Articles | Volume 20, issue 22
https://doi.org/10.5194/bg-20-4591-2023
© Author(s) 2023. 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-20-4591-2023
© Author(s) 2023. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Research article
| 
24 Nov 2023
Research article |
| 24 Nov 2023
| 24 Nov 2023
Chromophoric dissolved organic matter dynamics revealed through the optimization of an optical–biogeochemical model in the northwestern Mediterranean Sea
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Gianpiero Cossarini
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Anna Teruzzi
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
Jorn Bruggeman
Bolding & Bruggeman ApS, Asperup, 5466, Denmark
Plymouth Marine Laboratory, Plymouth, PL1 3DH, UK
Karsten Bolding
Bolding & Bruggeman ApS, Asperup, 5466, Denmark
Department of Ecoscience, Aarhus University, Silkeborg, 8600, Denmark
Stefano Ciavatta
Mercator Ocean International, Toulouse, 31400, France
Vincenzo Vellucci
Institut de la Mer de Villefranche, IMEV, Sorbonne Université, CNRS, Villefranche-sur-Mer, 06230, France
OSU Stations Marines, STAMAR, Sorbonne Université, CNRS, Paris, 75005, France
Fabrizio D'Ortenzio
Laboratoire d'Océanographie de Villefranche, LOV, Sorbonne Université, CNRS, Villefranche-sur-Mer, 06230, France
David Antoine
Remote Sensing and Satellite Research Group, School of Earth & Planetary Science, Curtin University, Perth, WA 6102, Australia
Laboratoire d'Océanographie de Villefranche, LOV, Sorbonne Université, CNRS, Villefranche-sur-Mer, 06230, France
Paolo Lazzari
National Institute of Oceanography and Applied Geophysics – OGS, Trieste, 34010, Italy
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Stefano Salon, Gianpiero Cossarini, Giorgio Bolzon, Laura Feudale, Paolo Lazzari, Anna Teruzzi, Cosimo Solidoro, and Alessandro Crise
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André Valente, Shubha Sathyendranath, Vanda Brotas, Steve Groom, Michael Grant, Malcolm Taberner, David Antoine, Robert Arnone, William M. Balch, Kathryn Barker, Ray Barlow, Simon Bélanger, Jean-François Berthon, Şükrü Beşiktepe, Yngve Borsheim, Astrid Bracher, Vittorio Brando, Elisabetta Canuti, Francisco Chavez, Andrés Cianca, Hervé Claustre, Lesley Clementson, Richard Crout, Robert Frouin, Carlos García-Soto, Stuart W. Gibb, Richard Gould, Stanford B. Hooker, Mati Kahru, Milton Kampel, Holger Klein, Susanne Kratzer, Raphael Kudela, Jesus Ledesma, Hubert Loisel, Patricia Matrai, David McKee, Brian G. Mitchell, Tiffany Moisan, Frank Muller-Karger, Leonie O'Dowd, Michael Ondrusek, Trevor Platt, Alex J. Poulton, Michel Repecaud, Thomas Schroeder, Timothy Smyth, Denise Smythe-Wright, Heidi M. Sosik, Michael Twardowski, Vincenzo Vellucci, Kenneth Voss, Jeremy Werdell, Marcel Wernand, Simon Wright, and Giuseppe Zibordi
Earth Syst. Sci. Data, 11, 1037–1068, https://doi.org/10.5194/essd-11-1037-2019, https://doi.org/10.5194/essd-11-1037-2019, 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.
Liliane Merlivat, Jacqueline Boutin, David Antoine, Laurence Beaumont, Melek Golbol, and Vincenzo Vellucci
Biogeosciences, 15, 5653–5662, https://doi.org/10.5194/bg-15-5653-2018, https://doi.org/10.5194/bg-15-5653-2018, 2018
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The fugacity of carbon dioxide in seawater (fCO2) was measured hourly in the surface waters of the NW Mediterranean Sea during two 3-year sequences separated by 18 years. A decrease of pH of 0.0022 yr−1 was computed. About 85 % of the accumulation of dissolved inorganic carbon (DIC) comes from chemical equilibration with increasing atmospheric CO2; the remaining 15 % accumulation is consistent with estimates of transfer of Atlantic waters through the Gibraltar Strait.
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).
Momme Butenschön, James Clark, John N. Aldridge, Julian Icarus Allen, Yuri Artioli, Jeremy Blackford, Jorn Bruggeman, Pierre Cazenave, Stefano Ciavatta, Susan Kay, Gennadi Lessin, Sonja van Leeuwen, Johan van der Molen, Lee de Mora, Luca Polimene, Sevrine Sailley, Nicholas Stephens, and Ricardo Torres
Geosci. Model Dev., 9, 1293–1339, https://doi.org/10.5194/gmd-9-1293-2016, https://doi.org/10.5194/gmd-9-1293-2016, 2016
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ERSEM 15.06 is a model for marine biogeochemistry and the lower trophic levels of the marine food web. It comprises a pelagic and benthic sub-model including the microbial food web and the major biogeochemical cycles of carbon, nitrogen, phosphorus, silicate, and iron using dynamic stochiometry. Further features include modules for the carbonate system and calcification. We present full mathematical descriptions of all elements along with examples at various scales up to 3-D applications.
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
Biogeochemistry: Bio-Optics
Estimating the seasonal impact of optically significant water constituents on surface heating rates in the western Baltic Sea
Variability of light absorption coefficients by different size fractions of suspensions in the southern Baltic Sea
Spatial and temporal dynamics of suspended sediment concentrations in coastal waters of the South China Sea, off Sarawak, Borneo: ocean colour remote sensing observations and analysis
Comment on “Fundamental molecules of life are pigments which arose and co-evolved as a response to the thermodynamic imperative of dissipating the prevailing solar spectrum” by K. Michaelian and A. Simeonov (2015)
A limited effect of sub-tropical typhoons on phytoplankton dynamics
The suspended small-particle layer in the oxygen-poor Black Sea: a proxy for delineating the effective N2-yielding section
Diel quenching of Southern Ocean phytoplankton fluorescence is related to iron limitation
A global end-member approach to derive aCDOM(440) from near-surface optical measurements
Floodwater impact on Galveston Bay phytoplankton taxonomy, pigment composition and photo-physiological state following Hurricane Harvey from field and ocean color (Sentinel-3A OLCI) observations
Diurnal regulation of photosynthetic light absorption, electron transport and carbon fixation in two contrasting oceanic environments
Bio-optical characterization of subsurface chlorophyll maxima in the Mediterranean Sea from a Biogeochemical-Argo float database
Carbon Flux Explorer optical assessment of C, N and P fluxes
Phytoplankton size class in the East China Sea derived from MODIS satellite data
An estuarine-tuned quasi-analytical algorithm (QAA-V): assessment and application to satellite estimates of SPM in Galveston Bay following Hurricane Harvey
Remote sensing of canopy nitrogen at regional scale in Mediterranean forests using the spaceborne MERIS Terrestrial Chlorophyll Index
Modelling ocean-colour-derived chlorophyll a
Optical properties of size fractions of suspended particulate matter in littoral waters of Québec
Methods to retrieve the complex refractive index of aquatic suspended particles: going beyond simple shapes
Changes in optical characteristics of surface microlayers hint to photochemically and microbially mediated DOM turnover in the upwelling region off the coast of Peru
Quantifying the biological impact of surface ocean light attenuation by colored detrital matter in an ESM using a new optical parameterization
Monitoring seasonal and diurnal changes in photosynthetic pigments with automated PRI and NDVI sensors
Autonomous profiling float observations of the high-biomass plume downstream of the Kerguelen Plateau in the Southern Ocean
A simple optical index shows spatial and temporal heterogeneity in phytoplankton community composition during the 2008 North Atlantic Bloom Experiment
Ocean colour remote sensing in the southern Laptev Sea: evaluation and applications
Multidecadal time series of satellite-detected accumulations of cyanobacteria in the Baltic Sea
Absorption and fluorescence properties of chromophoric dissolved organic matter of the eastern Bering Sea in the summer with special reference to the influence of a cold pool
A synthesis of light absorption properties of the Arctic Ocean: application to semianalytical estimates of dissolved organic carbon concentrations from space
Influence of the Changjiang River on the light absorption properties of phytoplankton from the East China Sea
On the consistency of MODIS chlorophyll $a$ products in the northern South China Sea
Contribution to a bio-optical model for remote sensing of Lena River water
Light absorption and partitioning in Arctic Ocean surface waters: impact of multiyear ice melting
