Articles | Volume 8, issue 1
16 Feb 2016
16 Feb 2016
Data compilation on the biological response to ocean acidification: an update
Y. Yang et al.
No articles found.
Chloe Carbonne, Steeve Comeau, Phoebe T. W. Chan, Keyla Plichon, Jean-Pierre Gattuso, and Núria Teixidó
For the first time, our study highlights the synergistic and additive effects a 9-month warming and acidification combined stress on the early life stages of a Mediterranean azooxanthellate coral, Astroides calycularis. Our results predict a decrease of dispersion, settlement, post-settlement growth and survival under future global change and that larvae and recruits of A. calycularis are stages of interest for this Mediterranean coral resistance, resilience and conservation.
Phillip Williamson, Hans-Otto Pörtner, Steve Widdicombe, and Jean-Pierre Gattuso
Biogeosciences, 18, 1787–1792,Short summary
The reliability of ocean acidification research was challenged in early 2020 when a high-profile paper failed to corroborate previously observed impacts of high CO2 on the behaviour of coral reef fish. We now know the reason why: the
replicatedstudies differed in many ways. Open-minded and collaborative assessment of all research results, both negative and positive, remains the best way to develop process-based understanding of the impacts of ocean acidification on marine organisms.
Jean-Pierre Gattuso, Bernard Gentili, David Antoine, and David Doxaran
Earth Syst. Sci. Data, 12, 1697–1709,Short summary
Light is a key ocean variable shaping the composition of benthic and pelagic communities by controlling the three-dimensional distribution of primary producers. It also plays a major role in the global carbon cycle. We provide a continuous monthly data set of the global distribution of light reaching the seabed. It is 4 times longer (21 vs 5 years) than the previous data set, the spatial resolution is better (4.6 vs 9.3 km), and the bathymetric resolution is also better (0.46 vs 3.7 km).
Miguel Gómez Batista, Marc Metian, François Oberhänsli, Simon Pouil, Peter W. Swarzenski, Eric Tambutté, Jean-Pierre Gattuso, Carlos M. Alonso Hernández, and Frédéric Gazeau
Biogeosciences, 17, 887–899,Short summary
In this paper, we assessed four methods (total alkalinity anomaly, calcium anomaly, 45Ca incorporation, and 13C incorporation) to determine coral calcification of a reef-building coral. Under all conditions (light vs. dark incubations and ambient vs. lowered pH levels), calcification rates estimated using the alkalinity and calcium anomaly techniques as well as 45Ca incorporation were highly correlated, while significantly different results were obtained with the 13C incorporation technique.
Lydia Kapsenberg, Samir Alliouane, Frédéric Gazeau, Laure Mousseau, and Jean-Pierre Gattuso
Ocean Sci., 13, 411–426,Short summary
In the interest of global ocean change, weekly water samples were collected at a coastal site in the northwestern Mediterranean Sea (2007–2015). Seawater pH declined faster than expected from anthropogenic carbon dioxide increase. Total alkalinity increased, but the driver could not be identified, and it may be linked to changes in freshwater chemistry of watersheds. This is the first coastal acidification time-series providing multiyear data at high temporal resolution.
Ella L. Howes, Karina Kaczmarek, Markus Raitzsch, Antje Mewes, Nienke Bijma, Ingo Horn, Sambuddha Misra, Jean-Pierre Gattuso, and Jelle Bijma
Biogeosciences, 14, 415–430,Short summary
To calculate the seawater carbonate system, proxies for 2 out of 7 parameters are required. The boron isotopic composition of foraminifera shells can be used as a proxy for pH and it has been suggested that B / Ca ratios may act as a proxy for carbonate ion concentration. However, differentiating between the effects of pH and [CO32−] is problematic, as they co-vary in natural systems. To deconvolve the effects, we conducted culture experiments with the planktonic foraminifer Orbulina universa.
Merinda C. Nash, Sophie Martin, and Jean-Pierre Gattuso
Biogeosciences, 13, 5937–5945,Short summary
We carried out a 1-year experiment on coralline algae to test how higher CO2 and temperature might change the mineral composition of the algal skeleton. We expected there to be a decline in magnesium with CO2 and an increase with temperature. We found that CO2 did not change the mineral composition, but higher temperature increased the amount of magnesium.
T. Erin Cox, Frédéric Gazeau, Samir Alliouane, Iris E. Hendriks, Paul Mahacek, Arnaud Le Fur, and Jean-Pierre Gattuso
Biogeosciences, 13, 2179–2194,Short summary
The ocean absorbs atmospheric carbon dioxide (CO2) which increases the concentrations of CO2 and decreases pH in a process called ocean acidification. Because seagrass rely on carbon for photosynthesis they are expected to benefit under future ocean acidification. We manipulated pH in a Posidonia oceanica seagrass meadow. Seagrass traits, photosynthesis, and growth were not affected. Any benefit from ocean acidification over the next century on Posidonia physiology and growth may be minimal.
J. C. Orr, J.-M. Epitalon, and J.-P. Gattuso
Biogeosciences, 12, 1483–1510,Short summary
Basic marine carbonate system variables such as pH are often computed from others. Such calculations are made with many public software packages, but their results have never been compared. A new study compares 10 of these packages, quantifying differences, isolating causes, and making recommendations to reduce future discrepancies. This comparison effort has led to more than a 10-fold reduction in differences between packages for some computed variables.
