processes. Here, the relative role of light and phosphorus on summer DMS dynamics in subtropical waters is assessed using the ocean general circulation and biogeochemistry model NEMO-PISCES in which macronutrient concentrations were restored to monthly climatological data values to improve the representation of phosphate concentrations. Results show that the vertical and temporal decoupling between chlorophyll and DMS concentrations observed in the Sargasso Sea during the summer months is captured by the model. Additional sensitivity tests show that the simulated control of phosphorus on surface DMS concentrations in the Sargasso Sea is much more important than that of light. By extending the analysis to the whole North Atlantic Ocean, we show that the longitudinal distribution of DMS during summer is asymmetrical and that a correlation between the solar radiation dose and DMS concentrations only occurs in the Sargasso Sea. The lack of a widespread summer DMS paradox in our model simulation as well as in the comparison of discrete and climatological data could be due to the limited occurrence of phosphorus limitation in the global ocean.
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Martinez-Rey, J., L. Bopp, M. Gehlen, A. Tagliabue, and N. Gruber. "Projections of oceanic N<sub>2</sub>O emissions in the 21st century using the IPSL Earth system model." Biogeosciences 12, no. 13 (July 13, 2015): 4133–48. http://dx.doi.org/10.5194/bg-12-4133-2015.
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Abstract. The ocean is a substantial source of nitrous oxide (N2O) to the atmosphere, but little is known about how this flux might change in the future. Here, we investigate the potential evolution of marine N2O emissions in the 21st century in response to anthropogenic climate change using the global ocean biogeochemical model NEMO-PISCES. Assuming nitrification as the dominant N2O formation pathway, we implemented two different parameterizations of N2O production which differ primarily under low-oxygen (O2) conditions. When forced with output from a climate model simulation run under the business-as-usual high-CO2 concentration scenario (RCP8.5), our simulations suggest a decrease of 4 to 12 % in N2O emissions from 2005 to 2100, i.e., a reduction from 4.03/3.71 to 3.54/3.56 TgN yr−1 depending on the parameterization. The emissions decrease strongly in the western basins of the Pacific and Atlantic oceans, while they tend to increase above the oxygen minimum zones (OMZs), i.e., in the eastern tropical Pacific and in the northern Indian Ocean. The reduction in N2O emissions is caused on the one hand by weakened nitrification as a consequence of reduced primary and export production, and on the other hand by stronger vertical stratification, which reduces the transport of N2O from the ocean interior to the ocean surface. The higher emissions over the OMZ are linked to an expansion of these zones under global warming, which leads to increased N2O production, associated primarily with denitrification. While there are many uncertainties in the relative contribution and changes in the N2O production pathways, the increasing storage seems unequivocal and determines largely the decrease in N2O emissions in the future. From the perspective of a global climate system, the averaged feedback strength associated with the projected decrease in oceanic N2O emissions amounts to around −0.009 W m−2 K−1, which is comparable to the potential increase from terrestrial N2O sources. However, the assessment for a potential balance between the terrestrial and marine feedbacks calls for an improved representation of N2O production terms in fully coupled next-generation Earth system models.
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Gutknecht, Elodie, Guillaume Reffray, Marion Gehlen, Iis Triyulianti, Dessy Berlianty, and Philippe Gaspar. "Evaluation of an operational ocean model configuration at 1/12° spatial resolution for the Indonesian seas (NEMO2.3/INDO12) – Part 2: Biogeochemistry." Geoscientific Model Development 9, no. 4 (April 21, 2016): 1523–43. http://dx.doi.org/10.5194/gmd-9-1523-2016.
