cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1594/pangaea.961093
title: Seawater carbonate chemistry and properties of the exoskeleton in adult Tanner crabs, Chionoecetes bairdi

description: Ocean acidification can affect the ability of calcifying organisms to build and maintain mineralized tissue. In decapod crustaceans, the exoskeleton is a multilayered structure composed of chitin, protein, and mineral, predominately magnesian calcite or amorphous calcium carbonate (ACC). We investigated the effects of acidification on the exoskeleton of mature (post-terminal-molt) female southern Tanner crabs, Chionoecetes bairdi. Crabs were exposed to one of three pH levels—8.1, 7.8, or 7.5—for two years. Reduced pH led to a suite of body-region-specific effects on the exoskeleton. Microhardness of the claw was 38% lower in crabs at pH 7.5 compared with those at pH 8.1, but carapace microhardness was unaffected by pH. In contrast, reduced pH altered elemental content in the carapace (reduced calcium, increased magnesium), but not the claw. Diminished structural integrity and thinning of the exoskeleton was observed at reduced pH in both body regions; internal erosion of the carapace was present in most crabs at pH 7.5, and the claws of these crabs showed substantial external erosion, with tooth-like denticles nearly or completely worn away. Using infrared spectroscopy, we observed a shift in the phase of calcium carbonate present in the carapace of pH-7.5 crabs: a mix of ACC and calcite was found in the carapace of crabs at pH 8.1, whereas the bulk of calcium carbonate had transformed to calcite in pH-7.5 crabs. With limited capacity for repair, the exoskeleton of long-lived crabs that undergo a terminal molt, such as C. bairdi, may be especially susceptible to ocean acidification.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2022) 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 2023-07-24.
DOI: 10.1594/pangaea.914821
title: Seawater carbonate chemistry and shell growth and strength in two intertidal gastropods

description: Many marine organisms rely on calcified hard parts to resist predation, and ocean acidification (OA) affects calcification negatively. However, calcification-related consequences may manifest in variable and/or cryptic ways across species. For example, shell strength is a primary defense for resisting shell-crushing predation, yet the consequences of OA on such biomechanical properties cannot be assessed visually. We exposed 2 species of intertidal gastropods common to the west coast of North America (the black turban snail Tegula funebralis and the striped dogwhelk Nucella ostrina) to OA (pH decreased by ~0.5 units) and predation cues for 6 mo, then measured both shell growth and strength. Shell growth in T. funebralis was significantly depressed under OA and in the presence of predation cues (declines of 83 and 63%, respectively). Shells produced by OA-exposed T. funebralis were also 50% weaker. In contrast, shell growth of N. ostrina was unaffected by OA, yet its shells were still 10% weaker. These findings highlight the potential for both different and easily overlooked responses of organisms to seawater acidification. Moreover, such results raise the possibility of ensuing shifts in consumption rates and rankings of prey items by shell-crushing predators, leading to shifts in the balance of species interactions in temperate shoreline communities.
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 2020-04-02.
DOI: 10.1594/pangaea.873048
title: Rapid transcriptional acclimation following transgenerational exposure of oysters to ocean acidification

description: Marine organisms need to adapt in order to cope with the adverse effects of ocean acidification and warming. Transgenerational exposure to CO2 stress has been shown to enhance resilience to ocean acidification in offspring from a number of species. However, the molecular basis underlying such adaptive responses is currently unknown. Here, we compared the transcriptional profiles of two genetically distinct oyster breeding lines following transgenerational exposure to elevated CO2 in order to explore the molecular basis of acclimation or adaptation to ocean acidification in these organisms. The expression of key target genes associated with antioxidant defence, metabolism and the cytoskeleton was assessed in oysters exposed to elevated CO2 over three consecutive generations. This set of target genes was chosen specifically to test whether altered responsiveness of intracellular stress responses contributes to the differential acclimation of oyster populations to climate stressors. Transgenerational exposure to elevated CO2 resulted in changes to both basal and inducible expression of those key target genes (e.g. ecSOD, catalase and peroxiredoxin 6), particularly in oysters derived from the disease-resistant, fast-growing B2 line. Exposure to CO2 stress over consecutive generations produced opposite and less evident effects on transcription in a second population that was derived from wild type (non-selected) oysters. The analysis of key target genes revealed that the acute responses of oysters to CO2 stress appear to be affected by population-specific genetic and/or phenotypic traits, and by the CO2 conditions to which their parents had been exposed. This supports the contention that the capacity for heritable change in response to ocean acidification varies between oyster breeding lines and is mediated by parental conditioning.
description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2016) 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 2017-02-27.
description: Supplement to: Goncalves, Priscila; Anderson, Kelli; Thompson, Emma L; Melwani, Aroon; Parker, Laura M; Ross, Pauline M; Raftos, David A (2016): Rapid transcriptional acclimation following transgenerational exposure of oysters to ocean acidification. Molecular Ecology, 25(19), 4836-4849
DOI: 10.1594/pangaea.911746
title: Seawater carbonate chemistry and mussel shell defense capacity of Mytilus coruscus