Biogeochemical origins of particles obtained from the inversion of the volume scattering function and spectral absorption in coastal waters
Apparent optical properties of the Canadian Beaufort Sea – Part 1: Observational overview and water column relationships
Apparent optical properties of the Canadian Beaufort Sea – Part 2: The 1% and 1 cm perspective in deriving and validating AOP data products
Increasing cloudiness in Arctic damps the increase in phytoplankton primary production due to sea ice receding
Estimating absorption coefficients of colored dissolved organic matter (CDOM) using a semi-analytical algorithm for southern Beaufort Sea waters: application to deriving concentrations of dissolved organic carbon from space
Variations of net primary productivity and phytoplankton community composition in the Indian sector of the Southern Ocean as estimated from ocean color remote sensing data
Spectroscopic detection of a ubiquitous dissolved pigment degradation product in subsurface waters of the global ocean
Remote sensing of coccolithophore blooms in selected oceanic regions using the PhytoDOAS method applied to hyper-spectral satellite data
Tracing the transport of colored dissolved organic matter in water masses of the Southern Beaufort Sea: relationship with hydrographic characteristics
Bio-optical provinces in the eastern Atlantic Ocean and their biogeographical relevance
Inferring phytoplankton carbon and eco-physiological rates from diel cycles of spectral particulate beam-attenuation coefficient
Characterization of the bio-optical anomaly and diurnal variability of particulate matter, as seen from scattering and backscattering coefficients, in ultra-oligotrophic eddies of the Mediterranean Sea
MODIS observed phytoplankton dynamics in the Taiwan Strait: an absorption-based analysis
Global variability of phytoplankton functional types from space: assessment via the particle size distribution
Optical Characterization of an Eddy-induced Diatom Bloom West of the Island of Hawaii
The dissolved yellow substance and the shades of blue in the Mediterranean Sea
Bronwyn E. Cahill, Piotr Kowalczuk, Lena Kritten, Ulf Gräwe, John Wilkin, and Jürgen Fischer
Biogeosciences, 20, 2743–2768, https://doi.org/10.5194/bg-20-2743-2023, https://doi.org/10.5194/bg-20-2743-2023, 2023
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We quantify the impact of optically significant water constituents on surface heating rates and thermal energy fluxes in the western Baltic Sea. During productive months in 2018 (April to September) we found that the combined effect of coloured
dissolved organic matter and particulate absorption contributes to sea surface heating of between 0.4 and 0.9 K m−1 d−1 and a mean loss of heat (ca. 5 W m−2) from the sea to the atmosphere. This may be important for regional heat balance budgets.
Justyna Meler, Dagmara Litwicka, and Monika Zabłocka
Biogeosciences, 20, 2525–2551, https://doi.org/10.5194/bg-20-2525-2023, https://doi.org/10.5194/bg-20-2525-2023, 2023
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We present a variability of absorption properties by different size fractions of particles suspended in the Baltic Sea waters. The light absorption coefficient by all suspended particles (ap), detritus (ad) and phytoplankton (aph) was determined for four size fractions: pico-particles, ultra-particles, nano-particles and micro-particles. We have shown the proportions of particles from the size classes (micro-, nano-, ultra- and pico-particles) in the total ap, ad and aph.
Jenny Choo, Nagur Cherukuru, Eric Lehmann, Matt Paget, Aazani Mujahid, Patrick Martin, and Moritz Müller
Biogeosciences, 19, 5837–5857, https://doi.org/10.5194/bg-19-5837-2022, https://doi.org/10.5194/bg-19-5837-2022, 2022
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This study presents the first observation of water quality changes over space and time in the coastal systems of Sarawak, Malaysian Borneo, using remote sensing technologies. While our findings demonstrate that the southwestern coast of Sarawak is within local water quality standards, historical patterns of water quality degradation that were detected can help to alert local authorities and enhance management and monitoring strategies of coastal waters in this region.
Lars Olof Björn
Biogeosciences, 19, 1013–1019, https://doi.org/10.5194/bg-19-1013-2022, https://doi.org/10.5194/bg-19-1013-2022, 2022
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The origin and evolution of life do not contradict the laws of thermodynamics, but we have no proof that it is an inevitable consequence of these laws. We do not know if the first life arose under illumination or in darkness in the deep ocean or in the Earth's crust. We have no proof that it arose due to a
thermodynamic imperative of dissipating the prevailing solar spectrum, as there are other ways for entropy increase in solar radiation. The biosphere may instead delay entropy production.
Fei Chai, Yuntao Wang, Xiaogang Xing, Yunwei Yan, Huijie Xue, Mark Wells, and Emmanuel Boss
Biogeosciences, 18, 849–859, https://doi.org/10.5194/bg-18-849-2021, https://doi.org/10.5194/bg-18-849-2021, 2021
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The unique observations by a Biogeochemical Argo float in the NW Pacific Ocean captured the impact of a super typhoon on upper-ocean physical and biological processes. Our result reveals typhoons can increase the surface chlorophyll through strong vertical mixing without bringing nutrients upward from the depth. The vertical redistribution of chlorophyll contributes little to enhance the primary production, which is contradictory to many former satellite-based studies related to this topic.
Rafael Rasse, Hervé Claustre, and Antoine Poteau
Biogeosciences, 17, 6491–6505, https://doi.org/10.5194/bg-17-6491-2020, https://doi.org/10.5194/bg-17-6491-2020, 2020
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Here, data collected by BGC-Argo floats are used to investigate the origin of the suspended small-particle layer inferred from optical sensors in the oxygen-poor Black Sea. Our results suggest that this layer is at least partially composed of the microbial communities that produce dinitrogen. We propose that oxygen and the optically derived small-particle layer can be used in combination to refine delineation of the effective N2-yielding section of the Black Sea and oxygen-deficient zones.
Christina Schallenberg, Robert F. Strzepek, Nina Schuback, Lesley A. Clementson, Philip W. Boyd, and Thomas W. Trull
Biogeosciences, 17, 793–812, https://doi.org/10.5194/bg-17-793-2020, https://doi.org/10.5194/bg-17-793-2020, 2020
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Measurements of phytoplankton health still require the use of research vessels and are thus costly and sparse. In this paper we propose a new way to assess the health of phytoplankton using simple fluorescence measurements, which can be made autonomously. In the Southern Ocean, where the most limiting nutrient for phytoplankton is iron, we found a relationship between iron limitation and the depression of fluorescence under high light, the so-called non-photochemical quenching of fluorescence.
Stanford B. Hooker, Atsushi Matsuoka, Raphael M. Kudela, Youhei Yamashita, Koji Suzuki, and Henry F. Houskeeper
Biogeosciences, 17, 475–497, https://doi.org/10.5194/bg-17-475-2020, https://doi.org/10.5194/bg-17-475-2020, 2020
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A Kd(λ) and aCDOM(440) data set spanned oceanic, coastal, and inland waters. The algorithmic approach, based on Kd end-member pairs, can be used globally. End-members with the largest spectral span had an accuracy of 1.2–2.4 % (RMSE). Validation was influenced by subjective
nonconservativewater masses. The influence of subcategories was confirmed with an objective cluster analysis.
Bingqing Liu, Eurico J. D'Sa, and Ishan D. Joshi
Biogeosciences, 16, 1975–2001, https://doi.org/10.5194/bg-16-1975-2019, https://doi.org/10.5194/bg-16-1975-2019, 2019
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An approach using bio-optical field and ocean color (Sentinel-3A OLCI) data combined with inversion models allowed for the first time an assessment of phytoplankton response (changes in taxonomy, pigment composition and physiological state) to a large hurricane-related floodwater perturbation in a turbid estuary. The study revealed the transition in phytoplankton community species as well as the spatiotemporal distributions of phytoplankton diagnostic pigments in the floodwater-impacted bay.
