cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.1594/pangaea.860710
title: Fit procedure with experimental data

description: Maximum measured calcite to organic carbon (PIC:POC) ratio and maximum population mean coccosphere diameter of the four coccolithophore investigated here. (Values were extracted from data by Bach et al., 2013, Bach et al., 2012, Bach et al., 2011, Langer et al., 2006 and Sett et al., 2014, and this study). Maximum values for PIC:POC and coccosphere diameter are a good indicator for the species' calcification and cell size potential. Note, however, that each species can have lower PIC:POC ratios and be smaller under non-optimal carbonate chemistry conditions. Sensitivity parameters (a, b, c, d) of calcification rates were obtained by fitting measured calcification rates of 4 coccolithophore species (given in table S1: hdl:10013/epic.47926.d001) with Eq. (5). Note that their units need to be a = dimensionless, b = mol/kg, c and d = kg/mol and concentrations of CO2, HCO3- and H+ in mol/kg in order to get a dimensionless factor for calcification rates from Eq. (5). Carbonate chemistry conditions where calcification rates either reach 50% of their maxima (OPT1/2 - i.e. left of the optimum; Fig. 3) or decrease down to 50% after having reached maximum values (SubOPT1/2 - i.e. right of the optimum; Fig. 3) were calculated from pCO2 and TA determined in Fig. 3. R2 values determine to what extent a fit with Eq. (5) is able to reproduce the data. For further analysis of the fit quality see Fig. 1.
DOI: 10.1594/pangaea.973432
title: Concentrations of palynomorphs in sediment core AMD0509-20

description: The concentration of palynomorphs was estimated from the marker-grain methods and reported in specimens per cubic centimetre of wet sediment. The palynomorphs include marine microfossils (dinocysts, organic linings of foraminifers and remains of ciliates), freshwater microfossils (Pediastrum), pollen and spores from land vegetation, in addition to reworked palynomorphs.The data are reported vs depth and vs ages calibrated based on Marine20.
DOI: 10.1594/pangaea.951332
title: Seawater carbonate chemistry and the decrease of H+ concentration in the phycosphere and thickness of the pH boundary layer of marine diatoms Coscinodiscus wailesii

description: Surface ocean pH is declining due to anthropogenic atmospheric CO2 uptake with a global decline of ~0.3 possible by 2100. Extracellular pH influences a range of biological processes, including nutrient uptake, calcification and silicification. However, there are poor constraints on how pH levels in the extracellular microenvironment surrounding phytoplankton cells (the phycosphere) differ from bulk seawater. This adds uncertainty to biological impacts of environmental change. Furthermore, previous modelling work suggests that phycosphere pH of small cells is close to bulk seawater, and this has not been experimentally verified. Here we observe under 140 μmol photons/m**2/s the phycosphere pH of Chlamydomonas concordia (5 µm diameter), Emiliania huxleyi (5 µm), Coscinodiscus radiatus (50 µm) and C. wailesii (100 µm) are 0.11 ± 0.07, 0.20 ± 0.09, 0.41 ± 0.04 and 0.15 ± 0.20 (mean ± SD) higher than bulk seawater (pH 8.00), respectively. Thickness of the pH boundary layer of C. wailesii increases from 18 ± 4 to 122 ± 17 µm when bulk seawater pH decreases from 8.00 to 7.78. Phycosphere pH is regulated by photosynthesis and extracellular enzymatic transformation of bicarbonate, as well as being influenced by light intensity and seawater pH and buffering capacity. The pH change alters Fe speciation in the phycosphere, and hence Fe availability to phytoplankton is likely better predicted by the phycosphere, rather than bulk seawater. Overall, the precise quantification of chemical conditions in the phycosphere is crucial for assessing the sensitivity of marine phytoplankton to ongoing ocean acidification and Fe limitation in surface 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 2022-11-25.
DOI: 10.1594/pangaea.945127
title: Seawater carbonate chemistry and blood and endolymph acid-base parameters in control and OA-exposed rockfish