J.-P. Gattuso, W. Kirkwood, J. P. Barry, E. Cox, F. Gazeau, L. Hansson, I. Hendriks, D.I. Kline, P. Mahacek, S. Martin, P. McElhany, E. T. Peltzer, J. Reeve, D. Roberts, V. Saderne, K. Tait, S. Widdicombe, and P. G. Brewer
Biogeosciences, 11, 4057–4075,
C. Maier, F. Bils, M. G. Weinbauer, P. Watremez, M. A. Peck, and J.-P. Gattuso
Biogeosciences, 10, 5671–5680,
C. Motegi, T. Tanaka, J. Piontek, C. P. D. Brussaard, J.-P. Gattuso, and M. G. Weinbauer
Biogeosciences, 10, 3285–3296,
T. Tanaka, S. Alliouane, R. G. B. Bellerby, J. Czerny, A. de Kluijver, U. Riebesell, K. G. Schulz, A. Silyakova, and J.-P. Gattuso
Biogeosciences, 10, 315–325,
Related subject area
Biological oceanographyPrimary productivity measurements in the Ross Sea, Antarctica: a regional synthesisPatos Lagoon estuary and adjacent marine coastal biodiversity long-term dataWeight-to-weight conversion factors for benthic macrofauna: recent measurements from the Baltic and the North seasThe Plankton Lifeform Extraction Tool: a digital tool to increase the discoverability and usability of plankton time-series dataCollection and analysis of a global marine phytoplankton primary-production datasetDaily to annual net primary production in the North Sea determined using autonomous underwater gliders and satellite Earth observationThe ADRIREEF database: a comprehensive collection of natural/artificial reefs and wrecks in the Adriatic SeaDiets of the Barents Sea cod (Gadus morhua) from the 1930s to 2018A global viral oceanography database (gVOD)PhytoBase: A global synthesis of open-ocean phytoplankton occurrencesA long-term (1965–2015) ecological marine database from the LTER-Italy Northern Adriatic Sea site: plankton and oceanographic observationsAn interactive atlas for marine biodiversity conservation in the Coral TriangleA synthetic satellite dataset of the spatio-temporal distributions of Emiliania huxleyi blooms and their impacts on Arctic and sub-Arctic marine environments (1998–2016)A 40-year global data set of visible-channel remote-sensing reflectances and coccolithophore bloom occurrence derived from the Advanced Very High Resolution Radiometer cataloguePhotosynthesis–irradiance parameters of marine phytoplankton: synthesis of a global data setTwo databases derived from BGC-Argo float measurements for marine biogeochemical and bio-optical applicationsKRILLBASE: a circumpolar database of Antarctic krill and salp numerical densities, 1926–2016A trait database for marine copepodsGlobal ocean particulate organic carbon flux merged with satellite parametersA compilation of global bio-optical in situ data for ocean-colour satellite applicationsCoastColour Round Robin data sets: a database to evaluate the performance of algorithms for the retrieval of water quality parameters in coastal watersVertical distribution of chlorophyll a concentration and phytoplankton community composition from in situ fluorescence profiles: a first database for the global oceanBiogeography of key mesozooplankton species in the North Atlantic and egg production of Calanus finmarchicusBiogeography of jellyfish in the North Atlantic, by traditional and genomic methodsA metadata template for ocean acidification dataSpatially explicit estimates of stock sizes, structure and biomass of herring and blue whiting, and catch data of bluefin tunaA new compilation of stomach content data for commercially important pelagic fish species in the northeast AtlanticSpatially explicit estimates of stock size, structure and biomass of North Atlantic albacore tuna (Thunnus alalunga)Data compilation of fluxes of sedimenting material from sediment traps in the Atlantic OceanGlobal database of surface ocean particulate organic carbon export fluxes diagnosed from the 234Th techniqueDistribution of known macrozooplankton abundance and biomass in the global oceanGlobal marine plankton functional type biomass distributions: coccolithophoresThe MAREDAT global database of high performance liquid chromatography marine pigment measurementsDistribution of mesozooplankton biomass in the global oceanCalibration procedures and first dataset of Southern Ocean chlorophyll a profiles collected by elephant seals equipped with a newly developed CTD-fluorescence tagsThe global distribution of pteropods and their contribution to carbonate and carbon biomass in the modern oceanA global diatom database – abundance, biovolume and biomass in the world oceanGlobal marine plankton functional type biomass distributions: Phaeocystis spp.Picoheterotroph (Bacteria and Archaea) biomass distribution in the global oceanPicophytoplankton biomass distribution in the global oceanEPOCA/EUR-OCEANS data compilation on the biological and biogeochemical responses to ocean acidification
Walker O. Smith Jr.
Earth Syst. Sci. Data, 14, 2737–2747,Short summary
The rate of photosynthesis of marine phytoplankton – primary productivity – is typically measured by quantifying the rate of radioisotope incorporation. However, generally such measurements are not collected by one individual through time and so are difficult to compare due to methodological differences. A data set compiled by one investigator over more than 20 years in the Ross Sea demonstrates the importance of the region as a "hot spot" for growth and synthesis.
