cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1594/pangaea.716842
title: Seawater carbonate chemistry and calcification during a tropical lagoon study at Uvea lagoon, New Caledonia, 1995

description: Tropical ecosystem understanding is related to reef compartment functioning and to a lesser extent to mangrove systems. Reef metabolic budget is considered to be approximatively balanced with a very weak net production in spite of a large gross production (Crossland et al., 1991 ; Gattuso et al., 1993) when carbon export of inangroves to adjacent systems appears more and more problematic (Alongi & Christoffersen, 1992). As a consequence, structuring mechanisms of the vast stretch of sedimentary bottoms found in most lagoons is still misunderstood. These biogenic accuniulation of particules, up to now considered as the result of reef exportation, and to a lesser extend to mangrove input, have focussed little attention as far as the carbon budgets are concerned (Sorokin, 1993). Rare studies were obtained from oxygen measurements transformed in carbon by the way of metabolic quotients previously calculated in temperate ecosystems or even on planctonic organisms. Such an approach is conceivable in preliminary studies but needs an improvement to balance coral reef udget. Our research constitute an adaptation of carbon bugdet investigations undertaken in temperate marine sediments by Hargrave & Phillips (198 1) to coral systems.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI).
description: Supplement to: Boucher, Guy; Clavier, Jacques (1995): Carbon flux at the water-sediment interface of tropical lagoons. International Workshop on Carbon cycling and coral reef metabolism, Miyakojima, Japan, 76-81
DOI: 10.1594/pangaea.729055
title: Seawater carbonate chemistry and calcification during experiments with a coral Madracis auretenra, 2010

description: Physiological data and models of coral calcification indicate that corals utilize a combination of seawater bicarbonate and (mainly) respiratory CO2 for calcification, not seawater carbonate. However, a number of investigators are attributing observed negative effects of experimental seawater acidification by CO2 or hydrochloric acid additions to a reduction in seawater carbonate ion concentration and thus aragonite saturation state. Thus, there is a discrepancy between the physiological and geochemical views of coral biomineralization. Furthermore, not all calcifying organisms respond negatively to decreased pH or saturation state. Together, these discrepancies suggest that other physiological mechanisms, such as a direct effect of reduced pH on calcium or bicarbonate ion transport and/or variable ability to regulate internal pH, are responsible for the variability in reported experimental effects of acidification on calcification. To distinguish the effects of pH, carbonate concentration and bicarbonate concentration on coral calcification, incubations were performed with the coral Madracis auretenra (= Madracis mirabilis sensu Wells, 1973) in modified seawater chemistries. Carbonate parameters were manipulated to isolate the effects of each parameter more effectively than in previous studies, with a total of six different chemistries. Among treatment differences were highly significant. The corals responded strongly to variation in bicarbonate concentration, but not consistently to carbonate concentration, aragonite saturation state or pH. Corals calcified at normal or elevated rates under low pH (7.6-7.8) when the seawater bicarbonate concentrations were above 1800 µm. Conversely, corals incubated at normal pH had low calcification rates if the bicarbonate concentration was lowered. These results demonstrate that coral responses to ocean acidification are more diverse than currently thought, and question the reliability of using carbonate concentration or aragonite saturation state as the sole predictor of the effects of ocean acidification on coral calcification.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne and Gattuso, 2011) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI).
description: Supplement to: Jury, Christopher P; Whitehead, Robert F; Szmant, A M (2010): Effects of variations in carbonate chemistry on the calcification rates of Madracis auretenra (= Madracis mirabilis sensu Wells, 1973): bicarbonate concentrations best predict calcification rates. Global Change Biology, 16(5), 1632-1644
DOI: 10.1594/pangaea.920153
title: Seawater carbonate chemistry and gene expression in the gills of juvenile turbot (Psetta maxima)