description: Over a decade ago, ocean acidification (OA) exposure was reported to induce otolith overgrowth in teleost fish. This phenomenon was subsequently confirmed in multiple species; however, the underlying physiological causes remain unknown. Here, we report that splitnose rockfish (Sebastes diploproa) exposed to 1600 μatm pCO2 (pH 7.5) were able to fully regulated the pH of both blood and endolymph (the fluid that surrounds the otolith within the inner ear). However, while blood was regulated around pH 7.80, the endolymph was regulated around pH 8.30. These different pH setpoints result in increased pCO2 diffusion into the endolymph, which in turn leads to proportional increases in endolymph [HCO3−] and [CO32−]. Endolymph pH regulation despite the increased pCO2 suggests enhanced H+ removal. However, a lack of differences in inner ear bulk and cell-specific Na+/K+-ATPase and vacuolar type H+-ATPase protein abundance localization pointed out to activation of preexisting ATPases, non-bicarbonate pH buffering, or both, as the mechanism for endolymph pH-regulation. These results provide the first direct evidence showcasing the acid-base chemistry of the endolymph of OA-exposed fish favors otolith overgrowth, and suggests that this phenomenon will be more pronounced in species that count with more robust blood and endolymph pH regulatory mechanisms.
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 2022-06-08.
DOI: 10.15468/dl.9jh6tx
title: Occurrence Download

description: A dataset containing 2390 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Pseudastur polionotus (Kaup, 1847)"
 ]
}

 The dataset includes 2390 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001410-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.1594/pangaea.943567
title: Seawater carbonate chemistry and carbonate chemistry in the microenvironment within cyanobacterial aggregates

description: Photosynthesis and respiration cause distinct chemical microenvironments within cyanobacterial aggregates. Here, we used microsensors and a diffusion–reaction model to characterize gradients in carbonate chemistry and investigate how these are affected by ocean acidification in Baltic vs. Pacific aggregates (Nodularia and Dolichospermum vs. Trichodesmium). Microsensor measurements of O2 and pH were performed under in situ and expected future pCO2 levels on Nodularia and Dolichospermum aggregates collected in the Baltic Sea. Under in situ conditions, O2 and pH levels within the aggregates covered ranges of 80–175% air saturation and 7.7–9.4 in dark and light, respectively. Carbon uptake in the light was predicted to reduce HCO3− by 100–150 μmol/L and CO2 by 3–6 μmol/L in the aggregate center compared to outside, inducing strong CO2 depletion (down to 0.5 μmol/L CO2 remaining in the center) even when assuming that HCO3− covered 80–90% of carbon uptake. Under ocean acidification conditions, enhanced CO2 availability allowed for significantly lower activity of carbon concentrating mechanisms, including a reduction of the contribution of HCO3− to carbon uptake by up to a factor of 10. The magnification of proton gradients under elevated pCO2 that was predicted based on a lower buffer capacity was observed in measurements despite a concurrent decrease in photosynthetic activity. In summary, we provide a quantitative image of the inorganic carbon environment in cyanobacterial aggregates under present-day and expected future conditions, considering both the individual and combined effects of the chemical and biological processes that shape these environments.
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 2022-04-28.
DOI: 10.1594/pangaea.899481
title: Seawater carbonate chemistry and the incorporation of radio-labeled heavy metals in the larvae of the Mediterranean sea urchin Paracentrotus lividus

description: The marine organisms which inhabit the coastline are exposed to a number of anthropogenic pressures that may interact. For instance, the accumulation of toxic metals present in coastal waters is expected to be modified by ocean acidification through e.g. changes in physiological performance and/or elements availability. Changes in bioaccumulation due to lowering pH are likely to be differently affected depending on the nature (essential vs. non-essential) and speciation of each element. The Mediterranean is of high concern for possible cumulative effects due to strong human influences on the coastline.The aim of this study was to determine the effect of ocean acidification (from pH 8.1 down to −1.0 pH units) on the incorporation kinetics of six trace metals (Mn, Co, Zn, Se, Ag, Cd, Cs) and one radionuclide (241Am) in the larvae of an economically- and ecologically-relevant sea urchin of the Mediterranean coastline: Paracentrotus lividus. The radiolabelled metals and radionuclides added in trace concentrations allowed precise tracing of their incorporation in larvae during the first 74 h of their development.Independently of the expected indirect effect of pH on larval size/developmental rates, Paracentrotus lividus larvae exposed to decreasing pHs incorporated significantly more Mn and Ag and slightly less Cd. The incorporation of Co, Cs and 241Am was unchanged, and Zn and Se exhibited complex incorporation behaviors. Studies such as this are necessary prerequisites to the implementation of metal toxicity mitigation policies for the future ocean. We discuss possible reasons and mechanisms for the specific effect of pH on each metals.
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 2019-03-21.
description: Supplement to: Dorey, Narimane; Martin, Sophie; Oberhänsli, F; Teyssié, Jean-Louis; Jeffree, Ross; Lacoue-Labarthe, Thomas (2018): Ocean acidification modulates the incorporation of radio-labeled heavy metals in the larvae of the Mediterranean sea urchin Paracentrotus lividus. Journal of Environmental Radioactivity, 190-191, 20-30
DOI: 10.1594/pangaea.780178
title: Dinoflagellate abundance in sediment core JM06-WP-04-MCB
DOI: 10.1594/pangaea.816652
title: Concentration of organic-walled dinoflagellate cysts from 116 marine surface samples
DOI: 10.1594/pangaea.770071
title: Seawater carbonate chemistry and hydrogen ions and carbonate chemistry in calcifying fluid of coral Astrangia poculata during experiments, 2011