Valéria M. Lemos, Marianna Lanari, Margareth Copertino, Eduardo R. Secchi, Paulo Cesar O. V. de Abreu, José H. Muelbert, Alexandre M. Garcia, Felipe C. Dumont, Erik Muxagata, João P. Vieira, André Colling, and Clarisse Odebrecht
Earth Syst. Sci. Data, 14, 1015–1041,Short summary
The Patos Lagoon estuary and adjacent marine coast (PLEA) has been a site of the Brazilian Long-Term Ecological Research (LTER) program since 1998. LTER-PLEA contributes information about the biota composition, distribution and abundance, and estuarine ecological processes. The LTER-PLEA database (8 datasets containing 6972 sampling events and records of 275 species) represents one of the most robust and longest databases of biological diversity in an estuarine coastal system of South America.
Mayya Gogina, Anja Zettler, and Michael L. Zettler
Earth Syst. Sci. Data, 14, 1–4,Short summary
For the first time we publish a taxonomically detailed and robust dataset of biomass conversion factors for macro-zoobenthos, often required in many studies. Georeferenced raw data for 497 taxa empower the user to make the best selections for combining them with their own data, and aggregation can help to quantify natural variability and uncertainty and refine current ecological theory. Standardised measurements were done on material collected for over 2 decades in the Baltic and the North seas.
Clare Ostle, Kevin Paxman, Carolyn A. Graves, Mathew Arnold, Luis Felipe Artigas, Angus Atkinson, Anaïs Aubert, Malcolm Baptie, Beth Bear, Jacob Bedford, Michael Best, Eileen Bresnan, Rachel Brittain, Derek Broughton, Alexandre Budria, Kathryn Cook, Michelle Devlin, George Graham, Nick Halliday, Pierre Hélaouët, Marie Johansen, David G. Johns, Dan Lear, Margarita Machairopoulou, April McKinney, Adam Mellor, Alex Milligan, Sophie Pitois, Isabelle Rombouts, Cordula Scherer, Paul Tett, Claire Widdicombe, and Abigail McQuatters-Gollop
Earth Syst. Sci. Data, 13, 5617–5642,Short summary
Plankton form the base of the marine food web and are sensitive indicators of environmental change. The Plankton Lifeform Extraction Tool brings together disparate plankton datasets into a central database from which it extracts abundance time series of plankton functional groups, called
lifeforms, according to shared biological traits. This tool has been designed to make complex plankton datasets accessible and meaningful for policy, public interest, and scientific discovery.
Francesco Mattei and Michele Scardi
Earth Syst. Sci. Data, 13, 4967–4985,Short summary
Data paucity hinders the understanding of natural processes such as phytoplankton production. Several studies stressed how the lack of data is the main constraint for modeling phytoplankton production. We created a global and ready-to-use dataset regarding phytoplankton production, collecting and processing data from several sources. We performed a general data analysis from a numerical and an ecological perspective. This dataset will help enhance the understanding of phytoplankton production.
Benjamin Loveday, Timothy Smyth, Anıl Akpinar, Tom Hull, Mark Inall, Jan Kaiser, Bastien Queste, Matt Tobermann, Charlotte Williams, and Matthew Palmer
Earth Syst. Sci. Data Discuss.,
Revised manuscript accepted for ESSDShort summary
Using a new approach to combine autonomous underwater glider data and satellite Earth observations, we have generated a 19-month time-series of North Sea net primary productivity – the rate at which phytoplankton absorbs carbon dioxide, minus that lost through respiration. This time-series, which spans 13 gliders, allows for new investigations into small-scale, high-frequency variability in the biogeochemical processes that underpin the carbon cycle and coastal marine ecosystems in shelf seas.
Annalisa Minelli, Carmen Ferrà, Alessandra Spagnolo, Martina Scanu, Anna Nora Tassetti, Carla Rita Ferrari, Cristina Mazziotti, Silvia Pigozzi, Zrinka Jakl, Tena Šarčević, Miranda Šimac, Claudia Kruschel, Dubravko Pejdo, Enrico Barbone, Michele De Gioia, Diego Borme, Emiliano Gordini, Rocco Auriemma, Ivo Benzon, Đeni Vuković-Stanišić, Sandi Orlić, Vlado Frančić, Damir Zec, Ivana Orlić Kapović, Michela Soldati, Silvia Ulazzi, and Gianna Fabi
Earth Syst. Sci. Data, 13, 1905–1923,Short summary
This data paper describes a dataset of natural and artificial reefs and wrecks in the Adriatic Sea collected, from a survey, in the frame of the ADRIREEF Interreg project. Information about the identification of the reef and its physical characteristics, surrounding area, and management actions/facilities has been collected in order to create a very detailed dataset, which has been harmonized and published in the SEANOE repository (https://doi.org/10.17882/74880).
Bryony L. Townhill, Rebecca E. Holt, Bjarte Bogstad, Joël M. Durant, John K. Pinnegar, Andrey V. Dolgov, Natalia A. Yaragina, Edda Johannesen, and Geir Ottersen
Earth Syst. Sci. Data, 13, 1361–1370,Short summary
A dataset on the diet of Atlantic cod in the Barents Sea from the 1930s to 2018 has been compiled to produce one of the largest fish diet datasets available globally. A top predator, cod plays a key role in the food web. The data from Norway, the United Kingdom and Russia include data from 2.5 million fish. Diets have changed considerably from the start of the dataset in the 1930s. This dataset helps us understand how the environment and ecosystems are responding to a changing climate.