description: The data sets stem from a study which aimed to investigate the impact of chronic severe hypercapnia on the cellular stress response in the gills of juvenile turbot (Psetta maxima). The experiment was conducted in the so called respirometer, a recirculating aquaculture respirometer system (RARS) which allowed the persistent, stable manipulation of carbon dioxide concentrations. Juvenile turbot (Psetta maxima) where subjected to different levels of environmental hypercapnia (low: ~3000 μatm, medium: ~15000 μatm, high: ~25000 μatm). After eight weeks, fish where sacrificed and gill samples were taken for further histological and transcriptional analysis. For histological investigation of the gills, samples where fixed in 4% phosphate-buffered formalin and examined via a microscope equipped with a digital camera. In order to investigate changes in the transcriptome, a fraction of the gill samples was stored in RNAlater. Relative gene expression analysis was conducted via RT-qPCR, using a Fluidigm chip system. Calibrated normalized relative quantities (CNRQs) where assessed with the QBASE software. This included the evaluation of the most suitable combination of reference genes with the help of the GeNorm algorithm.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2019) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2020-07-07.
DOI: 10.1594/pangaea.837678
title: Light-modulated responses of growth and photosynthetic performance to ocean acidification in the model diatom Phaeodactylum tricornutum

description: Ocean acidification (OA) due to atmospheric CO2 rise is expected to influence marine primary productivity. In order to investigate the interactive effects of OA and light changes on diatoms, we grew Phaeodactylum tricornutum, under ambient (390 ppmv; LC) and elevated CO2 (1000 ppmv; HC) conditions for 80 generations, and measured its physiological performance under different light levels (60 µmol/m**2/s, LL; 200 µmol/m**2/s, ML; 460 µmol/m**2/s, HL) for another 25 generations. The specific growth rate of the HC-grown cells was higher (about 12-18%) than that of the LC-grown ones, with the highest under the ML level. With increasing light levels, the effective photochemical yield of PSII (Fv'/Fm') decreased, but was enhanced by the elevated CO2, especially under the HL level. The cells acclimated to the HC condition showed a higher recovery rate of their photochemical yield of PSII compared to the LC-grown cells. For the HC-grown cells, dissolved inorganic carbon or CO2 levels for half saturation of photosynthesis (K1/2 DIC or K1/2 CO2) increased by 11, 55 and 32%, under the LL, ML and HL levels, reflecting a light dependent down-regulation of carbon concentrating mechanisms (CCMs). The linkage between higher level of the CCMs down-regulation and higher growth rate at ML under OA supports the theory that the saved energy from CCMs down-regulation adds on to enhance the growth of the diatom.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne et al, 2014) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation is 2014-10-31.
description: Supplement to: Li, Yahe; Xu, Juntian; Gao, Kunshan (2014): Light-Modulated Responses of Growth and Photosynthetic Performance to Ocean Acidification in the Model Diatom Phaeodactylum tricornutum. PLoS ONE, 9(5), e96173
DOI: 10.1594/pangaea.922070
title: Seawater carbonate chemistry and heart rate of Caprellid amphipods

description: Ocean acidification (OA) is one of the most significant threats to marine life, and is predicted to drive important changes in marine communities. Although OA impacts will be the sum of direct effects mediated by alterations of physiological rates and indirect effects mediated by shifts in species interactions and biogenic habitat provision, direct and indirect effects are rarely considered together for any given species. Here, we assess the potential direct and indirect effects of OA on a ubiquitous group of crustaceans: caprellid amphipods (Caprella laeviuscula and Caprella mutica). Direct physiological effects were assessed by measuring caprellid heart rate in response to acidification in the laboratory. Indirect effects were explored by quantifying caprellid habitat dependence on the hydroid Obelia dichotoma, which has been shown to be less abundant under experimental acidification. We found that OA resulted in elevated caprellid heart rates, suggestive of increased metabolic demand. We also found a strong, positive association between caprellid population size and the availability of OA-vulnerable O. dichotoma, suggesting that future losses of biogenic habitat may be an important indirect effect of OA on caprellids. For species such as caprellid amphipods, which have strong associations with biogenic habitat, a consideration of only direct or indirect effects could potentially misestimate the full impact of ocean acidification.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2019) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2020-07-07.
DOI: 10.1594/pangaea.944812
title: Seawater carbonate chemistry and development and biochemical responses of juvenile shrimp Palaemon elegans