Nina Schuback and Philippe D. Tortell
Biogeosciences, 16, 1381–1399, https://doi.org/10.5194/bg-16-1381-2019, https://doi.org/10.5194/bg-16-1381-2019, 2019
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Understanding the dynamics of primary productivity requires mechanistic insight into the coupling of light absorption, electron transport and carbon fixation in response to environmental variability. Measuring such rates over diurnal timescales in contrasting regions allowed us to gain information on the regulation of photosynthetic efficiencies, with implications for the interpretation of bio-optical data, and the parameterization of models needed to monitor productivity over large scales.
Marie Barbieux, Julia Uitz, Bernard Gentili, Orens Pasqueron de Fommervault, Alexandre Mignot, Antoine Poteau, Catherine Schmechtig, Vincent Taillandier, Edouard Leymarie, Christophe Penkerc'h, Fabrizio D'Ortenzio, Hervé Claustre, and Annick Bricaud
Biogeosciences, 16, 1321–1342, https://doi.org/10.5194/bg-16-1321-2019, https://doi.org/10.5194/bg-16-1321-2019, 2019
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As commonly observed in oligotrophic stratified waters, a subsurface (or deep) chlorophyll maximum (SCM) frequently characterizes the vertical distribution of phytoplankton chlorophyll in the Mediterranean Sea. SCMs often result from photoacclimation of the phytoplankton organisms. However they can also result from an actual increase in phytoplankton carbon biomass. Our results also suggest that a variety of intermediate types of SCMs are encountered between these two endmember situations.
Hannah L. Bourne, James K. B. Bishop, Todd J. Wood, Timothy J. Loew, and Yizhuang Liu
Biogeosciences, 16, 1249–1264, https://doi.org/10.5194/bg-16-1249-2019, https://doi.org/10.5194/bg-16-1249-2019, 2019
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The biological carbon pump, the process by which carbon-laden particles sink out of the surface ocean, is dynamic and fast. The use of autonomous observations will better inform carbon export simulations. The Carbon Flux Explorer (CFE) was developed to optically measure hourly variations of particle flux. We calibrate the optical measurements of the CFE against C and N flux using samples collected during a coastal California cruise in June 2017. Our results yield well-correlated calibrations.
Hailong Zhang, Shengqiang Wang, Zhongfeng Qiu, Deyong Sun, Joji Ishizaka, Shaojie Sun, and Yijun He
Biogeosciences, 15, 4271–4289, https://doi.org/10.5194/bg-15-4271-2018, https://doi.org/10.5194/bg-15-4271-2018, 2018
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The PSC model was re-tuned for regional application in the East China Sea, and successfully applied to MODIS data. We investigated previously unknown temporal–spatial patterns of the PSC in the ECS and analyzed their responses to environmental factors. The results show the PSC varied across both spatial and temporal scales, and was probably affected by the water column stability, upwelling, and Kuroshio. In addition, human activity and riverine discharge may impact the PSC dynamics.
Ishan D. Joshi and Eurico J. D'Sa
Biogeosciences, 15, 4065–4086, https://doi.org/10.5194/bg-15-4065-2018, https://doi.org/10.5194/bg-15-4065-2018, 2018
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The standard quasi-analytical algorithm (QAA) was tuned for various ocean color sensors as QAA-V and optimized for and evaluated in a variety of waters from highly absorbing and turbid to relatively clear shelf waters. The QAA-V-derived optical properties of total absorption and backscattering coefficients showed an obvious improvement when compared to the standard QAA and were used to examine suspended particulate matter dynamics in Galveston Bay following flooding due to Hurricane Harvey.
Yasmina Loozen, Karin T. Rebel, Derek Karssenberg, Martin J. Wassen, Jordi Sardans, Josep Peñuelas, and Steven M. De Jong
Biogeosciences, 15, 2723–2742, https://doi.org/10.5194/bg-15-2723-2018, https://doi.org/10.5194/bg-15-2723-2018, 2018
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Nitrogen (N) is an essential nutrient for plant growth. It would be interesting to detect it using satellite data. The goal was to investigate if it is possible to remotely sense the canopy nitrogen concentration and content of Mediterranean trees using a product calculated from satellite reflectance data, the MERIS Terrestrial Chlorophyll Index (MTCI). The tree plots were located in Catalonia, NE Spain. The relationship between MTCI and canopy N was present but dependent on the type of trees.
Stephanie Dutkiewicz, Anna E. Hickman, and Oliver Jahn
Biogeosciences, 15, 613–630, https://doi.org/10.5194/bg-15-613-2018, https://doi.org/10.5194/bg-15-613-2018, 2018
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This study provides a demonstration that a biogeochemical/ecosystem/optical computer model which explicitly captures how light is radiated at the surface of the ocean and can be used as a laboratory to explore products (such as Chl a) that are derived from satellite measurements of ocean colour. It explores uncertainties that arise from data input used to derive the algorithms for the products, and issues arising from the interplay between optically important constituents in the ocean.
Gholamreza Mohammadpour, Jean-Pierre Gagné, Pierre Larouche, and Martin A. Montes-Hugo
Biogeosciences, 14, 5297–5312, https://doi.org/10.5194/bg-14-5297-2017, https://doi.org/10.5194/bg-14-5297-2017, 2017
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The mass-specific absorption coefficients of total suspended particulate matter (aSPM*) had relatively low (high) values in areas of of the St. Lawrence Estuary influenced by marine (freshwater) waters and dominated by large-sized (small-sized) and organic-rich (mineral-rich) particulates.
The inorganic content of particulates was correlated with size-fractionated aSPM* values at a wavelength of 440 nm and the spectral slope of aSPM* as computed within the spectral range 400–710 nm.
Albert-Miquel Sánchez and Jaume Piera
Biogeosciences, 13, 4081–4098, https://doi.org/10.5194/bg-13-4081-2016, https://doi.org/10.5194/bg-13-4081-2016, 2016
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In this paper, several methods for the retrieval of the refractive indices are used in three different examples modeling different shapes and particle size distributions. The error associated with each method is discussed and analyzed. It is finally demonstrated that those inverse methods using a genetic algorithm provide optimal estimations relative to other techniques that, although faster, are less accurate.
Luisa Galgani and Anja Engel
Biogeosciences, 13, 2453–2473, https://doi.org/10.5194/bg-13-2453-2016, https://doi.org/10.5194/bg-13-2453-2016, 2016
G. E. Kim, M.-A. Pradal, and A. Gnanadesikan
Biogeosciences, 12, 5119–5132, https://doi.org/10.5194/bg-12-5119-2015, https://doi.org/10.5194/bg-12-5119-2015, 2015
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Light absorption by colored detrital material (CDM) was included in a fully coupled Earth system model. Chlorophyll and biomass increased near the surface but decreased at greater depths when CDM was included. Concurrently, total biomass decreased leaving more nutrients in the water. Regional changes were analyzed by comparing the competing factors of diminished light availability and increased nutrient availability on phytoplankton growth.
J. A. Gamon, O. Kovalchuck, C. Y. S. Wong, A. Harris, and S. R. Garrity
Biogeosciences, 12, 4149–4159, https://doi.org/10.5194/bg-12-4149-2015, https://doi.org/10.5194/bg-12-4149-2015, 2015
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NDVI and PRI sensors (SRS, Decagon Inc.) exhibited complementary responses during spring photosynthetic activation in evergreen and deciduous stands. In evergreens, PRI was most strongly influenced by changing chlorophyll:carotenoid pool sizes over the several weeks of the study, while it was most affected by xanthophyll cycle pigment activity at the diurnal timescale. These automated PRI and NDVI sensors offer new ways to explore environmental and physiological constraints on photosynthesis.
M. Grenier, A. Della Penna, and T. W. Trull
Biogeosciences, 12, 2707–2735, https://doi.org/10.5194/bg-12-2707-2015, https://doi.org/10.5194/bg-12-2707-2015, 2015
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Four bio-profilers were deployed in the high-biomass plume downstream of the Kerguelen Plateau (KP; Southern Ocean) to examine the conditions favouring phytoplankton accumulation. Regions of very high Chla accumulation were mainly associated with surface waters from the northern KP. Light limitation seems to have a limited influence on production. A cyclonic eddy was associated with a significant export of organic matter and a subsequent dissolved inorganic carbon storage in the ocean interior.