Le Xie, Wei Wei, Lanlan Cai, Xiaowei Chen, Yuhong Huang, Nianzhi Jiao, Rui Zhang, and Ya-Wei Luo
Earth Syst. Sci. Data, 13, 1251–1271,Short summary
Viruses play key roles in marine ecosystems by killing their hosts, maintaining diversity and recycling nutrients. In the global viral oceanography database (gVOD), 10 931 viral abundance data and 727 viral production data, along with host and other oceanographic parameters, were compiled. It identified viral data were undersampled in the southeast Pacific and Indian oceans. The gVOD can be used in marine viral ecology investigation and modeling of marine ecosystems and biogeochemical cycles.
Damiano Righetti, Meike Vogt, Niklaus E. Zimmermann, Michael D. Guiry, and Nicolas Gruber
Earth Syst. Sci. Data, 12, 907–933,Short summary
Phytoplankton sustain marine life, as they are the principal primary producers in the global ocean. Despite their ecological importance, their distribution and diversity patterns are poorly known, mostly due to data limitations. We present a global dataset that synthesizes over 1.3 million occurrences of phytoplankton from public archives. It is easily extendable. This dataset can be used to characterize phytoplankton distribution and diversity in current and future oceans.
Francesco Acri, Mauro Bastianini, Fabrizio Bernardi Aubry, Elisa Camatti, Alfredo Boldrin, Caterina Bergami, Daniele Cassin, Amelia De Lazzari, Stefania Finotto, Annalisa Minelli, Alessandro Oggioni, Marco Pansera, Alessandro Sarretta, Giorgio Socal, and Alessandra Pugnetti
Earth Syst. Sci. Data, 12, 215–230,Short summary
The present paper describes a database containing observations for 21 parameters of abiotic, phytoplankton, and zooplankton data collected in the northern Adriatic Sea region (Italy) from 1965 to 2015. Due to the long temporal coverage, the majority of parameters changed collection and analysis method over time. These variations are reported in the database and detailed in the paper.
Irawan Asaad, Carolyn J. Lundquist, Mark V. Erdmann, and Mark J. Costello
Earth Syst. Sci. Data, 11, 163–174,Short summary
This atlas is a compendium of geospatial online and open-access data describing biodiversity conservation in the Coral Triangle of the Indo-Pacific biogeographic realm. It consists of three sets of interlinked digital maps: (1) biodiversity features; (2) areas of importance for biodiversity conservation; and (3) recommended priorities for Marine Protected Area (MPA) Network Expansion. These maps provide the most comprehensive biodiversity datasets available to date for the region.
Dmitry Kondrik, Eduard Kazakov, and Dmitry Pozdnyakov
Earth Syst. Sci. Data, 11, 119–128,Short summary
This paper presents a description of the original database of blooms of the calcifying phytoplankton in sub-Arctic and Arctic seas, their spatio-temporal features and associated environmental influences. This type of phytoplankton is efficient in decreasing the ability of the ocean to intake external carbon dioxide and hence amplifies the greenhouse effect. The published database can be used by a large community of users involved in studies of both aquatic ecology and carbon cycles.
Benjamin Roger Loveday and Timothy Smyth
Earth Syst. Sci. Data, 10, 2043–2054,Short summary
A 40-year data set of ocean reflectance is derived from an atmospherically corrected climate quality record of top-of-atmosphere signals taken from the satellite-based AVHRR sensor. The data set provides a unique view of visible changes in the global ocean over timescales where climatic effects are demonstrable and spans coverage gaps left by more traditional satellite ocean colour sensors. It is particularly relevant to monitoring bright plankton blooms, such as coccolithophores.
Heather A. Bouman, Trevor Platt, Martina Doblin, Francisco G. Figueiras, Kristinn Gudmundsson, Hafsteinn G. Gudfinnsson, Bangqin Huang, Anna Hickman, Michael Hiscock, Thomas Jackson, Vivian A. Lutz, Frédéric Mélin, Francisco Rey, Pierre Pepin, Valeria Segura, Gavin H. Tilstone, Virginie van Dongen-Vogels, and Shubha Sathyendranath
Earth Syst. Sci. Data, 10, 251–266,Short summary
The photosynthetic response of marine phytoplankton to available irradiance is a central part of satellite-based models of ocean productivity. This study brings together data from a variety of oceanographic campaigns to examine how the parameters of photosynthesis–irradiance response curves vary over the global ocean. This global synthesis reveals biogeographic, latitudinal and depth-dependent patterns in the photosynthetic properties of natural phytoplankton assemblages.
Emanuele Organelli, Marie Barbieux, Hervé Claustre, Catherine Schmechtig, Antoine Poteau, Annick Bricaud, Emmanuel Boss, Nathan Briggs, Giorgio Dall'Olmo, Fabrizio D'Ortenzio, Edouard Leymarie, Antoine Mangin, Grigor Obolensky, Christophe Penkerc'h, Louis Prieur, Collin Roesler, Romain Serra, Julia Uitz, and Xiaogang Xing
Earth Syst. Sci. Data, 9, 861–880,Short summary
Autonomous robotic platforms such as Biogeochemical-Argo floats allow observation of the ocean, from the surface to the interior, in a new and systematic way. A fleet of 105 of these platforms have collected several biological, biogeochemical, and optical variables in still unexplored regions. The quality-controlled databases presented here will enable scientists to improve knowledge on the functioning of marine ecosystems and investigate the climatic implications.