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Abstract. In the framework of the INDESO (Infrastructure Development of Space Oceanography) project, an operational ocean forecasting system was developed to monitor the state of the Indonesian seas in terms of circulation, biogeochemistry and fisheries. This forecasting system combines a suite of numerical models connecting physical and biogeochemical variables to population dynamics of large marine predators (tunas). The physical–biogeochemical coupled component (the INDO12BIO configuration) covers a large region extending from the western Pacific Ocean to the eastern Indian Ocean at 1/12° horizontal resolution. The NEMO-OPA (Nucleus for European Model of the Ocean) physical ocean model and the PISCES (Pelagic Interactions Scheme for Carbon and Ecosystem Studies) biogeochemical model are running simultaneously ("online" coupling), at the same resolution. The operational global ocean forecasting system (1/4°) operated by Mercator Océan provides the physical forcing, while climatological open boundary conditions are prescribed for the biogeochemistry. This paper describes the skill assessment of the INDO12BIO configuration. Model skill is assessed by evaluating a reference hindcast simulation covering the last 8 years (2007–2014). Model results are compared to satellite, climatological and in situ observations. Diagnostics are performed on nutrients, oxygen, chlorophyll a, net primary production and mesozooplankton. The model reproduces large-scale distributions of nutrients, oxygen, chlorophyll a, net primary production and mesozooplankton biomasses. Modelled vertical distributions of nutrients and oxygen are comparable to in situ data sets although gradients are slightly smoothed. The model simulates realistic biogeochemical characteristics of North Pacific tropical waters entering in the archipelago. Hydrodynamic transformation of water masses across the Indonesian archipelago allows for conserving nitrate and oxygen vertical distribution close to observations, in the Banda Sea and at the exit of the archipelago. While the model overestimates the mean surface chlorophyll a, the seasonal cycle is in phase with satellite estimations, with higher chlorophyll a concentrations in the southern part of the archipelago during the SE monsoon and in the northern part during the NW monsoon. The time series of chlorophyll a anomalies suggests that meteorological and ocean physical processes that drive the interannual variability of biogeochemical properties in the Indonesian region are reproduced by the model.
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Richon, Camille, Jean-Claude Dutay, François Dulac, Rong Wang, and Yves Balkanski. "Modeling the biogeochemical impact of atmospheric phosphate deposition from desert dust and combustion sources to the Mediterranean Sea." Biogeosciences 15, no. 8 (April 25, 2018): 2499–524. http://dx.doi.org/10.5194/bg-15-2499-2018.
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Abstract. Daily modeled fields of phosphate deposition to the Mediterranean from natural dust, anthropogenic combustion and wildfires were used to assess the effect of this external nutrient on marine biogeochemistry. The ocean model used is a high-resolution (1∕12°) regional coupled dynamical–biogeochemical model of the Mediterranean Sea (NEMO-MED12/PISCES). The input fields of phosphorus are for 2005, which are the only available daily resolved deposition fields from the global atmospheric chemical transport model LMDz-INCA. Traditionally, dust has been suggested to be the main atmospheric source of phosphorus, but the LMDz-INCA model suggests that combustion is dominant over natural dust as an atmospheric source of phosphate (PO4, the bioavailable form of phosphorus in seawater) for the Mediterranean Sea. According to the atmospheric transport model, phosphate deposition from combustion (Pcomb) brings on average 40.5×10−6 mol PO4 m−2 yr−1 over the entire Mediterranean Sea for the year 2005 and is the primary source over the northern part (e.g., 101×10−6 mol PO4 m−2 yr−1 from combustion deposited in 2005 over the north Adriatic against 12.4×10−6 from dust). Lithogenic dust brings 17.2×10−6 mol PO4 m−2 yr−1 on average over the Mediterranean Sea in 2005 and is the primary source of atmospheric phosphate to the southern Mediterranean Basin in our simulations (e.g., 31.8×10−6 mol PO4 m−2 yr−1 from dust deposited in 2005 on average over the south Ionian basin against 12.4×10−6 from combustion). The evaluation of monthly averaged deposition flux variability of Pdust and Pcomb for the 1997–2012 period indicates that these conclusions may hold true for different years. We examine separately the two atmospheric phosphate sources and their respective flux variability and evaluate their impacts on marine surface biogeochemistry (phosphate concentration, chlorophyll a, primary production). The impacts of the different phosphate deposition sources on the biogeochemistry of the Mediterranean are found localized, seasonally varying and small, but yet statistically significant. Differences in the geographical deposition patterns between phosphate from dust and from combustion will cause contrasted and significant changes in the biogeochemistry of the basin. We contrast the effects of combustion in the northern basin (Pcomb deposition effects are found to be 10 times more important in the northern Adriatic, close to the main source region) to the effects of dust in the southern basin. These different phosphorus sources should therefore be accounted for in modeling studies.
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Terhaar, Jens, James C. Orr, Marion Gehlen, Christian Ethé, and Laurent Bopp. "Model constraints on the anthropogenic carbon budget of the Arctic Ocean." Biogeosciences 16, no. 11 (June 7, 2019): 2343–67. http://dx.doi.org/10.5194/bg-16-2343-2019.
