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  • 1
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    Unknown
    PANGAEA
    In:  Supplement to: Hong, Haizheng; Shen, Rong; Zhang, Futing; Wen, Zuozhu; Chang, Siwei; Lin, Wenfang; Kranz, Sven A; Luo, Ya-Wei; Kao, Shuh-Ji; Morel, Francois M M; Shi, Dalin (2017): The complex effects of ocean acidification on the prominent N2-fixing cyanobacterium Trichodesmium. Science, 356(6337), 527-531, https://doi.org/10.1126/science.aal2981
    Publication Date: 2023-04-07
    Description: Acidification of seawater caused by anthropogenic carbon dioxide (CO2) is anticipated to influence the growth of dinitrogen (N2)-fixing phytoplankton, which contribute a large fraction of primary production in the tropical and subtropical ocean. We found that growth and N2-fixation of the ubiquitous cyanobacterium Trichodesmium decreased under acidified conditions, notwithstanding a beneficial effect of high CO2. Acidification resulted in low cytosolic pH and reduced N2-fixation rates despite elevated nitrogenase concentrations. Low cytosolic pH required increased proton pumping across the thylakoid membrane and elevated adenosine triphosphate production. These requirements were not satisfied under field or experimental iron-limiting conditions, which greatly amplified the negative effect of acidification.
    Type: Dataset
    Format: application/zip, 6 datasets
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  • 2
    Publication Date: 2023-04-07
    Keywords: Carbon, inorganic, dissolved, half saturation concentration; Carbon, inorganic, dissolved, half saturation concentration, standard deviation; Growth rate; Growth rate, standard deviation; Iron protein of nitrogenase; Iron protein of nitrogenase, standard deviation; Nitrogen fixation rate, standard deviation; Nitrogen fixation rate per chlorophyll a; pH; pH, standard deviation; Treatment
    Type: Dataset
    Format: text/tab-separated-values, 44 data points
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  • 3
    Publication Date: 2023-04-07
    Keywords: Nitrogen fixation rate, standard deviation; Nitrogen fixation rate per chlorophyll a; Time in hours; Treatment
    Type: Dataset
    Format: text/tab-separated-values, 96 data points
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  • 4
    Publication Date: 2023-04-07
    Keywords: Name; Percentage; Station label
    Type: Dataset
    Format: text/tab-separated-values, 36 data points
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  • 5
    Publication Date: 2023-04-07
    Keywords: Gene copies; Gene copies, standard deviation; Nitrogen fixation rate; Nitrogen fixation rate, standard deviation; Station label; Treatment
    Type: Dataset
    Format: text/tab-separated-values, 34 data points
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  • 6
    Publication Date: 2023-04-07
    Keywords: Ammonium; Ethylenediaminetetraacetic acid; Growth rate; Growth rate, standard deviation; Iron; Nitrogen fixation rate, standard deviation; Nitrogen fixation rate per chlorophyll a; Treatment
    Type: Dataset
    Format: text/tab-separated-values, 112 data points
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  • 7
    Publication Date: 2023-07-10
    Keywords: Comment; Name; Protein name; Ratio; Ratio, standard deviation
    Type: Dataset
    Format: text/tab-separated-values, 189 data points
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  • 8
    Publication Date: 2024-03-22
    Description: Growth of the prominent nitrogen-fixing cyanobacterium Trichodesmium is often limited by phosphorus availability in the ocean. How nitrogen fixation by phosphorus-limited Trichodesmium may respond to ocean acidification remains poorly understood. Here, we use phosphate-limited chemostat experiments to show that acidification enhanced phosphorus demands and decreased phosphorus-specific nitrogen fixation rates in Trichodesmium. The increased phosphorus requirements were attributed primarily to elevated cellular polyphosphate contents, likely for maintaining cytosolic pH homeostasis in response to acidification. Alongside the accumulation of polyphosphate, decreased NADP(H):NAD(H) ratios and impaired chlorophyll synthesis and energy production were observed under acidified conditions. Consequently, the negative effects of acidification were amplified compared to those demonstrated previously under phosphorus sufficiency. Estimating the potential implications of this finding, using outputs from the Community Earth System Model, predicts that acidification and dissolved inorganic and organic phosphorus stress could synergistically cause an appreciable decrease in global Trichodesmium nitrogen fixation by 2100.