Angus Atkinson, Simeon L. Hill, Evgeny A. Pakhomov, Volker Siegel, Ricardo Anadon, Sanae Chiba, Kendra L. Daly, Rod Downie, Sophie Fielding, Peter Fretwell, Laura Gerrish, Graham W. Hosie, Mark J. Jessopp, So Kawaguchi, Bjørn A. Krafft, Valerie Loeb, Jun Nishikawa, Helen J. Peat, Christian S. Reiss, Robin M. Ross, Langdon B. Quetin, Katrin Schmidt, Deborah K. Steinberg, Roshni C. Subramaniam, Geraint A. Tarling, and Peter Ward
Earth Syst. Sci. Data, 9, 193–210,Short summary
KRILLBASE is a data rescue and compilation project to improve the availability of information on two key Southern Ocean zooplankton: Antarctic krill and salps. We provide a circumpolar database that combines 15 194 scientific net hauls (1926 to 2016) from 10 countries. These data provide a resource for analysing the distribution and abundance of krill and salps throughout the Southern Ocean to support ecological and biogeochemical research as well as fisheries management and conservation.
Philipp Brun, Mark R. Payne, and Thomas Kiørboe
Earth Syst. Sci. Data, 9, 99–113,Short summary
We compiled data to understand the organization of marine zooplankton based on their fundamental traits, such as body size or growth rate, rather than based on species names. Zooplankton, and in particular the dominant crustacean copepods, are central to marine food webs and the carbon cycle. The data include 14 traits and thousands of copepod species and may be used for comparisons between species or communities and ultimately to inspire better large-scale models of planktonic ecosystems.
Colleen B. Mouw, Audrey Barnett, Galen A. McKinley, Lucas Gloege, and Darren Pilcher
Earth Syst. Sci. Data, 8, 531–541,Short summary
Particulate organic carbon (POC) flux estimated from POC concentration observations from sediment traps and 234Th are compiled across the global ocean. By providing merged coincident satellite imagery products, the dataset can be used to link phytoplankton surface process with POC flux. Due to rapid remineralization within the first 500 m of the water column, shallow observations from 234Th supplement the more extensive sediment trap record.
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, Vittorio Brando, Elisabetta Canuti, Francisco Chavez, Hervé Claustre, Richard Crout, Robert Frouin, Carlos García-Soto, Stuart W. Gibb, Richard Gould, Stanford Hooker, Mati Kahru, Holger Klein, Susanne Kratzer, Hubert Loisel, David McKee, Brian G. Mitchell, Tiffany Moisan, Frank Muller-Karger, Leonie O'Dowd, Michael Ondrusek, Alex J. Poulton, Michel Repecaud, Timothy Smyth, Heidi M. Sosik, Michael Twardowski, Kenneth Voss, Jeremy Werdell, Marcel Wernand, and Giuseppe Zibordi
Earth Syst. Sci. Data, 8, 235–252,Short summary
A compiled set of in situ data is important to evaluate the quality of ocean-colour satellite data records. Here we describe the compilation of global bio-optical in situ data (spanning from 1997 to 2012) used for the validation of the ocean-colour products from the ESA Ocean Colour Climate Change Initiative (OC-CCI). The compilation merges and harmonizes several in situ data sources into a simple format that could be used directly for the evaluation of satellite-derived ocean-colour data.
B. Nechad, K. Ruddick, T. Schroeder, K. Oubelkheir, D. Blondeau-Patissier, N. Cherukuru, V. Brando, A. Dekker, L. Clementson, A. C. Banks, S. Maritorena, P. J. Werdell, C. Sá, V. Brotas, I. Caballero de Frutos, Y.-H. Ahn, S. Salama, G. Tilstone, V. Martinez-Vicente, D. Foley, M. McKibben, J. Nahorniak, T. Peterson, A. Siliò-Calzada, R. Röttgers, Z. Lee, M. Peters, and C. Brockmann
Earth Syst. Sci. Data, 7, 319–348,Short summary
The CoastColour Round Robin (CCRR) project (European Space Agency) was designed to set up the first database for remote-sensing algorithm testing and accuracy assessment of water quality parameter retrieval in coastal waters, from satellite imagery. This paper analyses the CCRR database, which includes in situ bio-geochemical and optical measurements in various water types, match-up reflectance products from the MEdium Resolution Imaging Spectrometer (MERIS), and radiative transfer simulations.
R. Sauzède, H. Lavigne, H. Claustre, J. Uitz, C. Schmechtig, F. D'Ortenzio, C. Guinet, and S. Pesant
Earth Syst. Sci. Data, 7, 261–273,
W. Melle, J. A. Runge, E. Head, S. Plourde, C. Castellani, P. Licandro, J. Pierson, S. H. Jónasdóttir, C. Johnson, C. Broms, H. Debes, T. Falkenhaug, E. Gaard, A. Gislason, M. R. Heath, B. Niehoff, T. G. Nielsen, P. Pepin, E. K. Stenevik, and G. Chust
Earth Syst. Sci. Data, 7, 223–230,
P. Licandro, M. Blackett, A. Fischer, A. Hosia, J. Kennedy, R. R. Kirby, K. Raab, R. Stern, and P. Tranter
Earth Syst. Sci. Data, 7, 173–191,
L.-Q. Jiang, S. A. O'Connor, K. M. Arzayus, and A. R. Parsons
Earth Syst. Sci. Data, 7, 117–125,Short summary
With the rapid expansion of studies on biological responses of organisms to OA, the lack of a common metadata template to document the resulting data poses a significant hindrance to effective OA data management efforts. In this paper, we present a metadata template that can be applied to a broad spectrum of OA studies, including those studying the biological responses of organisms to OA. This paper defines best practices for documenting ocean acidification (OA) data.