I. Cetinić, M. J. Perry, E. D'Asaro, N. Briggs, N. Poulton, M. E. Sieracki, and C. M. Lee
Biogeosciences, 12, 2179–2194, https://doi.org/10.5194/bg-12-2179-2015, https://doi.org/10.5194/bg-12-2179-2015, 2015
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The ratio of simple optical properties measured from underwater autonomous platforms, such as floats and gliders, is used as a new tool for studying phytoplankton distribution in the North Atlantic Ocean. The resolution that optical instruments carried by autonomous platforms provide allows us to study phytoplankton patchiness and its drivers in the oceanic systems.
B. Heim, E. Abramova, R. Doerffer, F. Günther, J. Hölemann, A. Kraberg, H. Lantuit, A. Loginova, F. Martynov, P. P. Overduin, and C. Wegner
Biogeosciences, 11, 4191–4210, https://doi.org/10.5194/bg-11-4191-2014, https://doi.org/10.5194/bg-11-4191-2014, 2014
M. Kahru and R. Elmgren
Biogeosciences, 11, 3619–3633, https://doi.org/10.5194/bg-11-3619-2014, https://doi.org/10.5194/bg-11-3619-2014, 2014
E. J. D'Sa, J. I. Goes, H. Gomes, and C. Mouw
Biogeosciences, 11, 3225–3244, https://doi.org/10.5194/bg-11-3225-2014, https://doi.org/10.5194/bg-11-3225-2014, 2014
A. Matsuoka, M. Babin, D. Doxaran, S. B. Hooker, B. G. Mitchell, S. Bélanger, and A. Bricaud
Biogeosciences, 11, 3131–3147, https://doi.org/10.5194/bg-11-3131-2014, https://doi.org/10.5194/bg-11-3131-2014, 2014
S. Q. Wang, J. Ishizaka, H. Yamaguchi, S. C. Tripathy, M. Hayashi, Y. J. Xu, Y. Mino, T. Matsuno, Y. Watanabe, and S. J. Yoo
Biogeosciences, 11, 1759–1773, https://doi.org/10.5194/bg-11-1759-2014, https://doi.org/10.5194/bg-11-1759-2014, 2014
S. L. Shang, Q. Dong, C. M. Hu, G. Lin, Y. H. Li, and S. P. Shang
Biogeosciences, 11, 269–280, https://doi.org/10.5194/bg-11-269-2014, https://doi.org/10.5194/bg-11-269-2014, 2014
H. Örek, R. Doerffer, R. Röttgers, M. Boersma, and K. H. Wiltshire
Biogeosciences, 10, 7081–7094, https://doi.org/10.5194/bg-10-7081-2013, https://doi.org/10.5194/bg-10-7081-2013, 2013
S. Bélanger, S. A. Cizmeli, J. Ehn, A. Matsuoka, D. Doxaran, S. Hooker, and M. Babin
Biogeosciences, 10, 6433–6452, https://doi.org/10.5194/bg-10-6433-2013, https://doi.org/10.5194/bg-10-6433-2013, 2013
X. Zhang, Y. Huot, D. J. Gray, A. Weidemann, and W. J. Rhea
Biogeosciences, 10, 6029–6043, https://doi.org/10.5194/bg-10-6029-2013, https://doi.org/10.5194/bg-10-6029-2013, 2013
D. Antoine, S. B. Hooker, S. Bélanger, A. Matsuoka, and M. Babin
Biogeosciences, 10, 4493–4509, https://doi.org/10.5194/bg-10-4493-2013, https://doi.org/10.5194/bg-10-4493-2013, 2013
S. B. Hooker, J. H. Morrow, and A. Matsuoka
Biogeosciences, 10, 4511–4527, https://doi.org/10.5194/bg-10-4511-2013, https://doi.org/10.5194/bg-10-4511-2013, 2013
S. Bélanger, M. Babin, and J.-É. Tremblay
Biogeosciences, 10, 4087–4101, https://doi.org/10.5194/bg-10-4087-2013, https://doi.org/10.5194/bg-10-4087-2013, 2013
A. Matsuoka, S. B. Hooker, A. Bricaud, B. Gentili, and M. Babin
Biogeosciences, 10, 917–927, https://doi.org/10.5194/bg-10-917-2013, https://doi.org/10.5194/bg-10-917-2013, 2013
S. Takao, T. Hirawake, S. W. Wright, and K. Suzuki
Biogeosciences, 9, 3875–3890, https://doi.org/10.5194/bg-9-3875-2012, https://doi.org/10.5194/bg-9-3875-2012, 2012
R. Röttgers and B. P. Koch
Biogeosciences, 9, 2585–2596, https://doi.org/10.5194/bg-9-2585-2012, https://doi.org/10.5194/bg-9-2585-2012, 2012
A. Sadeghi, T. Dinter, M. Vountas, B. Taylor, M. Altenburg-Soppa, and A. Bracher
Biogeosciences, 9, 2127–2143, https://doi.org/10.5194/bg-9-2127-2012, https://doi.org/10.5194/bg-9-2127-2012, 2012
A. Matsuoka, A. Bricaud, R. Benner, J. Para, R. Sempéré, L. Prieur, S. Bélanger, and M. Babin
Biogeosciences, 9, 925–940, https://doi.org/10.5194/bg-9-925-2012, https://doi.org/10.5194/bg-9-925-2012, 2012
B. B. Taylor, E. Torrecilla, A. Bernhardt, M. H. Taylor, I. Peeken, R. Röttgers, J. Piera, and A. Bracher
Biogeosciences, 8, 3609–3629, https://doi.org/10.5194/bg-8-3609-2011, https://doi.org/10.5194/bg-8-3609-2011, 2011
G. Dall'Olmo, E. Boss, M. J. Behrenfeld, T. K. Westberry, C. Courties, L. Prieur, M. Pujo-Pay, N. Hardman-Mountford, and T. Moutin
Biogeosciences, 8, 3423–3439, https://doi.org/10.5194/bg-8-3423-2011, https://doi.org/10.5194/bg-8-3423-2011, 2011
H. Loisel, V. Vantrepotte, K. Norkvist, X. Mériaux, M. Kheireddine, J. Ras, M. Pujo-Pay, Y. Combet, K. Leblanc, G. Dall'Olmo, R. Mauriac, D. Dessailly, and T. Moutin
Biogeosciences, 8, 3295–3317, https://doi.org/10.5194/bg-8-3295-2011, https://doi.org/10.5194/bg-8-3295-2011, 2011
S. Shang, Q. Dong, Z. Lee, Y. Li, Y. Xie, and M. Behrenfeld
Biogeosciences, 8, 841–850, https://doi.org/10.5194/bg-8-841-2011, https://doi.org/10.5194/bg-8-841-2011, 2011
T. S. Kostadinov, D. A. Siegel, and S. Maritorena
Biogeosciences, 7, 3239–3257, https://doi.org/10.5194/bg-7-3239-2010, https://doi.org/10.5194/bg-7-3239-2010, 2010
F. Nencioli, G. Chang, M. Twardowski, and T. D. Dickey
Biogeosciences, 7, 151–162, https://doi.org/10.5194/bg-7-151-2010, https://doi.org/10.5194/bg-7-151-2010, 2010
A. Morel and B. Gentili
Biogeosciences, 6, 2625–2636, https://doi.org/10.5194/bg-6-2625-2009, https://doi.org/10.5194/bg-6-2625-2009, 2009
Cited articles
Aas, E.: Two-stream irradiance model for deep waters, Appl. Opt., 26, 2095–2101, https://doi.org/10.1364/AO.26.002095, 1987.
Ackleson, S. G., Balch, W. M., and Holligan, P. M.: Response of water-leaving radiance to particulate calcite and chlorophyll a concentrations: a model for Gulf of Maine coccolithophore blooms, J. Geophys. Res., 99, 7483–7500, https://doi.org/10.1029/93JC02150, 1994.
Álvarez, E., Lazzari, P., and Cossarini, G.: Phytoplankton diversity emerging from chromatic adaptation and competition for light, Prog. Oceanogr., 204, 102789, https://doi.org/10.1016/j.pocean.2022.102789, 2022.
Álvarez, E.: Setup of GOTM-FABM-BFM for 1D simulations at the BOUSSOLE site (v1.0.0), Zenodo [code], https://doi.org/10.5281/zenodo.10067424, 2023a.
Álvarez, E.: Results set of GOTM-FABM-BFM 1D simulations at the BOUSSOLE site, Zenodo, [data set], https://doi.org/10.5281/zenodo.7628060, 2023b.