description: Oceanic uptake of atmospheric CO2 is reducing seawater pH and shifting carbonate chemistry within, a process termed as ocean acidification (OA). Marine mussels are a family of ecologically and economically significant bivalves that are widely distributed along coastal areas worldwide. Studies have demonstrated that OA greatly disrupts mussels' physiological functions. However, the underlying molecular responses (e.g., whether there were any molecular compensation mechanisms) and the extent to which OA affects mussel shell defense capacity remain largely unknown. In this study, the thick shell mussels Mytilus coruscus were exposed to the ambient pH (8.1) or one of two lowered pH levels (7.8 and 7.4) for 40 days. The results suggest that future OA will damage shell structure and weaken shell strength and shell closure strength, ultimately reducing mussel shell defense capacity. In addition, future OA will also disrupt haemolymph pH and Ca2+ homeostasis, leading to extracellular acidosis and Ca2+ deficiency. Mantle transcriptome analyses indicate that mussels will adopt a series of molecular compensatory responses to mitigate these adverse effects; nevertheless, weakened shell defense capacity will increase mussels' susceptibility to predators, parasites and pathogens, and thereby reduce their fitness. Overall, the findings of this study have significant ecological and economic implications, and will enhance our understanding of the future of the mussel aquaculture industry and coastal ecosystems.
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 2020-02-03.
description: Supplement to: Zhao, Xinguo; Han, Yu; Chen, Bijuan; Xia, Bin; Qu, Keming; Liu, Guangxu (2020): CO2-driven ocean acidification weakens mussel shell defense capacity and induces global molecular compensatory responses. Chemosphere, 243, 125415
DOI: 10.1594/pangaea.911619
title: Seawater carbonate chemistry and crystallography and carbon uptake in the shells of Saccostrea glomerata

description: Commercial shellfish aquaculture is vulnerable to the impacts of ocean acidification driven by increasing carbon dioxide (CO2) absorption by the ocean as well as to coastal acidification driven by land run off and rising sea level. These drivers of environmental acidification have deleterious effects on biomineralization. We investigated shell biomineralization of selectively bred and wild‐type families of the Sydney rock oyster Saccostrea glomerata in a study of oysters being farmed in estuaries at aquaculture leases differing in environmental acidification. The contrasting estuarine pH regimes enabled us to determine the mechanisms of shell growth and the vulnerability of this species to contemporary environmental acidification. Determination of the source of carbon, the mechanism of carbon uptake and use of carbon in biomineral formation are key to understanding the vulnerability of shellfish aquaculture to contemporary and future environmental acidification. We, therefore, characterized the crystallography and carbon uptake in the shells of S. glomerata, resident in habitats subjected to coastal acidification, using high‐resolution electron backscatter diffraction and carbon isotope analyses (as δ13C). We show that oyster families selectively bred for fast growth and families selected for disease resistance can alter their mechanisms of calcite crystal biomineralization, promoting resilience to acidification. The responses of S. glomerata to acidification in their estuarine habitat provide key insights into mechanisms of mollusc shell growth under future climate change conditions. Importantly, we show that selective breeding in oysters is likely to be an important global mitigation strategy for sustainable shellfish aquaculture to withstand future climate‐driven change to habitat 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 2020-02-03.
description: Supplement to: Fitzer, Susan C; McGill, Rona A R; Torres Gabarda, Sergio; Hughes, Brian; Dove, Michael; O'Connor, Wayne A; Byrne, Maria (2019): Selectively bred oysters can alter their biomineralization pathways, promoting resilience to environmental acidification. Global Change Biology, 25(12), 4105-4115
DOI: 10.1594/pangaea.778453
title: Seawater carbonate chemistry and DNA, RNA, proteins and mass of Gadus morhua during experiments (Experiment 4), 2012