G. Huse, B. R. MacKenzie, V. Trenkel, M. Doray, L. Nøttestad, and G. Oskarsson
Earth Syst. Sci. Data, 7, 35–46,
J. K. Pinnegar, N. Goñi, V. M. Trenkel, H. Arrizabalaga, W. Melle, J. Keating, and G. Óskarsson
Earth Syst. Sci. Data, 7, 19–28,Short summary
This work describes a 148-year compilation of stomach content data for five pelagic fish species (herring, blue whiting, mackerel, albacore and bluefin tuna) sampled over a broad geographic region of the northeast Atlantic. We describe the main results in terms of diet composition and predator–prey relationships. The analyses suggests significant differences in the prey items selected by predators in different parts of the area at different times of year.
P. Lehodey, I. Senina, A.-C. Dragon, and H. Arrizabalaga
Earth Syst. Sci. Data, 6, 317–329,
S. Torres Valdés, S. C. Painter, A. P. Martin, R. Sanders, and J. Felden
Earth Syst. Sci. Data, 6, 123–145,
F. A. C. Le Moigne, S. A. Henson, R. J. Sanders, and E. Madsen
Earth Syst. Sci. Data, 5, 295–304,
R. Moriarty, E. T. Buitenhuis, C. Le Quéré, and M.-P. Gosselin
Earth Syst. Sci. Data, 5, 241–257,
C. J. O'Brien, J. A. Peloquin, M. Vogt, M. Heinle, N. Gruber, P. Ajani, H. Andruleit, J. Arístegui, L. Beaufort, M. Estrada, D. Karentz, E. Kopczyńska, R. Lee, A. J. Poulton, T. Pritchard, and C. Widdicombe
Earth Syst. Sci. Data, 5, 259–276,
J. Peloquin, C. Swan, N. Gruber, M. Vogt, H. Claustre, J. Ras, J. Uitz, R. Barlow, M. Behrenfeld, R. Bidigare, H. Dierssen, G. Ditullio, E. Fernandez, C. Gallienne, S. Gibb, R. Goericke, L. Harding, E. Head, P. Holligan, S. Hooker, D. Karl, M. Landry, R. Letelier, C. A. Llewellyn, M. Lomas, M. Lucas, A. Mannino, J.-C. Marty, B. G. Mitchell, F. Muller-Karger, N. Nelson, C. O'Brien, B. Prezelin, D. Repeta, W. O. Jr. Smith, D. Smythe-Wright, R. Stumpf, A. Subramaniam, K. Suzuki, C. Trees, M. Vernet, N. Wasmund, and S. Wright
Earth Syst. Sci. Data, 5, 109–123,
R. Moriarty and T. D. O'Brien
Earth Syst. Sci. Data, 5, 45–55,
C. Guinet, X. Xing, E. Walker, P. Monestiez, S. Marchand, B. Picard, T. Jaud, M. Authier, C. Cotté, A. C. Dragon, E. Diamond, D. Antoine, P. Lovell, S. Blain, F. D'Ortenzio, and H. Claustre
Earth Syst. Sci. Data, 5, 15–29,
N. Bednaršek, J. Možina, M. Vogt, C. O'Brien, and G. A. Tarling
Earth Syst. Sci. Data, 4, 167–186,
K. Leblanc, J. Arístegui, L. Armand, P. Assmy, B. Beker, A. Bode, E. Breton, V. Cornet, J. Gibson, M.-P. Gosselin, E. Kopczynska, H. Marshall, J. Peloquin, S. Piontkovski, A. J. Poulton, B. Quéguiner, R. Schiebel, R. Shipe, J. Stefels, M. A. van Leeuwe, M. Varela, C. Widdicombe, and M. Yallop
Earth Syst. Sci. Data, 4, 149–165,
M. Vogt, C. O'Brien, J. Peloquin, V. Schoemann, E. Breton, M. Estrada, J. Gibson, D. Karentz, M. A. Van Leeuwe, J. Stefels, C. Widdicombe, and L. Peperzak
Earth Syst. Sci. Data, 4, 107–120,
E. T. Buitenhuis, W. K. W. Li, M. W. Lomas, D. M. Karl, M. R. Landry, and S. Jacquet
Earth Syst. Sci. Data, 4, 101–106,
E. T. Buitenhuis, W. K. W. Li, D. Vaulot, M. W. Lomas, M. R. Landry, F. Partensky, D. M. Karl, O. Ulloa, L. Campbell, S. Jacquet, F. Lantoine, F. Chavez, D. Macias, M. Gosselin, and G. B. McManus
Earth Syst. Sci. Data, 4, 37–46,
A.-M. Nisumaa, S. Pesant, R. G. J. Bellerby, B. Delille, J. J. Middelburg, J. C. Orr, U. Riebesell, T. Tyrrell, D. Wolf-Gladrow, and J.-P. Gattuso
Earth Syst. Sci. Data, 2, 167–175,
Cornwall, C. E. and Hurd, C. L.: Experimental design in ocean acidiffication research: problems and solutions, ICES J. Mar. Sci., in press, 2016.