Álvarez, E.: Scripts for data analysis and visualization of GOTM-FABM-BFM simulations at the BOUSSOLE site. Zenodo, [data set], https://doi.org/10.5281/zenodo.10068885, 2023c.
Álvarez, E., Teruzzi, A., Lazzari, P., Cossarini, G., and Bruggeman, J.: Biogeochemical Flux Model (BFM) for FABM (1.0). Zenodo [code], https://doi.org/10.5281/zenodo.10075551, 2023.
Antoine, D. and Vellucci, V.: BOUSSOLE project: HPLC dataset, [data set], http://www.obs-vlfr.fr/Boussole/html/boussole_data/other_useful_files.php (last access: 29 November 2022), 2022.
Antoine, D., Chami, M., Claustre, H., D'Ortenzio, F., Morel, A., Bécu, G., Gentili, B., Louis, F., Ras, J., Roussier, E., Scott, A. J., Tailliez, D., Hooker, S. B., Guevel, P., Desté, J. F., Dempsey, C., and Adams, D.: BOUSSOLE: A Joint CNRS-INSU, ESA, CNES and NASA Ocean Color Calibration and Validation Activity, NASA Technical Memorandum No. 2006, 214147, Greenbelt, 2006.
Arhonditsis, G. B. and Brett, M. T.: Evaluation of the current state of mechanistic biogeochemical modeling, Mar. Ecol. Prog. Ser., 271, 13–26, https://doi.org/10.3354/meps271013, 2004.
Avril, B.: DOC dynamics in the northwestern Mediterranean Sea (DYFAMED site), Deep-Sea Res. Pt. II, 49, 2163–2182, https://doi.org/10.1016/S0967-0645(02)00033-4, 2002.
Azam, F., Fenchel, T., Field, J. G., Gray, J. C., Meyer-Reil, L. A., and Thingstad, F.: The ecological role of water-column microbes in the sea, Mar. Ecol. Prog. Ser., 10, 257–264, https://doi.org/10.3354/meps010257, 1983.
Babin, M., Morel, A., Claustre, H., Bricaud, A., Kolber, Z., and Falkowski, P. G.: Nitrogen- and irradiance-dependent variations of the maximum quantum yield of carbon fixation in eutrophic, mesotrophic and oligotrophic marine systems, Deep-Sea Res. Pt. I, 43, 1241–1272, https://doi.org/10.1016/0967-0637(96)00058-1, 1996.
Barbieux, M., Uitz, J., Mignot, A., Roesler, C., Claustre, H., Gentili, B., Taillandier, V., D'Ortenzio, F., Loisel, H., Poteau, A., Leymarie, E., Penkerc'h, C., Schmechtig, C., and Bricaud, A.: Biological production in two contrasted regions of the Mediterranean Sea during the oligotrophic period: an estimate based on the diel cycle of optical properties measured by BioGeoChemical-Argo profiling floats, Biogeosciences, 19, 1165–1194, https://doi.org/10.5194/bg-19-1165-2022, 2022.
Barnes, M. and Antoine, D.: Proxies of community production derived from the diel variability of particulate attenuation and backscattering coefficients in the northwest Mediterranean Sea, Limnol. Oceanogr., 59, 2133–2149, https://doi.org/10.4319/lo.2014.59.6.2133, 2014.
Bayle, S., Monestiez, P., Guinet, C., and Nerini, D.: Moving toward finer scales in oceanography: Predictive linear functional model of Chlorophyll a profile from light data, Prog. Oceanogr., 134, 221–231, https://doi.org/10.1016/j.pocean.2015.02.001, 2015.
Berthon, J.-F. and Zibordi, G.: Bio-optical relationships for the northern Adriatic Sea, Int. J. Remote Sens., 25, 1527–1532, https://doi.org/10.1080/01431160310001592544, 2004.
Bidigare, R. R., Ondrusek, M. E., Morrow, J. H., and Kiefer, D. A.: In vivo absorption properties of algal pigments, in: Proc. SPIE 1302, Ocean Optics X, https://doi.org/10.1117/12.21451, 1990.
Bissett, W. P., Walsh, J. J., Dieterle, D. A., and Carder, K. L.: Carbon cycling in the upper waters of the Sargasso Sea: I. Numerical simulation of differential carbon and nitrogen fluxes, Deep-Sea Res. Pt. I, 46, 205–269, https://doi.org/10.1016/S0967-0637(98)00062-4, 1999.
Bisson, K. M., Boss, E., Werdell, P. J., Ibrahim, A., Frouin, R., and Behrenfeld, M. J.: Seasonal bias in global ocean color observations, Appl. Opt., 60, 6978, https://doi.org/10.1364/AO.426137, 2021.
Blum, M., Rozanov, V. V, Burrows, J. P., and Bracher, A.: Coupled ocean-atmosphere radiative transfer model in the framework of software package SCIATRAN: Selected comparisons to model and satellite data, Adv. Space Res., 49, 1728–1742, https://doi.org/10.1016/j.asr.2012.02.012, 2012.
Bolding, K., Bruggeman, J., Burchard, H., and Umlauf, L.: General Ocean Turbulence Model – GOTM (v6.0.2), Zenodo [code], https://doi.org/10.5281/zenodo.4896611, 2021.
Bruggeman, J. and Bolding, K.: Framework for Aquatic Biogeochemical Models (v2.0.0). Zenodo [code], https://doi.org/10.5281/zenodo.8424553, 2023.
de Boyer Montégut, C., Madec, G., Fischer, A. S., Lazar, A., and Iudicone, D.: Mixed layer depth over the global ocean: An examination of profile data and a profile-based climatology, J. Geophys. Res.-Oceans, 109, 1–20, https://doi.org/10.1029/2004JC002378, 2004.
Bracchini, L., Tognazzi, A., Dattilo, A. M., Decembrini, F., Rossi, C., and Loiselle, S. A.: Sensitivity analysis of CDOM spectral slope in artificial and natural samples: an application in the central eastern Mediterranean Basin, Aquat. Sci., 72, 485–498, https://doi.org/10.1007/s00027-010-0150-y, 2010.
Bricaud, A. and Stramski, D.: Spectral absorption coefficients of living phytoplankton and nonalgal biogenous matter: A comparison between the Peru upwelling areaand the Sargasso Sea, Limnol. Oceanogr., 35, 562–582, https://doi.org/10.4319/lo.1990.35.3.0562, 1990.
Bricaud, A., Babin, M., Claustre, H., Ras, J., and Tièche, F.: Light absorption properties and absorption budget of Southeast Pacific waters, J. Geophys. Res., 115, 1–19, https://doi.org/10.1029/2009JC005517, 2010.
Bruggeman, J. and Bolding, K.: A general framework for aquatic biogeochemical models, Environ. Modell Softw., 61, 249–265, https://doi.org/10.1016/j.envsoft.2014.04.002, 2014.
Bruggeman, J. and Bolding, K.: parsac: parallel sensitivity analysis and calibration (0.5.7), https://doi.org/10.5281/zenodo.4280520, 2020.
Burchard, H., Bolding, K., and Villarreal, M.: GOTM, a general ocean turbulence model: Theory, implementation and test cases, Report EUR 18745, 1999.
Catalá, T. S., Martínez-Pérez, A. M., Nieto-Cid, M., Álvarez, M., Otero, J., Emelianov, M., Reche, I., Arístegui, J., and Álvarez-Salgado, X. A.: Dissolved Organic Matter (DOM) in the open Mediterranean Sea, I. Basin–wide distribution and drivers of chromophoric DOM, Prog. Oceanogr., 165, 35–51, https://doi.org/10.1016/j.pocean.2018.05.002, 2018.
Ciavatta, S., Brewin, R. J. W., Skákala, J., Polimene, L., de Mora, L., Artioli, Y., and Allen, J. I.: Assimilation of Ocean-Color Plankton Functional Types to Improve Marine Ecosystem Simulations, J. Geophys. Res.-Oceans, 123, 834–854, https://doi.org/10.1002/2017JC013490, 2018.
Claustre, H., Morel, A., Hooker, S. B., Babin, M., Antoine, D., Oubelkheir, K., Bricaud, A., Leblanc, K., Quéguiner, B., and Maritorena, S.: Is desert dust making oligotrophic waters greener?, Geophys. Res. Lett., 29, 1071–1074, https://doi.org/10.1029/2001GL014056, 2002.