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Abstract. The Arctic Ocean is projected to experience not only amplified climate change but also amplified ocean acidification. Modeling future acidification depends on our ability to simulate baseline conditions and changes over the industrial era. Such centennial-scale changes require a global model to account for exchange between the Arctic and surrounding regions. Yet the coarse resolution of typical global models may poorly resolve that exchange as well as critical features of Arctic Ocean circulation. Here we assess how simulations of Arctic Ocean storage of anthropogenic carbon (Cant), the main driver of open-ocean acidification, differ when moving from coarse to eddy-admitting resolution in a global ocean-circulation–biogeochemistry model (Nucleus for European Modeling of the Ocean, NEMO; Pelagic Interactions Scheme for Carbon and Ecosystem Studies, PISCES). The Arctic's regional storage of Cant is enhanced as model resolution increases. While the coarse-resolution model configuration ORCA2 (2∘) stores 2.0 Pg C in the Arctic Ocean between 1765 and 2005, the eddy-admitting versions ORCA05 and ORCA025 (1∕2∘ and 1∕4∘) store 2.4 and 2.6 Pg C. The difference in inventory between model resolutions that is accounted for is only from their divergence after 1958, when ORCA2 and ORCA025 were initialized with output from the intermediate-resolution configuration (ORCA05). The difference would have been larger had all model resolutions been initialized in 1765 as was ORCA05. The ORCA025 Arctic Cant storage estimate of 2.6 Pg C should be considered a lower limit because that model generally underestimates observed CFC-12 concentrations. It reinforces the lower limit from a previous data-based approach (2.5 to 3.3 Pg C). Independent of model resolution, there was roughly 3 times as much Cant that entered the Arctic Ocean through lateral transport than via the flux of CO2 across the air–sea interface. Wider comparison to nine earth system models that participated in the Coupled Model Intercomparison Project Phase 5 (CMIP5) reveals much larger diversity of stored Cant and lateral transport. Only the CMIP5 models with higher lateral transport obtain Cant inventories that are close to the data-based estimates. Increasing resolution also enhances acidification, e.g., with greater shoaling of the Arctic's average depth of the aragonite saturation horizon during 1960–2012, from 50 m in ORCA2 to 210 m in ORCA025. Even higher model resolution would likely further improve such estimates, but its prohibitive costs also call for other more practical avenues for improvement, e.g., through model nesting, addition of coastal processes, and refinement of subgrid-scale parameterizations.
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Ayache, Mohamed, Jean-Claude Dutay, Kazuyo Tachikawa, Thomas Arsouze, and Catherine Jeandel. "Neodymium budget in the Mediterranean Sea: evaluating the role of atmospheric dusts using a high-resolution dynamical-biogeochemical model." Biogeosciences 20, no. 1 (January 16, 2023): 205–27. http://dx.doi.org/10.5194/bg-20-205-2023.
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Abstract. The relative importance of river solid discharge, deposited sediment remobilisation, and atmospheric dust as sources of neodymium (Nd) to the ocean is the subject of ongoing debate, the magnitudes of these fluxes being associated with a significant uncertainty. The Mediterranean basin is a specific basin; it receives a vast amount of emissions from different sources and is surrounded by continental margins, with a significant input of dust as compared to the global ocean. Furthermore, it is largely impacted by the Atlantic water inflow via the Strait of Gibraltar. Here, we present the first simulation of dissolved Nd concentration ([Nd]) and Nd isotopic composition (εNd) using a high-resolution regional model (NEMO/MED12/PISCES) with an explicit representation of all Nd inputs, and the internal cycle, i.e. the interactions between the particulate and dissolved phases. The high resolution of the oceanic model (at 1/12∘), essential to the simulation of a realistic Mediterranean circulation in present-day conditions, gives a unique opportunity to better apprehend the processes governing the Nd distribution in the marine environment. The model succeeds in simulating the main features of εNd and produces a realistic distribution of [Nd] in the Mediterranean Sea. We estimated the boundary exchange (BE, which represents the transfer of elements from the margin to the sea and their removal by scavenging) flux at 89.43 × 106 g(Nd) yr−1, representing ∼84.4 % of the total external Nd source to the Mediterranean basin. The river discharge provided 3.66 × 106 g(Nd) yr−1, or 3.5 % of the total Nd flow into the Mediterranean. The flux of Nd from partially dissolved atmospheric dusts was estimated at 5.2 × 106 g(Nd) yr−1, representing 5 % of the total Nd input, and 7.62 × 106 g(Nd) yr−1 comes from the Atlantic across the Strait of Gibraltar, i.e. 7.1 % of the total Nd input. The total quantity of Nd in the Mediterranean Sea was estimated to 7.28 × 109 g(Nd); this leads to a new calculated Nd residence time of ∼68 year. This work highlights that the impact of river discharge on [Nd] is localised near the catchments of the main rivers. In contrast, the atmospheric dust input has a basin-wide influence, correcting for a too-radiogenic εNd when only the BE input is considered and improving the agreement of simulated dissolved Nd concentration with field data. This work also suggests that εNd is sensitive to the spatial distribution of Nd in the atmospheric dust, and that the parameterisation of the vertical cycling (scavenging/remineralisation) considerably constrains the ability of the model to simulate the vertical profile of εNd.