Dickson, A. G.: The carbon dioxide system in seawater: equilibrium chemistry and measurements, in: Guide to best practices for ocean acidiffication research and data reporting, edited by: Riebesell, U., Fabry, V. J., Hansson, L., and Gattuso, J.-P., Publications Office of the European Union, Luxembourg, 17–40, 2010.
Dickson, A. G., Sabine, C. L., and Christian J. R.: Guide to best practices for ocean CO
2 measurements, PICES Special Publication, 3, 1–191, 2007.
Fiorini, S., Middelburg, J. J., and Gattuso, J.-P.: Testing the effects of elevated
pCO 2 on coccolithophores (Prymnesiophyceae): comparison
between haploid and diploid life stages, J. Phycol., 47, 1281–1291,
Garcia, H. E., Cosca, C., Kozyr, A., Mayorga, E., Chandler, C., Thomas, R. W., O'Brien, K., Appeltans, W., Hankin, S., Newton, J. A., Gutierrez, A., Gattuso, J.-P., Hansson, L., Zweng, M., and Pfell, B.: Data management strategy to improve global use of ocean acidification data and information, Oceanography, 28, 226–228, 2015.
Gattuso, J.-P. and Hansson, L.: Ocean acidification: background and history, in: Ocean acidification, edited by: Gattuso, J.-P. and Hansson, L., Oxford University Press, Oxford, 1–27, 2011.
Gattuso, J.-P. and Lavigne, H.: Technical Note: Approaches and software tools to investigate the impact of ocean acidification, Biogeosciences, 6, 2121–2133, https://doi.org/10.5194/bg-6-2121-2009, 2009.
Gattuso, J.-P., Gao, K., Lee, K., Rost, B., and Schulz, K. G.: Approaches and tools to manipulate the carbonate chemistry, in: Guide to best practices for ocean acidification research and data reporting, edited by: Riebesell U., Fabry V. J., Hansson L., and Gattuso J.-P., Publications Office of the European Union, Luxembourg, 41–52, 2010.
Gattuso, J.-P., Brewer, P. G., Hoegh-Guldberg, O., Kleypas, J. A., Pörtner, H.-O., and Schmidt, D. N.: Ocean acidification, in: Climate Change 2014: Impacts, Adaptation, and Vulnerability, Part A: Global and Sectoral Aspects, Contribution of Working Group II to the Fifth Assessment Report of the Intergovernmental Panel of Climate Change, edited by: Field C. B., Barros V. R., Dokken D. J., Mach K. J., Mastrandrea M. D., Bilir T. E., Chatterjee M., Ebi K. L., Estrada Y. O., Genova R. C., Girma B., Kissel E. S., Levy A. N., MacCracken S., Mastrandrea P. R., and White L. L., Cambridge University Press, United Kingdom and USA, 129–131, 2014.
Gattuso, J.-P., Epitalon, J.-M., and Lavigne, H.: seacarb: seawater carbonate chemistry with R, R package version 3.0.8, 2015.
Hansson, L., Appeltans, W., and Gattuso, J.-P.: Promoting international collaboration on ocean acidification data management, Eos, Trans. Am. Geophys. Union, 95, 421–422, 2014.
Hendriks, I. E. and Duarte, C. M.: Ocean acidification: Separating evidence from judgment-A reply to Dupont et al., Estuar. Coast. Shelf Sci., 89, 186–190, 2010.
Hoppe, C. J. M., Langer, G., Rokitta, S. D., Wolf-Gladrow, D. A., and Rost, B.: Implications of observed inconsistencies in carbonate chemistry measurements for ocean acidification studies, Biogeosciences, 9, 2401–2405, https://doi.org/10.5194/bg-9-2401-2012, 2012.
Jiang, L.-Q., O'Connor, S. A., Arzayus, K. M., and Parsons, A. R.: A metadata template for ocean acidification data, Earth Syst. Sci. Data, 7, 117–125, https://doi.org/10.5194/essd-7-117-2015, 2015.
Koeve, W. and Oschlies, A.: Potential impact of DOM accumulation on
and carbonate ion computations in ocean acidification experiments,
Biogeosciences, 9, 3787–3798, https://doi.org/10.5194/bg-9-3787-2012, 2012.
Kroeker, K. J., Kordas, R. L., Crim, R. N., and Singh, G. G.: Meta-analysis reveals negative yet variable effects of ocean acidification on marine organisms, Ecol. Lett., 13, 1419–1434, 2010.
Kroeker, K. J., Kordas, R. L., Crim, R., Hendriks, I. E., Ramajo, L., Singh, G. S., Duarte, C. M., and Gattuso, J.-P.: Impacts of ocean acidification on marine organisms: quantifying sensitivities and interaction with warming, Glob. Chang. Biol., 19, 1884–1896, 2013.
Liu, J., Weinbauer, M. G., Maier, C., Dai, M., and Gattuso, J.-P.: Effect of ocean acidification on microbial diversity, and on microbe-driven biogeochemistry and ecosystem functioning, Aquat. Microb. Ecol., 61, 291–305, 2010.