Coble, P. G.: Marine Optical Biogeochemistry The Chemistry of Ocean Color, Chem. Rev., 107, 402–418, https://doi.org/10.1021/cr050350+, 2007.
Copin-Montégut, G. and Avril, B.: Vertical distribution and temporal variation of dissolved organic carbon in the North-Western Mediterranean Sea, Deep-Sea Res. Pt. I, 40, 1963–1972, https://doi.org/10.1016/0967-0637(93)90041-Z, 1993.
Coppola, L., Diamond, R. E., and Carval, T.: Dyfamed observatory data, [data set] https://doi.org/10.17882/43749, 2021.
Cossarini, G., Feudale, L., Teruzzi, A., Bolzon, G., Coidessa, G., Solidoro, C., Di Biagio, V., Amadio, C., Lazzari, P., Brosich, A., and Salon, S.: High-Resolution Reanalysis of the Mediterranean Sea Biogeochemistry (1999–2019), Front. Mar. Sci., 8, 741486, https://doi.org/10.3389/fmars.2021.741486, 2021.
DeGrandpre, M. D., Vodacek, A., Nelson, R. K., Bruce, E. J., and Blough, N. V.: Seasonal seawater optical properties of the U.S. Middle Atlantic Bight, J. Geophys. Res.-Oceans, 101, 22727–22736, https://doi.org/10.1029/96JC01572, 1996.
D'Ortenzio, F., Antoine, D., and Marullo, S.: Satellite-driven modeling of the upper ocean mixed layer and air–sea CO2 flux in the Mediterranean Sea, Deep-Sea Res. Pt. I, 55, 405–434, https://doi.org/10.1016/j.dsr.2007.12.008, 2008.
Dutkiewicz, S., Hickman, A. E., Jahn, O., Gregg, W. W., Mouw, C. B., and Follows, M. J.: Capturing optically important constituents and properties in a marine biogeochemical and ecosystem model, Biogeosciences, 12, 4447–4481, https://doi.org/10.5194/bg-12-4447-2015, 2015.
E.U. Copernicus Marine Service Information: Mediterranean Sea Ocean Colour Plankton, Reflectance, Transparency and Optics MY L3 daily observations, [data set], https://doi.org/10.48670/moi-00299, 2022.
Falls, M., Bernardello, R., Castrillo, M., Acosta, M., Llort, J., and Galí, M.: Use of genetic algorithms for ocean model parameter optimisation: a case study using PISCES-v2_RC for North Atlantic particulate organic carbon, Geosci. Model Dev., 15, 5713–5737, https://doi.org/10.5194/gmd-15-5713-2022, 2022.
Fennel, K., Mattern, J. P., Doney, S. C., Bopp, L., Moore, A. M., Wang, B., and Yu, L.: Ocean biogeochemical modelling, Nat. Rev. Methods Primers, 2, 76, https://doi.org/10.1038/s43586-022-00154-2, 2022.
Frölicher, T. L., Rodgers, K. B., Stock, C. A., and Cheung, W. W. L.: Sources of uncertainties in 21st century projections of potential ocean ecosystem stressors, Global Biogeochem. Cy., 30, 1224–1243, https://doi.org/10.1002/2015GB005338, 2016.
Gallegos, C. L., Werdell, P. J., and McClain, C. R.: Long-term changes in light scattering in Chesapeake Bay inferred from Secchi depth, light attenuation, and remote sensing measurements, J. Geophys. Res.-Oceans, 116, 1–19, https://doi.org/10.1029/2011JC007160, 2011.
Galletti, Y., Gonnelli, M., Retelletti Brogi, S., Vestri, S., and Santinelli, C.: DOM dynamics in open waters of the Mediterranean Sea: New insights from optical properties, Deep-Sea Res. Pt. I, 144, 95–114, https://doi.org/10.1016/j.dsr.2019.01.007, 2019.
Gitelson, A., Karnieli, A., Goldman, N., Yacobi, Y. Z., and Mayo, M.: Chlorophyll estimation in the Southeastern Mediterranean using CZCS images: adaptation of an algorithm and its validation, J. Mar. Syst., 9, 183–290, https://doi.org/10.1016/S0924-7963(95)00047-X, 1996.
Golbol, M., Vellucci, V., and Antoine, D.: BOUSSOLE, https://doi.org/10.18142/1, 2000.
Gregg, W. W.: A Coupled Ocean–Atmosphere Radiative Model for Global Ocean Biogeochemical Model, NASA Technical Report Series on Global Modeling and Data Assimilation, NASA/TM- 2002-104606, 22, 2002.
Gregg, W. W. and Rousseaux, C. S.: Simulating PACE Global Ocean Radiances, Front. Mar. Sci., 4, 1–19, https://doi.org/10.3389/fmars.2017.00060, 2017.
Hickman, A. E., Dutkiewicz, S., Williams, R. G., and Follows, M. J.: Modelling the effects of chromatic adaptation on phytoplankton community structure in the oligotrophic ocean, Mar. Ecol. Prog. Ser., 406, 1–17, https://doi.org/10.3354/meps08588, 2010.
IOCCG: Synergy between Ocean Colour and Biogeochemical/Ecosystem Models, edited by: Dutkiewicz, S., International Ocean-Colour Coordinating Group (IOCCG), Dartmouth, NS, Canada, 184 pp., https://doi.org/10.25607/OBP-711, 2020.
Jerlov, N. G.: Optical studies of ocean waters, Rep. Swed. deep Sea Exped, 1947–1948, 3, 1–59, 1951.
Kaufman, D. E., Friedrichs, M. A. M., Hemmings, J. C. P., and Smith Jr., W. O.: Assimilating bio-optical glider data during a phytoplankton bloom in the southern Ross Sea, Biogeosciences, 15, 73–90, https://doi.org/10.5194/bg-15-73-2018, 2018.
Kriest, I., Sauerland, V., Khatiwala, S., Srivastav, A., and Oschlies, A.: Calibrating a global three-dimensional biogeochemical ocean model (MOPS-1.0), Geosci. Model Dev., 10, 127–154, https://doi.org/10.5194/gmd-10-127-2017, 2017.
Kuhn, A. M. and Fennel, K.: Evaluating ecosystem model complexity for the northwest North Atlantic through surrogate-based optimization, Ocean Model, 142, 101437, https://doi.org/10.1016/j.ocemod.2019.101437, 2019.
Lazzari, P.: Forward_Adjoint: three-stream solver (v1.0). Zenodo [code], https://doi.org/10.5281/zenodo.10075682, 2023.
Lazzari, P., Solidoro, C., Ibello, V., Salon, S., Teruzzi, A., Béranger, K., Colella, S., and Crise, A.: Seasonal and inter-annual variability of plankton chlorophyll and primary production in the Mediterranean Sea: a modelling approach, Biogeosciences, 9, 217–233, https://doi.org/10.5194/bg-9-217-2012, 2012.
Lazzari, P., Salon, S., Terzić, E., Gregg, W. W., D'Ortenzio, F., Vellucci, V., Organelli, E., and Antoine, D.: Assessment of the spectral downward irradiance at the surface of the Mediterranean Sea using the radiative Ocean-Atmosphere Spectral Irradiance Model (OASIM), Ocean Sci., 17, 675–697, https://doi.org/10.5194/os-17-675-2021, 2021a.
Lazzari, P., Álvarez, E., Terzić, E., Cossarini, G., Chernov, I., D'Ortenzio, F., and Organelli, E.: CDOM spatiotemporal variability in the Mediterranean Sea: a modelling study, J. Mar. Sci. Eng., 9, 176, https://doi.org/10.3390/jmse9020176, 2021b.
Lee, Z. P., Carder, K. L., and Arnone, R. A.: Deriving inherent optical properties from water color: a multiband quasi-analytical algorithm for optically deep waters, Appl. Opt., 41, 4957–4964, https://doi.org/10.1364/AO.41.005755, 2002.
Legendre, L., Rivkin, R. B., Weinbauer, M. G., Guidi, L., and Uitz, J.: The microbial carbon pump concept: Potential biogeochemical significance in the globally changing ocean, Prog. Oceanogr., 134, 432–450, https://doi.org/10.1016/j.pocean.2015.01.008, 2015.