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Djeutchouang, Laique M., Nicolette Chang, Luke Gregor, Marcello Vichi, and Pedro M. S. Monteiro. "The sensitivity of pCO2 reconstructions to sampling scales across a Southern Ocean sub-domain: a semi-idealized ocean sampling simulation approach." Biogeosciences 19, no. 17 (September 7, 2022): 4171–95. http://dx.doi.org/10.5194/bg-19-4171-2022.
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Abstract. The Southern Ocean is a complex system yet is sparsely sampled in both space and time. These factors raise questions about the confidence in present sampling strategies and associated machine learning (ML) reconstructions. Previous studies have not yielded a clear understanding of the origin of uncertainties and biases for the reconstructions of the partial pressure of carbon dioxide (pCO2) at the surface ocean (pCO2ocean). We examine these questions through a series of semi-idealized observing system simulation experiments (OSSEs) using a high-resolution (± 10 km) coupled physical and biogeochemical model (NEMO-PISCES, Nucleus for European Modelling of the Ocean, Pelagic Interactions Scheme for Carbon and Ecosystem Studies). Here we choose 1 year of the model sub-domain of 10∘ of latitude (40–50∘ S) by 20∘ of longitude (10∘ W–10∘ E). This domain is crossed by the sub-Antarctic front and thus includes both the sub-Antarctic zone and the polar frontal zone in the south-east Atlantic Ocean, which are the two most sampled sub-regions of the Southern Ocean. We show that while this sub-domain is small relative to the Southern Ocean scales, it is representative of the scales of variability we aim to examine. The OSSEs simulated the observational scales of pCO2ocean in ways that are comparable to existing ocean CO2 observing platforms (ships, Wave Gliders, carbon floats, Saildrones) in terms of their temporal sampling scales and not necessarily their spatial ones. The pCO2 reconstructions were carried out using a two-member ensemble approach that consisted of two machine learning (ML) methods, (1) the feed-forward neural network and (2) the gradient boosting machines. The baseline data were from the ship-based simulations mimicking ship-based observations from the Surface Ocean CO2 Atlas (SOCAT). For each of the sampling-scale scenarios, we applied the two-member ensemble method to reconstruct the full sub-domain pCO2ocean. The reconstruction skill was then assessed through a statistical comparison of reconstructed pCO2ocean and the model domain mean. The analysis shows that uncertainties and biases for pCO2ocean reconstructions are very sensitive to both the spatial and the temporal scales of pCO2 sampling in the model domain. The four key findings from our investigation are as follows: (1) improving ML-based pCO2 reconstructions in the Southern Ocean requires simultaneous high-resolution observations (<3 d) of the seasonal cycle of the meridional gradients of pCO2ocean; (2) Saildrones stand out as the optimal platforms to simultaneously address these requirements; (3) Wave Gliders with hourly/daily resolution in pseudo-mooring mode improve on carbon floats (10 d period), which suggests that sampling aliases from the 10 d sampling period might have a greater negative impact on their uncertainties, biases, and reconstruction means; and (4) the present seasonal sampling biases (towards summer) in SOCAT data in the Southern Ocean may be behind a significant winter bias in the reconstructed seasonal cycle of pCO2ocean.