McMinn, A., Müller, M. N., Martin, A., and Ryan, K. G.: The response of Antarctic sea ice algae to changes in pH and CO
2, PLoS One, 9, e86984,
Meyer, J. and Riebesell, U.: Reviews and Syntheses: Responses of coccolithophores to ocean acidification: a meta-analysis, Biogeosciences, 12, 1671–1682, https://doi.org/10.5194/bg-12-1671-2015, 2015.
Muller, E. B. and Nisbet, R. M.: Dynamic energy budget modeling reveals the potential of future growth and calcification for the coccolithophore Emiliania huxleyi in an acidified ocean, Glob. Chang. Biol., 20, 2031–2038, 2014.
Nisumaa, A.-M., Pesant, S., Bellerby, R. G. J., Delille, B., Middelburg, J. J., Orr, J. C., Riebesell, U., Tyrrell, T., Wolf-Gladrow, D., and Gattuso, J.-P.: EPOCA/EUR-OCEANS data compilation on the biological and biogeochemical responses to ocean acidification, Earth Syst. Sci. Data, 2, 167–175, https://doi.org/10.5194/essd-2-167-2010, 2010.
Orr, J. C., Fabry, V. J., Aumont, O., Bopp, L., Doney, S. C., Feely, R. A., Gnanadesikan, A., Gruber, N., Ishida, A., Joos, F., Key, R. M., Lindsay, K., Maier-Reimer, E., Matear, R., Monfray, P., Mouchet, A., Najjar, R. G., Plattner, G.-K., Rodgers, K. B., Sabine, C. L., Sarmiento, J. L., Schlitzer, R., Slater, R. D., Totterdell, I. J., Weirig, M.-F., Yamanaka, Y., and Yool, A.: Anthropogenic ocean acidification over the twenty-first century and its impact on calcifying organisms, Nature, 437, 681–686, 2005.
Orr, J. C., Epitalon, J.-M., and Gattuso, J.-P.: Comparison of ten packages that compute ocean carbonate chemistry, Biogeosciences, 12, 1483–1510, https://doi.org/10.5194/bg-12-1483-2015, 2015.
Pesant, S., Alan Hook, L., Lowry, R., Moncoiffé, G., Nisumaa, A.-M., and Pfeil, B.: Safeguarding and sharing ocean acidification data, in: Guide to best practices for ocean acidification research and data reporting, edited by: Riebesell, U., Fabry, V. J., Hansson, L., and Gattuso, J.-P., Publications Office of the European Union, Luxembourg, 243–258, 2010.
Piwowar, H. A., Day, R. S., and Fridsma, D. B.: Sharing detailed research data is associated with increased citation rate, PLoS One, 2, e308, https://doi.org/10.1371/journal.pone.0000308, 2007.
Pörtner, H.-O., Dickson, A., and Gattuso, J.-P.: Terminology and units for parameters relevant to the carbonate system, in: Guide to best practices for ocean acidiffication research and data reporting, edited by: Riebesell, U., Fabry, V. J., Hansson, L., and Gattuso, J.-P., Publications Office of the European Union, Luxembourg, 18–19, 2010.
Riebesell, U. and Gattuso, J.-P.: Lessons learned from ocean acidification research, Nat. Clim. Chang., 5, 12–14, 2015.
Riebesell, U., Gattuso, J.-P., Thingstad, T. F., and Middelburg, J. J.: Arctic ocean acidification: pelagic ecosystem and biogeochemical responses during a mesocosm study, Biogeosciences, 10, 5619–5626, https://doi.org/10.5194/bg-10-5619-2013, 2013.
Rokitta, S. D.: Characterization of the life-cycle stages of the coccolithophore Emiliania huxleyi and their responses to ocean acidification, Ph.D. thesis, University of Bremen, Bremen, 2012.
Sørensen, S.: Enzymstudien II: Uber die Messung und die Bedeutung der Wasserstoffionenkonzentration bei enzymatischen Prozessen, Biochem. Zeit, 21, 131–200, 1909.
Steinacher, M., Joos, F., Frölicher, T. L., Plattner, G.-K., and Doney, S. C.: Imminent ocean acidification projected with the NCAR global coupled carbon cycle-climate model, Biogeosciences , 6, 515–533, https://doi.org/10.5194/bg-6-515-2009, 2009.
Traganza, E. D.: Dynamics of the carbon dioxide system on the Great Bahama Bank, Bull. Mar. Sci., 17, 348–366, 1967.
Vernon, H. M.: The effect of environment on the development of echinoderm larvae: an experimental inquiry into the causes of variation, Philos. Trans. R. Soc. London B Biol. Sci., 186, 577–632, 1895.
Zeebe, R. E. and Wolf-Gladrow, D. A.: CO
2 in seawater: equilibrium,
kinetics, isotopes, Elsevier Oceanography Series, Amsterdam, 2001.
The exponential growth of studies on the biological response to ocean acidification over the last few decades has generated a large amount of data. To facilitate data comparison, a data compilation was initiated in 2008 and is updated on a regular basis. By January 2015, a total of 581 data sets (over 4,000,000 data points) from 539 papers had been archived.
The exponential growth of studies on the biological response to ocean acidification over the...