Mattern, J. P. and Edwards, C. A.: Simple parameter estimation for complex models – Testing evolutionary techniques on 3-dimensional biogeochemical ocean models, J. Mar. Syst., 165, 139–152, https://doi.org/10.1016/j.jmarsys.2016.10.012, 2017.
Mélin, F. and Vantrepotte, V.: How optically diverse is the coastal ocean?, Remote Sens Environ, 160, 235–251, https://doi.org/10.1016/j.rse.2015.01.023, 2015.
Mignot, A., Claustre, H., D'Ortenzio, F., Xing, X., Poteau, A., and Ras, J.: From the shape of the vertical profile of in vivo fluorescence to Chlorophyll-a concentration, Biogeosciences, 8, 2391–2406, https://doi.org/10.5194/bg-8-2391-2011, 2011.
Mitchell, B. G.: Algorithms for determining the absorption coefficient of aquatic particulates using the quantitative filter technique (QFT), in: Ocean Optics X, 137–148, 1990.
Mitchell, B. G., Bricaud, A., Carder, K., Cleveland, J., Ferrari, G. M., Gould, R., Kahru, M., Kishino, M., Maske, H., Moisan, T., Moore, L., Nelson, N., Phinney, D., Reynolds, R. A., Sosik, H., Stramski, D., Tassan, S., Trees, C., Weidemann, A., Wieland, J. D., and Vodacek, A.: Determination of spectral absorption coefficients of particles, dissolved material and phytoplankton for discrete water samples, in: Ocean Optics Protocols For Satellite Ocean Color Sensor Validation, Revision 2. NASA Technical Memorandum 2000-209966, Chapter 12, 125–153, edited by: Fargion, G. S. and Mueller, J. L., NASA Goddard Space Flight Center, Greenbelt, Maryland, 2000.
Mopper, K. and Kieber, D. J.: Marine photochemistry and its impact on carbon cycling, in: The Effects of UV Radiation in the Marine Environment, edited by: De Mora, S., Demers, S., and Vernet, M., Cambridge University Press, 101–129, https://doi.org/10.1017/CBO9780511535444.005, 2000.
Morel, A.: Optical properties of pure water and pure sea water, in: Optical Aspects of Oceanography, edited by: Jerlov, N. G. and Nielson, E. S., Academic Press, New York, 1–24, 1974.
Morel, A. and Gentili, B.: A simple band ratio technique to quantify the colored dissolved and detrital organic material from ocean color remotely sensed data, Remote Sens Environ, 113, 998–1011, https://doi.org/10.1016/j.rse.2009.01.008, 2009a.
Morel, A. and Gentili, B.: The dissolved yellow substance and the shades of blue in the Mediterranean Sea, Biogeosciences, 6, 2625–2636, https://doi.org/10.5194/bg-6-2625-2009, 2009b.
Mühlenbruch, M., Grossart, H. P., Eigemann, F., and Voss, M.: Mini-review: Phytoplankton-derived polysaccharides in the marine environment and their interactions with heterotrophic bacteria, Environ. Microb., 20, 2671–2685, https://doi.org/10.1111/1462-2920.14302, 2018.
Murphy, J. M., Sexton, D. M. H., Barnett, D. N., Jones, G. S., Webb, M. J., Collins, M., and Stainforth, D. A.: Quantification of modelling uncertainties in a large ensemble of climate change simulations, Nature, 430, 768–772, https://doi.org/10.1038/nature02771, 2004.
Myklestad, S. M.: Release of extracellular products by phytoplankton with special emphasis on polysaccharides, Sci. Total Environ., 165, 155–164, https://doi.org/10.1016/0048-9697(95)04549-G, 1995.
Nelson, N. B. and Gauglitz, J. M.: Optical Signatures of Dissolved Organic Matter Transformation in the Global Ocean, Front. Mar. Sci., 2, 118, https://doi.org/10.3389/fmars.2015.00118, 2016.
Nelson, N. B., Siegel, D. A., and Michaels, A. F.: Seasonal dynamics of colored dissolved material in the Sargasso Sea, Deep-Sea Res. Pt. I, 45, 931–957, https://doi.org/10.1016/S0967-0637(97)00106-4, 1998.
Organelli, E., Nuccio, C., Melillo, C., and Massi, L.: Relationships between phytoplankton light absorption, pigment composition and size structure in offshore areas of the Mediterranean Sea, Adv. Ocean. Limnol., 2, 107–123, https://doi.org/10.1080/19475721.2011.607489, 2011.
Organelli, E., Bricaud, A., Antoine, D., and Uitz, J.: Multivariate approach for the retrieval of phytoplankton size structure from measured light absorption spectra in the Mediterranean Sea (BOUSSOLE site), Appl. Opt., 52, 2257, https://doi.org/10.1364/AO.52.002257, 2013.
Organelli, E., Bricaud, A., Antoine, D., and Matsuoka, A.: Seasonal dynamics of light absorption by chromophoric dissolved organic matter (CDOM) in the NW Mediterranean Sea (BOUSSOLE site), Deep-Sea Res. Pt. I, 91, 72–85, https://doi.org/10.1016/j.dsr.2014.05.003, 2014.
Oubelkheir, K., Claustre, H., Sciandra, A., and Babin, M.: Bio-optical and biogeochemical properties of different trophic regimes in oceanic waters, Limnol. Oceanogr., 50, 1795–1809, https://doi.org/10.4319/lo.2005.50.6.1795, 2005.
Oubelkheir, K., Claustre, H., Bricaud, A., and Babin, M.: Partitioning total spectral absorption in phytoplankton and colored detrital material contributions, Limnol. Ocean. Meth., 5, 384–395, https://doi.org/10.4319/lom.2007.5.384, 2007.
Pasquier, B., Holzer, M., Chamberlain, M. A., Matear, R. J., Bindoff, N. L., and Primeau, F. W.: Optimal parameters for the ocean's nutrient, carbon, and oxygen cycles compensate for circulation biases but replumb the biological pump, EGUsphere [preprint], https://doi.org/10.5194/egusphere-2023-363, 2023.
Pérez, G. L., Galí, M., Royer, S.-J., Sarmento, H., Gasol, J. M., Marrasé, C., and Simó, R.: Bio-optical characterization of offshore NW Mediterranean waters: CDOM contribution to the absorption budget and diffuse attenuation of downwelling irradiance, Deep-Sea Res. Pt. I, 114, 111–127, https://doi.org/10.1016/j.dsr.2016.05.011, 2016.
Pope, R. M. and Fry, E. S.: Absorption spectrum 380–700 nm of pure water, II. Integrating cavity measurements, Appl. Opt., 36, 8710–8723, 1997.
Ras, J., Claustre, H., and Uitz, J.: Spatial variability of phytoplankton pigment distributions in the Subtropical South Pacific Ocean: comparison between in situ and predicted data, Biogeosciences, 5, 353–369, https://doi.org/10.5194/bg-5-353-2008, 2008.
Romera-Castillo, C., Sarmento, H., Álvarez-Salgado, X. A., Gasol, J. M., and Marrasé, C.: Production of chromophoric dissolved organic matter by marine phytoplankton, Limnol. Oceanogr., 55, 446–454, https://doi.org/10.4319/lo.2010.55.1.0446, 2010.
Santinelli, C.: DOC in the Mediterranean Sea, in: Biogeochemistry of Marine Dissolved Organic Matter, edited by: Hansell, D. A. and Carlson, C. A., Academic Press, San Diego, 579–608, https://doi.org/10.1016/B978-0-12-405940-5.00013-3, 2015.
Santinelli, C., Gasparini, G. P., Nannicini, L., and Seritti, A.: Vertical distribution of dissolved organic carbon (DOC) in the Western Mediterranean Sea in relation to the hydrological characteristics, Deep-Sea Res. Pt. I, 49, 2203–2219, https://doi.org/10.1016/S0967-0637(02)00129-2, 2002.
Sauzède, R., Claustre, H., Jamet, C., Uitz, J., Ras, J., Mignot, A., and D'Ortenzio, F.: Retrieving the vertical distribution of chlorophyll a concentration and phytoplankton community composition from in situ fluorescence profiles: A method based on a neural network with potential for global-scale applications, J. Geophys. Res.-Oceans, 120, 451–470, https://doi.org/10.1002/2014JC010355, 2015.