description: Anthropogenic CO2 emissions have led to the warming and acidification of the oceans. Although, there is a growing of evidence showing that simultaneous occurrence of ocean acidification and ocean warming are threats to marine organisms, information on their combined effect on coastal shrimp species remains scarce. The purpose of this study was to estimate the combined effects of seawater acidification and warming on growth-related traits and biochemical responses of P. elegans juveniles. In this work, shrimp were exposed for 65 days at 4 experimental conditions: pH 8.10 * 18 °C, pH 7.80 * 18 °C, pH 8.10 * 22 °C, pH 7.80 * 22 °C. The results showed that low pH decreases the lipid content by ∼13% (p &lt; 0.05). Higher temperature reduced the condition factor by ∼11%, the protein content by ∼20%, the PUFA by ∼8,6% and shortened moulting events by 5 days (p &gt; 0.05) while the SFA increased ∼9.4%. The decrease in condition factor and protein was however more prominent in organisms exposed to the combination of pH and temperature with a decrease of ∼13% and ∼21%, respectively. Furthermore, essential fatty acids as EPA and DHA also decreased by ∼20% and ∼6.6% in low pH and higher temperature condition. Despite this study suggest that warming may have a greater impact than acidification, it has been shown that their combined effect can exacerbate these impacts with consequences for the shrimp's body size and biochemical profile.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2022-05-24.
DOI: 10.1594/pangaea.864044
title: Echinometra sea urchins acclimatised to elevated pCO2 at volcanic vents outperform those under present-day pCO2 conditions

description: Rising atmospheric CO2 concentrations will significantly reduce ocean pH during the 21st century (ocean acidification, OA). This may hamper calcification in marine organisms such as corals and echinoderms, as shown in many laboratory-based experiments. Sea urchins are considered highly vulnerable to OA. We studied an Echinometra species on natural volcanic CO2 vents in Papua New Guinea, where they are CO2-acclimatized and also subjected to secondary ecological changes from elevated CO2. Near the vent site, the urchins experienced large daily variations in pH (&gt; 1 unit) and pCO2 (&gt; 2000 ppm) and average pH values (pHT 7.73) much below those expected under the most pessimistic future emission scenarios. Growth was measured over a 17-month period using tetracycline tagging of the calcareous feeding lanterns. Average-sized urchins grew more than twice as fast at the vent compared with those at an adjacent control site, and assumed larger sizes at the vent compared to the control site and two other sites at another reef near-by. A small reduction in gonad weight was detected at the vents, but no differences in mortality, respiration, or degree of test calcification were detected between urchins from vent and control populations. Thus, urchins did not only persist but actually 'thrived' under extreme CO2 conditions. We suggest an ecological basis for this response: increased algal productivity under increased pCO2 provided more food at the vent, resulting in higher growth rates. The wider implication of our observation is that laboratory studies on non-acclimatized specimens, which typically do not consider ecological changes, can lead to erroneous conclusions on responses to global change.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2015) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI).The date of carbonate chemistry calculation is 2016-08-24.
description: Supplement to: Uthicke, Sven; Ebert, Thomas; Liddy, Michelle; Johansson, Charlotte; Fabricius, Katharina Elisabeth; Lamare, Miles (2016): Echinometra sea urchins acclimatised to elevated pCO2 at volcanic vents outperform those under present-day pCO2 conditions. Global Change Biology, 22(7), 2451-2461
DOI: 10.1594/pangaea.944515
title: Seawater carbonate chemistry and the growth of North Atlantic bivalves

description: Coastal zones can be focal points of acidification where the influx of atmospheric CO2 can be compounded by additional sources of acidity that may collectively impair calcifying organisms. While the photosynthetic action of macrophytes may buffer against coastal ocean acidification, such activity has not been well-studied, particularly among aquacultured seaweeds. Here, we report on field and laboratory experiments performed with North Atlantic populations of juvenile hard clams (Mercenaria mercenaria), eastern oysters (Crassostrea virginica), and blue mussels (Mytilus edulis) grown with and without increased CO2 and with and without North Atlantic kelp (Saccharina latissima) over a range of aquaculture densities (0.3 – 2 g/L). In all laboratory experiments, exposure to elevated pCO2 (&gt;1,800 µatm) resulted in significantly reduced shell- and/or tissue-based growth rates of bivalves relative to control conditions. This impairment was fully mitigated when bivalves were exposed to the same acidification source but also co-cultured with kelp. Saturation states of aragonite were transformed from undersaturated to saturated in the acidification treatments with kelp present, while the acidification treatments remained undersaturated. In a field experiment, oysters grown near aquacultured kelp were exposed to higher pH waters and experienced significantly faster shell and tissue based growth rates compared to individuals grown at sites away from kelp. Collectively, these results suggest that photosynthesis by S. latissima grown at densities associated with aquaculture increased pH and decreased pCO2, fostering a carbonate chemistry regime that maximized the growth of juvenile bivalves. As S. latissima has been shown to benefit from increased CO2, growing bivalves and kelp together under current or future acidification scenarios may be a synergistically beneficial integrated, multi-trophic aquaculture approach.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2022-05-24.
DOI: 10.1594/pangaea.812002
title: Chemistry of porewater for the Exuma Island region of the Bahamas