    Keywords: Adenosine 5-Triphosphate, per cell; Alkaline phosphatase, para-Nitrophenylphosphate per cell; Alkalinity, total; Aragonite saturation state; Bacteria; Bicarbonate ion; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (〈20 L); Calcite saturation state; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, particulate/Phosphorus, organic, particulate ratio; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Cell, length; Cell, length, standard deviation; Cell, width; Cell, width, standard deviation; Cell density; Chlorophyll a; Chlorophyll a per cell; Cyanobacteria; Day of experiment; Entire community; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gene copies; Gene expression; Gene expression (incl. proteomics); Glutamate per cell; Growth/Morphology; Laboratory experiment; Laboratory strains; LATITUDE; Lipids per cell; LONGITUDE; Macro-nutrients; Micro-nutrients; Nicotinamide adenine dinucleotide phosphate; Nicotinamide adenine dinucleotide phosphate/Reduced nicotinamide adenine dinucleotide ratio; Nitrogen, organic, particulate/Phosphorus, organic, particulate ratio; Nitrogen fixation rate; Nitrogen fixation rate, per cell; North Pacific; Not applicable; OA-ICC; Ocean Acidification International Coordination Centre; Open ocean; Other metabolic rates; Other studied parameter or process; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Particulate organic carbon, per cell; Particulate organic nitrogen per cell; Particulate organic phosphorus per cell; Pelagos; pH; Phosphorus, reactive soluble; Photosynthetic carbon fixation rate; Photosynthetic carbon fixation rate per cell; Phytoplankton; Polyphosphate as femto-equivalents of the standard per cell; Primary production/Photosynthesis; Reduced nicotinamide adenine dinucleotide; Relative transcription; Replicate; Ribonucleic acid per cell; Salinity; Single species; Species, unique identification; Species, unique identification (Semantic URI); Species, unique identification (URI); Station label; Temperature, water; Time point, descriptive; Treatment; Trichodesmium erythraeum; Tropical; Type
    Type: Dataset
    Format: text/tab-separated-values, 6821 data points
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  • 9
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    Unknown
    PANGAEA
    In:  Supplement to: Shi, Dalin; Li, Weiying; Hopkinson, Brian M; Hong, Haizheng; Li, Dongmei; Kao, Shuh-Ji; Lin, Wenfang (2015): Interactive effects of light, nitrogen source, and carbon dioxide on energy metabolism in the diatom Thalassiosira pseudonana. Limnology and Oceanography, 60(5), 1805-1822, https://doi.org/10.1002/lno.10134
    Publication Date: 2024-03-15
    Description: Due to the ongoing effects of climate change, phytoplankton are likely to experience enhanced irradiance, more reduced nitrogen, and increased water acidity in the future ocean. Here, we used Thalassiosira pseudonana as a model organism to examine how phytoplankton adjust energy production and expenditure to cope with these multiple, interrelated environmental factors. Following acclimation to a matrix of irradiance, nitrogen source, and CO2 levels, the diatom's energy production and expenditures were quantified and incorporated into an energetic budget to predict how photosynthesis was affected by growth conditions. Increased light intensity and a shift from inline image to inline image led to increased energy generation, through higher rates of light capture at high light and greater investment in photosynthetic proteins when grown on inline image. Secondary energetic expenditures were adjusted modestly at different culture conditions, except that inline image utilization was systematically reduced by increasing pCO2. The subsequent changes in element stoichiometry, biochemical composition, and release of dissolved organic compounds may have important implications for marine biogeochemical cycles. The predicted effects of changing environmental conditions on photosynthesis, made using an energetic budget, were in good agreement with observations at low light, when energy is clearly limiting, but the energetic budget over-predicts the response to inline image at high light, which might be due to relief of energetic limitations and/or increased percentage of inactive photosystem II at high light. Taken together, our study demonstrates that energetic budgets offered significant insight into the response of phytoplankton energy metabolism to the changing environment and did a reasonable job predicting them.