description: A generalized physicochemical model of the response of marine organisms' calcifying fluids to CO2-induced ocean acidification is proposed. The model is based upon the hypothesis that some marine calcifiers induce calcification by elevating pH, and thus Omega aragonite, of their calcifying fluid by removing protons (H+). The model is explored through two end-member scenarios: one in which a fixed number of H+ is removed from their calcifying fluid, regardless of atmospheric pCO2, and another in which a fixed external-internal proton ratio ([H+]E/[H+]I) is maintained. The model is able to generate the full range of calcification response patterns observed in prior ocean acidification experiments and is consistent with the assertion that organisms' calcification response to ocean acidification is more negative for marine calcifiers that exert weaker control over their calcifying fluid pH. The model is empirically evaluated for the temperate scleractinian coral Astrangia poculata with in situ pH microelectrode measurements of the coral's calcifying fluid under control and acidified conditions. These measurements reveal that (1) the pH of the coral's calcifying fluid is substantially elevated relative to its external seawater under both control and acidified conditions, (2) the coral's [H+]E/[H+]I remains constant under control and acidified conditions, and (3) the coral removes fewer H+ from its calcifying fluid under acidified conditions than under control conditions. Thus, the carbonate system dynamics of A. poculata's calcifying fluid appear to be most consistent with the fixed [H+]E/[H+]I end-member scenario. Similar microelectrode experiments performed on additional taxa are required to assess the model's general applicability.
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: Ries, Justin B (2011): A physicochemical framework for interpreting the biological calcification response to CO2-induced ocean acidification. Geochimica et Cosmochimica Acta, 75(14), 4053-4064
DOI: 10.15468/dl.hmhwy2
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Epilampra maya Rehn, 1903",
 "HasGeospatialIssue is false",
 "HasCoordinate is true"
 ]
}

 The dataset includes 46 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001411-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.1594/pangaea.947627
title: Vehicle-based in-situ observations of the water vapor isotopic composition across China during the pre-monsoon season 2019

description: This dataset provide large scale (order 10000 km) vehicle-based in-situ observations of near-surface water vapor isotopic composition and concurrent meteorological data across China during the pre-monsoon season (3rd to 26th March, 2019).We used a Picarro 2130i CRDS water vapor isotope analyzer fixed on a vehicle to obtain continuous measurements of near-surface vapor isotopes (δ18O and δ2H) and vapor concentration (humidity) along the route. All measured vapor isotope values were humidity calibrated and also calibrated to the VSMOW-SLAP scale. The position data (latitude, longitude, and altitude) along the route are recorded by a portable GPS unit. Air temperature (T), relative humidity (RH), dew-point temperature (Td), and air pressure (Pres) are measured by a portable weather station on the roof of the vehicle. All sensors were located near the ambient air intake. The specific humidity (q) of the near-surface air was calculated from the measured Td and Pres. Meteorological data, GPS location data and vapor isotope data were synchronized according to their measurement times. Average precipitation during the observation period (P- temporal mean) and daily precipitation (P-daily) from the Global Precipitation Climatology Project (GPCP) are also provided. The dataset present here had been averaged to a 10-min temporal resolution, with the horizontal footprint of about 15 km.Based on the tracking results of the HYSPLIT4 model, we classify the observations into different potential sources of water vapor based on the geographical origin of the air masses and label them with different area numbers.During the pre-monsoon period, we categorize our domain into 3 regions. (1) WR_1: In northern China, the air is mainly advected by the Westerlies.(2) WR_2: In central China, the air also comes from the Westerlies but with a slower wind speed (as shown by the shorter trajectories in 10 days), suggesting potential for greater interaction with the land surface and more continental recycling as moisture source. (3) WR_3: In southern China, trajectories come from the Southwest and South with marine moisture sources from the Bay of Bengal (BoB).
DOI: 10.1594/pangaea.947606
title: Vehicle-based in-situ observations of the water vapor isotopic composition across China during the monsoon season 2018