description: Estimated error for sediment depth = 0.02 m.
DOI: 10.1594/pangaea.848012
title: A quantitative genetic approach to assess the evolutionary potential of a coastal marine fish to ocean acidification

description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2015) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation is 2015-07-09.
DOI: 10.1594/pangaea.944930
title: Seawater carbonate chemistry and mechanical properties of shark teeth

description: Ocean acidification can cause dissolution of calcium carbonate minerals in biological structures of many marine organisms, which can be exacerbated by warming. However, it is still unclear whether this also affects organisms that have body parts made of calcium phosphate minerals (e.g. shark teeth), which may also be impacted by the 'corrosive' effect of acidified seawater. Thus, we examined the effect of ocean acidification and warming on the mechanical properties of shark teeth (Port Jackson shark, Heterodontus portusjacksoni), and assessed whether their mineralogical properties can be modified in response to predicted near-future seawater pH (–0.3 units) and temperature (+3°C) changes. We found that warming resulted in the production of more brittle teeth (higher elastic modulus and lower mechanical resilience) that were more vulnerable to physical damage. Yet, when combined with ocean acidification, the durability of teeth increased (i.e. less prone to physical damage due to the production of more elastic teeth) so that they did not differ from those raised under ambient conditions. The teeth were chiefly made of fluorapatite (Ca5(PO4)3F), with increased fluoride content under ocean acidification that was associated with increased crystallinity. The increased precipitation of this highly insoluble mineral under ocean acidification suggests that the sharks could modulate and enhance biomineralization to produce teeth which are more resistant to corrosion. This adaptive mineralogical adjustment could allow some shark species to maintain durability and functionality of their teeth, which underpins a fundamental component of predation and sustenance of the trophic dynamics of future oceans.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2021) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation by seacarb is 2022-06-02.
DOI: 10.1594/pangaea.838995
title: Contrasting effects of ocean acidification on tropical fleshy and calcareous algae

description: Despite the heightened awareness of ocean acidification (OA) effects on marine organisms, few studies empirically juxtapose biological responses to CO2 manipulations across functionally distinct primary producers, particularly benthic algae. Algal responses to OA may vary because increasing CO2 has the potential to fertilize photosynthesis but impair biomineralization. Using a series of repeated experiments on Palmyra Atoll, simulated OA effects were tested across a suite of ecologically important coral reef algae, including five fleshy and six calcareous species. Growth, calcification and photophysiology were measured for each species independently and metrics were combined from each experiment using a meta-analysis to examine overall trends across functional groups categorized as fleshy, upright calcareous, and crustose coralline algae (CCA). The magnitude of the effect of OA on algal growth response varied by species, but the direction was consistent within functional groups. Exposure to OA conditions generally enhanced growth in fleshy macroalgae, reduced net calcification in upright calcareous algae, and caused net dissolution in CCA. Additionally, three of the five fleshy seaweeds tested became reproductive upon exposure to OA conditions. There was no consistent effect of OA on algal photophysiology. Our study provides experimental evidence to support the hypothesis that OA will reduce the ability of calcareous algae to biomineralize. Further, we show that CO2 enrichment either will stimulate population or somatic growth in some species of fleshy macroalgae. Thus, our results suggest that projected OA conditions may favor non-calcifying algae and influence the relative dominance of fleshy macroalgae on reefs, perpetuating or exacerbating existing shifts in reef community structure.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Lavigne et al, 2014) was used to compute a complete and consistent set of carbonate system variables, as described by Nisumaa et al. (2010). In this dataset the original values were archived in addition with the recalculated parameters (see related PI). The date of carbonate chemistry calculation is 2014-11-18.
description: Supplement to: Johnson, Maggie Dorothy; Price, Nichole N; Smith, Jennifer E (2014): Contrasting effects of ocean acidification on tropical fleshy and calcareous algae. PeerJ, 2, e411