    Keywords: Alkalinity, total; Alkalinity, total, standard deviation; Aragonite saturation state; beta-1,3 Gluan, cellular; beta-1,3 Gluan, cellular, standard deviation; Bicarbonate ion; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (〈20 L); Calcite saturation state; Calculated using CO2SYS; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, inorganic, dissolved, standard deviation; Carbon, organic, particulate, per cell; Carbon/Nitrogen ratio; Carbon/Nitrogen ratio, standard deviation; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carbon uptake rate; Carbon uptake rate, standard deviation; Chromista; Electron transport rate, relative; Electron transport rate, relative, standard deviation; Fatty acid content; Fatty acids, standard deviation; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gene expression (incl. proteomics); Glycolic acid, standard deviation; Glycolic acid per cell; Growth/Morphology; Growth rate; Growth rate, standard deviation; Irradiance; Laboratory experiment; Laboratory strains; Light; Macro-nutrients; Maximal electron transport rate, relative; Maximal electron transport rate, relative, standard deviation; Maximum photochemical quantum yield of photosystem II; Maximum photochemical quantum yield of photosystem II, standard deviation; mRNA copy numbers ratio; mRNA copy numbers ratio, standard deviation; mRNA gene expression, relative; mRNA gene expression, relative, standard deviation; Nitrate reductase activity; Nitrate reductase activity, standard deviation; Nitrogen uptake rate; Nitrogen uptake rate, standard deviation; Non photochemical quenching; Non photochemical quenching, standard deviation; North Pacific; OA-ICC; Ocean Acidification International Coordination Centre; Ochrophyta; Other metabolic rates; Partial pressure of carbon dioxide, standard deviation; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Particulate organic carbon content per cell, standard deviation; Particulate organic nitrogen per cell; Particulate organic nitrogen per cell, standard deviation; Pelagos; pH; pH, standard deviation; Photochemical quenching; Photochemical quenching, standard deviation; Phytoplankton; Primary production/Photosynthesis; Protein per cell; Proteins, standard deviation; PsbA expression, standard deviation; PsbA expression per cell; Registration number of species; Salinity; Single species; Species; Spectrophotometric; Temperature, water; Temperature, water, standard deviation; Thalassiosira pseudonana; Treatment; Type; Uniform resource locator/link to reference
    Type: Dataset
    Format: text/tab-separated-values, 552 data points
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  • 10
    Publication Date: 2024-03-15
    Description: Light affects iron (Fe) growth requirements in marine phytoplankton while CO2 can influence energy allocation and light sensitivity. Therefore, ongoing increases in seawater CO2 concentrations could impact the growth of Fe- and light-limited phytoplankton. In this study, Phaeodactylum tricornutum was used as a model diatom to examine the interactive effects of Fe, light, and CO2 on photosynthesis, growth, and protein expression in marine phytoplankton. Low concentration of biologically available inorganic iron (Fe) and low-light intensity decreased specific rates of carbon (C)-fixation and growth, and the two together had an even greater effect, indicating a co-limitation. Increased partial pressure of CO2 from its current value (400 μatm) to 750 μatm had no effect at growth sufficient levels of Fe and light, but increased C-fixation and growth rate under Fe or light limitation, and had an even greater effect in Fe and light co-limited cells. The results suggest that ongoing increases in CO2 may increase C-fixation rates in Fe- and light-limited and co-limited regions, which cover at least 30% of the ocean. Measurements of photosynthetic proteins in photosystems II and I, and transcripts of proteins involved in CO2 concentrating mechanisms (CCMs), photorespiration, and antioxidant protection, suggest that the benefit of increased CO2 in the Fe- and light-limited cells was from a downregulation of CCMs and resultant decreased demands for energy supplied from photosynthesis, and from decreased rates of photorespiration, which consumes photosynthetically produced ATP and NADPH. A decrease in oxidative stress with increased CO2 also contributed.
    Keywords: Alkalinity, total; Alkalinity, total, standard deviation; Aragonite saturation state; Bicarbonate ion; Biomass/Abundance/Elemental composition; Bottles or small containers/Aquaria (〈20 L); Calcite saturation state; Calculated using CO2SYS; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, inorganic, dissolved, standard deviation; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carbon fixation rate; Carbon fixation rate, standard deviation; Cell iron/carbon ratio; Cell iron/carbon ratio, standard deviation; Chromista; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gene expression (incl. proteomics); Growth/Morphology; Growth Iron use efficiency; Growth Iron use efficiency, standard deviation; Growth rate; Growth rate, standard deviation; Iron, dissolved, inorganic; Iron uptake rate; Iron uptake rate, standard deviation; Irradiance; Laboratory experiment; Laboratory strains; Light; Micro-nutrients; mRNA copy numbers ratio; mRNA copy numbers ratio, standard deviation; Not applicable; OA-ICC; Ocean Acidification International Coordination Centre; Ochrophyta; Other metabolic rates; Other studied parameter or process; Partial pressure of carbon dioxide, standard deviation; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Pelagos; pH; pH, standard deviation; Phaeodactylum tricornutum; Photosynthetic Iron use efficiency; Photosynthetic Iron use efficiency, standard deviation; Photosynthetic protein, PsbA, standard deviation; Photosynthetic protein, PsbC, standard deviation; Phytoplankton; Primary production/Photosynthesis; PsaC protein; PsbA protein; PsbA protein/PsaC protein ratio; PsbA protein/PsaC protein ratio, standard deviation; Registration number of species; Salinity; Single species; Species; Spectrophotometric; Temperature, water; Treatment; Treatment: partial pressure of carbon dioxide; Type; Uniform resource locator/link to reference
    Type: Dataset
    Format: text/tab-separated-values, 456 data points
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