Shu, C., Xiu, P., Xing, X., Qiu, G., Ma, W., Brewin, R. J. W., and Ciavatta, S.: Biogeochemical Model Optimization by Using Satellite-Derived Phytoplankton Functional Type Data and BGC-Argo Observations in the Northern South China Sea, Remote Sens (Basel), 14, 1297, https://doi.org/10.3390/rs14051297, 2022.
Sieburth, J. M. and Jensen, A.: Studies on algal substances in the sea. I. Gelbstoff (humic material) in terrestrial and marine waters, J. Exp. Mar. Biol. Ecol., 2, 174–189, https://doi.org/10.1016/0022-0981(68)90008-7, 1968.
Siegel, D. A., Behrenfeld, M. J., Maritorena, S., McClain, C. R., Antoine, D., Bailey, S. W., Bontempi, P. S., Boss, E. S., Dierssen, H. M., Doney, S. C., Eplee, R. E., Evans, R. H., Feldman, G. C., Fields, E., Franz, B. A., Kuring, N. A., Mengelt, C., Nelson, N. B., Patt, F. S., Robinson, W. D., Sarmiento, J. L., Swan, C. M., Werdell, P. J., Westberry, T. K., Wilding, J. G., and Yoder, J. A.: Regional to global assessments of phytoplankton dynamics from the SeaWiFS mission, Remote Sens. Environ., 135, 77–91, https://doi.org/10.1016/j.rse.2013.03.025, 2013.
Smith, R. C. and Baker, K. S.: Optical properties of the clearest natural waters (200–800 nm), Appl. Opt., 20, 177–184, https://doi.org/10.1364/AO.20.000177, 1981.
Stedmon, C. A. and Markager, S.: Tracing the production and degradation of autochthonous fractions of dissolved organic matter by fluorescence analysis, Limnol. Oceanogr., 50, 1415–1426, https://doi.org/10.4319/lo.2005.50.5.1415, 2005.
Storn, R. and Price, K.: Differential Evolution – A Simple and Efficient Heuristic for global Optimization over Continuous Spaces, J. Glob. Opt., 11, 341–359, https://doi.org/10.1023/A:1008202821328, 1997.
Stow, C. A., Jolliff, J., McGillicuddy, D. J., Doney, S. C., Allen, J. I., Friedrichs, M. A. M., Rose, K. A., and Wallhead, P.: Skill assessment for coupled biological/physical models of marine systems, J. Mar. Syst., 76, 4–15, https://doi.org/10.1016/j.jmarsys.2008.03.011, 2009.
Swan, C. M., Nelson, N. B., Siegel, D. A., and Kostadinov, T. S.: The effect of surface irradiance on the absorption spectrum of chromophoric dissolved organic matter in the global ocean, Deep-Sea Res. Pt. I, 63, 52–64, https://doi.org/10.1016/j.dsr.2012.01.008, 2012.
Teruzzi, A., Bolzon, G., Feudale, L., and Cossarini, G.: Deep chlorophyll maximum and nutricline in the Mediterranean Sea: emerging properties from a multi-platform assimilated biogeochemical model experiment, Biogeosciences, 18, 6147–6166, https://doi.org/10.5194/bg-18-6147-2021, 2021.
Terzić, E., Miró, A., Organelli, E., Kowalczuk, P., D'Ortenzio, F., and Lazzari, P.: Radiative transfer modeling with Biogeochemical-Argo float data in the Mediterranean Sea, J. Geophys. Res.-Oceans, 126, e2021JC01769, https://doi.org/10.1029/2021JC017690, 2021.
Thornton, D. C. O.: Dissolved organic matter (DOM) release by phytoplankton in the contemporary and future ocean, Eur. J. Phycol., 49, 20–46, https://doi.org/10.1080/09670262.2013.875596, 2014.
Uitz, J., Claustre, H., Morel, A., and Hooker, S. B.: Vertical distribution of phytoplankton communities in open ocean: An assessment based on surface chlorophyll, J. Geophys. Res, 111, C08005, https://doi.org/10.1029/2005JC003207, 2006.
Ulses, C., Auger, P.-A., Soetaert, K., Marsaleix, P., Diaz, F., Coppola, L., Herrmann, M. J., Kessouri, F., and Estournel, C.: Budget of organic carbon in the North-Western Mediterranean open sea over the period 2004-2008 using 3-D coupled physical-biogeochemical modeling, J. Geophys. Res.-Oceans, 121, 7026–7055, https://doi.org/10.1002/2016JC011818, 2016.
Vichi, M., Pinardi, N., and Masina, S.: A generalized model of pelagic biogeochemistry for the global ocean ecosystem, Part I: Theory, J. Mar. Syst., 64, 89–109, https://doi.org/10.1016/j.jmarsys.2006.03.006, 2007a.
Vichi, M., Masina, S., and Navarra, A.: A generalized model of pelagic biogeochemistry for the global ocean ecosystem. Part II: Numerical simulations, J. Mar. Syst., 64, 110–134, https://doi.org/10.1016/j.jmarsys.2006.03.014, 2007b.
Vichi, M., Lovato, T., Butenschön, M., Tedesco, L., Lazzari, P., Cossarini, G., Masina, S., Pinardi, N., Solidoro, C., and Zavatarelli, M.: The Biogeochemical Flux Model (BFM): Equation Description and User Manual. BFM version 5.2. BFM Report series N. 1, Release 1.2, Bologna, 2020.
Volpe, G., Santoleri, R., Vellucci, V., Ribera d'Alcalà, M., Marullo, S., and D'Ortenzio, F.: The colour of the Mediterranean Sea: Global versus regional bio-optical algorithms evaluation and implication for satellite chlorophyll estimates, Remote Sens. Environ., 107, 625–638, https://doi.org/10.1016/j.rse.2006.10.017, 2007.
Volpe, G., Colella, S., Brando, V. E., Forneris, V., La Padula, F., Di Cicco, A., Sammartino, M., Bracaglia, M., Artuso, F., and Santoleri, R.: Mediterranean ocean colour Level 3 operational multi-sensor processing, Ocean Sci., 15, 127–146, https://doi.org/10.5194/os-15-127-2019, 2019.
Wang, B., Fennel, K., Yu, L., and Gordon, C.: Assessing the value of biogeochemical Argo profiles versus ocean color observations for biogeochemical model optimization in the Gulf of Mexico, Biogeosciences, 17, 4059–4074, https://doi.org/10.5194/bg-17-4059-2020, 2020. .
Ward, B. A., Friedrichs, M. A. M., Anderson, T. R., and Oschlies, A.: Parameter optimisation techniques and the problem of underdetermination in marine biogeochemical models, J. Mar. Syst., 81, 34–43, https://doi.org/10.1016/j.jmarsys.2009.12.005, 2010.
Werdell, P. J., McKinna, L. I. W., Boss, E., Ackleson, S. G., Craig, S. E., Gregg, W. W., Lee, Z., Maritorena, S., Roesler, C. S., Rousseaux, C. S., Stramski, D., Sullivan, J. M., Twardowski, M. S., Tzortziou, M., and Zhang, X.: An overview of approaches and challenges for retrieving marine inherent optical properties from ocean color remote sensing, Prog. Oceanogr., 160, 186–212, https://doi.org/10.1016/j.pocean.2018.01.001, 2018.
Xing, X., Claustre, H., Wang, H., Poteau, A., and D`Ortenzio, F.: Seasonal dynamics in colored dissolved organic matter in the Mediterranean Sea: Patterns and drivers, Deep-Sea Res. Pt. I, 83, 93–101, https://doi.org/10.1016/j.dsr.2013.09.008, 2014.
Xiu, P. and Chai, F.: Connections between physical, optical and biogeochemical processes in the Pacific Ocean, Prog. Oceanogr., 122, 30–53, https://doi.org/10.1016/j.pocean.2013.11.008, 2014.
Yamashita, Y., Nosaka, Y., Suzuki, K., Ogawa, H., Takahashi, K., and Saito, H.: Photobleaching as a factor controlling spectral characteristics of chromophoric dissolved organic matter in open ocean, Biogeosciences, 10, 7207–7217, https://doi.org/10.5194/bg-10-7207-2013, 2013.
Short summary
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.
Chromophoric dissolved organic matter (CDOM) interacts with the ambient light and gives the...
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