description: This dataset provide large scale (order 10000 km) vehicle-based in-situ observations of near-surface water vapor isotopic composition and concurrent meteorological data across China during the pre-monsoon season 2018 (28th July to 18th August, 2018).We used a Picarro 2130i CRDS water vapor isotope analyzer fixed on a vehicle to obtain continuous measurements of near-surface vapor isotopes (δ18O and δ2H) and vapor concentration (humidity) along the route. All measured vapor isotope values were humidity calibrated and also calibrated to the VSMOW-SLAP scale. The position data (latitude, longitude, and altitude) along the route are recorded by a portable GPS unit. Air temperature (T), relative humidity (RH), dew-point temperature (Td), and air pressure (Pres) are measured by a portable weather station on the roof of the vehicle. All sensors were located near the ambient air intake. The specific humidity (q) of the near-surface air was calculated from the measured Td and Pres. Meteorological data, GPS location data and vapor isotope data were synchronized according to their measurement times. Average precipitation during the observation period (P- temporal mean) and daily precipitation (P-daily) from the Global Precipitation Climatology Project (GPCP) are also provided. The dataset present here had been averaged to a 10-min temporal resolution, with the horizontal footprint of about 15 km.Based on the tracking results of the HYSPLIT4 model, we classify the observations into different potential sources of water vapor based on the geographical origin of the air masses and label them with different area numbers.During the monsoon period, we categorize our domain into 4 regions:(1) SR_1: In northwestern China, most air masses also spend considerable time over the continent, suggesting some of the vapor can be recycled by continental recycling. (2) SR_2: In northeastern China, trajectories mainly come from the North and though the Westerlies. (3) SR_3: In central China, both in its eastern (from Beijing to Harbin) and western part, trajectories mainly come from the East. This suggests that vapor mainly comes from the Pacific Ocean, or from continental recycling over eastern and central China. (4) SR_4: In southeastern China, trajectories come from the South, suggesting marine moisture sources from the Arabian Sea and the BoB.
DOI: 10.1594/pangaea.944420
title: Seawater carbonate chemistry dataset collected during the Tara Pacific Expedition 2016-2018

description: The Tara Pacific expedition (2016-2018) sampled coral ecosystems around 32 islands in the Pacific Ocean, and sampled the surface of oceanic waters at 249 locations, resulting in the collection of nearly 58,000 samples. The expedition was designed to systematically study corals, fish, plankton, and seawater, and included the collection of samples for advanced biogeochemical, molecular, and imaging analysis. Here we provide results of carbonate chemistry for seawater samples collected during the expedition at the offshore and inshore sampling stations as well as at coral sampling sites (a few meters from studied colonies). The sampling protocol was described by Gorsky et al. (2019). Briefly, unfiltered seawater was collected once a week during the cruise and poisoned with Hg2Cl2 before to be stored on TARA board (356 samples). Like for TARA-Ocean expedition (Picheral et al, 2014) Total Alkalinity (TA) and Total Inorganic Carbon (TC) were measured at the SNAPO-CO2 facility at LOCEAN laboratory (Paris, France) and analyzed simultaneously by potentiometric titration derived from the method developed by Edmond (1970) using a closed cell. Calibrated Certified Reference Material (CRM, Dickson et al, 2007) were regularly analyzed (CRM Batches 155, 173 and 182). Analytical accuracy of the TA and TC concentrations is ±3 µmol.kg-1. Additional parameters of the carbonate system were calculated with CO2SYS.m v3.1.1 (Feb 2021: https://github.com/jonathansharp/CO2-System-Extd) using measured TA-TC data, in-situ seawater salinity and temperature measured at each seawater sampling, and local phosphate and silicate concentrations as inputs.
DOI: 10.15468/dl.b62hwj
title: Occurrence Download

description: A dataset containing 156 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Costa Rica",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "License is one of (CC0 1.0, CC-BY 4.0)",
 "TaxonKey is Passiflora biflora Lam.",
 "Year 1999-2025"
 ]
}

 The dataset includes 156 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001412-250310093411724/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.