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).
DOI: 10.1594/pangaea.914692
title: Experiment treatments for sea urchin larvae in response to Vibrio infection under pharmacological and ocean acidification treatments
DOI: 10.1594/pangaea.830074
title: Experiment: Competition between calcifying and noncalcifying temperate marine macroalgae under elevated CO2 levels

description: Since pre-industrial times, uptake of anthropogenic CO2 by surface ocean waters has caused a documented change of 0.1 pH units. Calcifying organisms are sensitive to elevated CO2 concentrations due to their calcium carbonate skeletons. In temperate rocky intertidal environments, calcifying and noncalcifying macroalgae make up diverse benthic photoautotrophic communities. These communities may change as calcifiers and noncalcifiers respond differently to rising CO2 concentrations. In order to test this hypothesis, we conducted an 86 d mesocosm experiment to investigate the physiological and competitive responses of calcifying and noncalcifying temperate marine macroalgae to 385, 665, and 1486 µatm CO2. We focused on comparing 2 abundant red algae in the Northeast Atlantic: Corallina officinalis (calcifying) and Chondrus crispus (noncalcifying). We found an interactive effect of CO2 concentration and exposure time on growth rates of C. officinalis, and total protein and carbohydrate concentrations in both species. Photosynthetic rates did not show a strong response. Calcification in C. officinalis showed a parabolic response, while skeletal inorganic carbon decreased with increasing CO2. Community structure changed, as Chondrus crispus cover increased in all treatments, while C. officinalis cover decreased in both elevated-CO2 treatments. Photochemical parameters of other species are also presented. Our results suggest that CO2 will alter the competitive strengths of calcifying and noncalcifying temperate benthic macroalgae, resulting in different community structures, unless these species are able to adapt at a rate similar to or faster than the current rate of increasing sea-surface CO2 concentrations.
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). The date of carbonate chemistry calculation by seacarb is 2014-02-11.
description: Supplement to: Hofmann, Laurie C; Straub, Susanne M; Bischof, Kai (2012): Competition between calcifying and noncalcifying temperate marine macroalgae under elevated CO2 levels. Marine Ecology Progress Series, 464, 89-105
DOI: 10.1594/pangaea.910347
title: In vitro measurements of seawater carbonate chemistry in response to ocean acidification, daytime and simulated density of F. vesiculosus

description: A transect from the rim to the inner part of a Fucus stand was simulated by connecting 5 aquaria (replicated 3 times) in a series with 1 Fucus individual in each aquaria except the first. Thus the water chemistry in the successive aquaria reflected the presence and metabolism of 0, 1, 2, 3, and 4 Fucus individuals “upstream”. The water flowing through each series stemmed from a header tank which was either acidified or not.
DOI: 10.1594/pangaea.911559
title: Seawater carbonate chemistry and reproduction and embryonic development in the pygmy squid, Idiosepius pygmaeus

description: The oceans are absorbing additional carbon dioxide (CO2) from the atmosphere and projected future CO2 levels and ocean acidification could have negative implications for many marine organisms, especially during early life stages. Cephalopods are ecologically important in marine ecosystems, yet the potential effects of increased partial pressure of CO2 (pCO2) in seawater on cephalopod reproduction and embryonic development are little studied. We allowed adult two-toned pygmy squid (Idiosepius pygmaeus) to breed in ambient control (∼445 μatm; ∼8.05 pH) or elevated pCO2 conditions (∼940 μatm; ∼7.78 pH) and compared reproductive traits in adults and developmental characteristics of their eggs, which remained in control or elevated pCO2 treatments until hatching. Breeding pairs at elevated pCO2 produced clutches with 40% fewer eggs, vitelli that were 14% smaller directly after spawning, embryos that were 5% smaller upon hatching, and eggs with an 8% increase in late-stage egg swelling compared with pairs at control conditions. Elevated pCO2 did not affect fertility, time to hatch, or hatching success. Eggs were laid 40% closer together in elevated pCO2 compared with control conditions, indicating a possible effect of elevated pCO2 on reproductive behaviour. These results show that elevated pCO2 can adversely affect reproduction and embryonic development of the two-toned pygmy squid. As the potential for adaptation is influenced by reproductive success, testing the capacity for squid to adapt to future ocean conditions should be a priority for future research.
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 2020-01-28.
description: Supplement to: Spady, Blake L; Munday, Philip L; Watson, Sue-Ann (2020): Elevated seawater pCO2 affects reproduction and embryonic development in the pygmy squid, Idiosepius pygmaeus. Marine Environmental Research, 153, 104812
DOI: 10.1594/pangaea.901177
title: Seawater carbonate chemistry and post-settlement individual size of a robust fouling bryozoan, Bugula neritina during acclimation experiment