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Moreau, Sébastien, Martin Vancoppenolle, Laurent Bopp, Oliver Aumont, Gurvan Madec, Bruno Delille, Jean-Louis Tison, Pierre-Yves Barriat, and Hugues Goosse. "Assessment of the sea-ice carbon pump: Insights from a three-dimensional ocean-sea-ice biogeochemical model (NEMO-LIM-PISCES)." Elementa: Science of the Anthropocene 4 (January 1, 2016). http://dx.doi.org/10.12952/journal.elementa.000122.
Full textAbstract:
Abstract The role of sea ice in the carbon cycle is minimally represented in current Earth System Models (ESMs). Among potentially important flaws, mentioned by several authors and generally overlooked during ESM design, is the link between sea-ice growth and melt and oceanic dissolved inorganic carbon (DIC) and total alkalinity (TA). Here we investigate whether this link is indeed an important feature of the marine carbon cycle misrepresented in ESMs. We use an ocean general circulation model (NEMO-LIM-PISCES) with sea-ice and marine carbon cycle components, forced by atmospheric reanalyses, adding a first-order representation of DIC and TA storage and release in/from sea ice. Our results suggest that DIC rejection during sea-ice growth releases several hundred Tg C yr−1 to the surface ocean, of which < 2% is exported to depth, leading to a notable but weak redistribution of DIC towards deep polar basins. Active carbon processes (mainly CaCO3 precipitation but also ice-atmosphere CO2 fluxes and net community production) increasing the TA/DIC ratio in sea-ice modified ocean-atmosphere CO2 fluxes by a few Tg C yr−1 in the sea-ice zone, with specific hemispheric effects: DIC content of the Arctic basin decreased but DIC content of the Southern Ocean increased. For the global ocean, DIC content increased by 4 Tg C yr−1 or 2 Pg C after 500 years of model run. The simulated numbers are generally small compared to the present-day global ocean annual CO2 sink (2.6 ± 0.5 Pg C yr−1). However, sea-ice carbon processes seem important at regional scales as they act significantly on DIC redistribution within and outside polar basins. The efficiency of carbon export to depth depends on the representation of surface-subsurface exchanges and their relationship with sea ice, and could differ substantially if a higher resolution or different ocean model were used.
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Alaerts, Lauranne, Thomas Dobbelaere, Philip M. Gravinese, and Emmanuel Hanert. "Climate Change Will Fragment Florida Stone Crab Communities." Frontiers in Marine Science 9 (July 11, 2022). http://dx.doi.org/10.3389/fmars.2022.839767.
Full textAbstract:
Many marine species have been shown to be threatened by both ocean acidification and ocean warming which are reducing survival, altering behavior, and posing limits on physiology, especially during earlier life stages. The commercially important Florida stone crab, Menippe mercenaria, is one species that is affected by reduced seawater pH and elevated seawater temperatures. In this study, we determined the impacts of reduced pH and elevated temperature on the distribution of the stone crab larvae along the West Florida Shelf. To understand the dispersion of the larvae, we coupled the multi-scale ocean model SLIM with a larval dispersal model. We then conducted a connectivity study and evaluated the impacts of climate stressors by looking at four different scenarios which included models that represented the dispersion of stone crab larvae under: 1) present day conditions as modelled by SLIM for the temperature and NEMO-PISCES for the pH, 2) SSP1-2.6 scenario (-0.037 reduction in pH and +0.5°C compared to present-day conditions), 3) SSP2-4.5 scenario(-0.15 reduction in pH and +1.5°C) and 4) SSP5-8.5 scenario (-0.375 reduction in pH and +3.5°C). Our results show a clear impact of these climate change stressors on larval dispersal and on the subsequent stone crab distribution. Our results indicate that future climate change could result in stone crabs moving north or into deeper waters. We also observed an increase in the number of larvae settling in deeper waters (defined as the non-fishing zone in this study with depths exceeding 30 m) that are not typically part of the commercial fishing zone. The distance travelled by larvae, however, is likely to decrease, resulting in an increase of self-recruitment and decrease of the size of the sub-populations. A shift of the spawning period, to earlier in the spring, is also likely to occur. Our results suggest that habitats in the non-fishing zone cannot serve as a significant source of larvae for the habitats in the fishing zone (defined as water depth< 30 m) since there is very little exchange (< 5% of all exchanges) between the two zones. These results indicate that the stone crab populations in Florida may be susceptible to community fragmentation and that the management of the fishery should consider the potential impacts of future climate change scenarios.