description: In order to allow full comparability with other ocean acidification data sets, the R package seacarb (Gattuso et al, 2016) 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 2019-04-25.
DOI: 10.1594/pangaea.911395
title: Seawater carbonate chemistry and larval size, number of significant SNPs of Mytilus galloprovincialis

description: Global climate change has intensified the need to assess the capacity for natural populations to adapt to abrupt shifts in the environment. Reductions in seawater pH constitute a conspicuous global change stressor that is affecting marine ecosystems globally. Here, we quantify the phenotypic and genetic modifications associated with rapid adaptation to reduced seawater pH in the Mediterranean mussel, Mytilus galloprovincialis. We reared a genetically diverse larval population in two pH treatments (pHT 8.1 and 7.4) and tracked changes in the shell-size distribution and genetic variation through settlement. Additionally, we identified differences in the signatures of selection on shell growth in each pH environment. Both phenotypic and genetic data show that standing variation can facilitate adaptation to declines in seawater pH. This work provides insight into the processes underpinning rapid evolution, and demonstrates the importance of maintaining variation within natural populations to bolster species' adaptive capacity as global change progresses.
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 2020-01-28.
description: Supplement to: Bitter, M C; Kapsenberg, Lydia; Gattuso, Jean-Pierre; Pfister, Catherine A (2019): Standing genetic variation fuels rapid adaptation to ocean acidification. Nature Communications, 10(1)
DOI: 10.1594/pangaea.908246
title: Seawater carbonate chemistry and 109Cd, 57Co, and 134Cs bioconcentration by the European oyster (Ostrea edulis)

description: The uptake and depuration kinetics of dissolved 109Cd, 57Co and 134Cs were determined experimentally in the European flat oyster Ostrea edulis (Linnaeus, 1758) under different pH conditions (i.e., 8.1, 7.8 and 7.5) for 59 days. Uptake and depuration rates were variable within these elements; no effects were observed under different pH conditions for the uptake biokinetics of 109Cd and 57Co and depuration of 109Cd and 134Cs in oyster. The uptake and depuration rate constants of 134Cs differed during the exposure phase between treatments, while the steady state concentration factors (CFss) were similar. The resulting Cs activity that was purged during short- and long-term depuration phases differed, while the remaining activities after thirty-nine days depuration phase (RA39d) were similar. Co-57 depuration was affected by pCO2 conditions: RA39d were found to be significantly higher in oysters reared in normocapnia (pCO2 = 350 μatm) compared to high pCO2 conditions. Co-57 tissue distribution did not differ among the variable pCO2 conditions, while 109Cd and 134Cs accumulated in soft tissue of oysters were found to be higher under the highest pCO2. Additionally, Cd, Co and Cs were stored differently in various compartments of the oyster cells, i.e. cellular debris, metal-rich granules (MRG) and metallothionein-like proteins (MTLP), respectively. The subcellular sequestration of the elements at the end of the depuration phase did not differ among pH treatments. These results suggest that bioconcentration and tissue/subcellular distribution are element-specific in the oyster, and the effects of higher pCO2 driven acidification and/or coastal acidification variably influence these processes.
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 2019-11-08.
description: Supplement to: Sezer, Narin; Kılıç, Önder; Metian, Marc; Belivermis, Murat (2018): Effects of ocean acidification on 109Cd, 57Co, and 134Cs bioconcentration by the European oyster (Ostrea edulis): Biokinetics and tissue-to-subcellular partitioning. Journal of Environmental Radioactivity, 192, 376-384