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  • 1
    Publication Date: 2022-05-25
    Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Biogeosciences 15 (2018): 5761-5778, doi:10.5194/bg-15-5761-2018.
    Description: N2 fixation by the genus Trichodesmium is predicted to support a large proportion of the primary productivity across the oligotrophic oceans, regions that are considered among the largest biomes on Earth. Many of these environments remain poorly sampled, limiting our understanding of Trichodesmium physiological ecology in these critical oligotrophic regions. Trichodesmium colonies, communities that consist of the Trichodesmium host and their associated microbiome, were collected across the oligotrophic western tropical South Pacific (WTSP). These samples were used to assess host clade distribution, host and microbiome metabolic potential, and functional gene expression, with a focus on identifying Trichodesmium physiological ecology in this region. Genes sets related to phosphorus, iron, and phosphorus–iron co-limitation were dynamically expressed across the WTSP transect, suggestive of the importance of these resources in driving Trichodesmium physiological ecology in this region. A gene cassette for phosphonate biosynthesis was detected in Trichodesmium, the expression of which co-varied with the abundance of Trichodesmium Clade III, which was unusually abundant relative to Clade I in this environment. Coincident with the expression of the gene cassette, phosphate reduction to phosphite and low-molecular-weight phosphonate compounds was measured in Trichodesmium colonies. The expression of genes that enable use of such reduced-phosphorus compounds were also measured in both Trichodesmium and the microbiome. Overall, these results highlight physiological strategies employed by consortia in an undersampled region of the oligotrophic WTSP and reveal the molecular mechanisms underlying previously observed high rates of phosphorus reduction in Trichodesmium colonies.
    Description: Grants from the National Science Foundation to STD (OCE-1332912) and BASVM (OCE-1536346 and OCE-1332898) supported this research. KRF is partially supported by a National Science Foundation Graduate Research Fellowship (DGE-16-44869). This research was also funded by the Simons Foundation’s Simons Collaboration on Ocean Processes and Ecology (SCOPE) (SCOPE award ID 329108 to STD and BVM).
    Repository Name: Woods Hole Open Access Server
    Type: Article
    Location Call Number Limitation Availability
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  • 2
    Publication Date: 2024-02-16
    Description: A joint mesocosm experiment took place in June/July 2012 in Corsica (bay of Calvi, Stareso station;http://www.stareso.com/) as part of the european MedSeA project. Nine mesocosms (52 m**3) were deployed over a 20 days period and 6 different levels of pCO2 and 3 control mesocosms (about 450 µatm), were used, in order to cover the range of pCO2 anticipated for the end of the present century. During this experiment, the potential effects of these perturbations on chemistry, planktonic community composition and dynamics including: eucaryotic and prokaryotic species composition, primary production, nutrient and carbon utilization, calcification, diazotrophic nitrogen fixation, organic matter exudation and composition, micro-layer composition and biogas production were studied by a group of about 25 scientists from 8 institutes and 6 countries. This is one of the first mesocosm experiments conducted in oligotrophic waters. A blog dedicated to this experiment can be viewed at: http://medseastareso2012.wordpress.com/.
    Keywords: Bay of Calvi, Mediterranean Sea; CHEM; Chemistry; Mediterranean Sea; Mediterranean Sea Acidification in a Changing Climate; MedSeA; MESO; Mesocosm experiment; Stareso-2012-CTD-outside; Stareso-2012-CTD-perturbation; Stareso-2012-IWS-outside; Stareso-2012-IWS-perturbation
    Type: Dataset
    Format: application/zip, 3 datasets
    Location Call Number Limitation Availability
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  • 3
    Publication Date: 2024-03-15
    Keywords: 19-Butanoyloxyfucoxanthin; 19-Hexanoyloxyfucoxanthin; AIRICA analyzer (Miranda); Alkalinity, total; Alloxanthin; Ammonium; Aragonite saturation state; Bacteriochlorophyll a; Bay of Calvi, Mediterranean Sea; Bicarbonate ion; Calcite saturation state; Calculated using seacarb; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, particulate; Carbon, total, particulate; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carotene; CHEM; Chemistry; Chlorophyll a; Chlorophyll b; Chlorophyll c1+c2; Chlorophyll c3; Chlorophyllide a; Colorimetric, GF/F filters, autoanalyzer (Bran Luebbe); CTD; CTD with attached oxygen sensor; DATE/TIME; Day of experiment; Density, sigma, in situ; DEPTH, water, experiment; Diadinoxanthin; Diatoxanthin; Divinyl chlorophyll a; Divinyl chlorophyll b; Element analyser CHN, Costech; Epifluorescence microscopy; Event label; Fluorometer; Fucoxanthin; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); High Performance Liquid Chromatography (HPLC); Irradiance; Lutein; Mediterranean Sea Acidification in a Changing Climate; MedSeA; Neoxanthin; Nitrate; Nitrogen, organic, dissolved; Nitrogen, organic, particulate; Nitrogen, total, particulate; Other event; Oxygen; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Peridinin; pH; Phaeophorbide a; Phaeophytin a; Phosphate; Phosphate, organic, dissolved; Phosphorus, particulate; Prasinoxanthin; Prokaryotes; Salinity; Silicon; Skalar AutoAnalyser; Spectrophotometric method with Liquid Waveguide Capillary Cell (LWCC); Stareso-2012-CTD-outside; Stareso-2012-IWS-outside; Temperature, water; Titration potentiometric, Metrohm; Treatment; UV light photo oxidation then spectrophotometric method with LWCC; Violaxanthin; Zeaxanthin
    Type: Dataset
    Format: text/tab-separated-values, 11785 data points
    Location Call Number Limitation Availability
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  • 4
    Publication Date: 2024-03-15
    Keywords: 19-Butanoyloxyfucoxanthin; 19-Hexanoyloxyfucoxanthin; AIRICA analyzer (Miranda); Alkalinity, total; Alloxanthin; Ammonium; Aragonite saturation state; Bacteria; Bacteria, high DNA fluorescence; Bacteria, low DNA fluorescence; Bacterial production; Bacterial production, standard error; Bacteriochlorophyll a; Bay of Calvi, Mediterranean Sea; beta-glucosidase activity; Bicarbonate ion; Calcite saturation state; Calculated; Calculated from linear regression; Calculated using error propagation; Calculated using seacarb; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, particulate; Carbon, total, particulate; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carotene; Chitinase activity; Chlorophyll a; Chlorophyll b; Chlorophyll c1+c2; Chlorophyll c3; Chlorophyllide a; Coast and continental shelf; Colorimetric, GF/F filters, autoanalyzer (Bran Luebbe); Community composition and diversity; CTD; CTD with attached oxygen sensor; DATE/TIME; Day of experiment; Density, sigma, in situ; DEPTH, water, experiment; Diadinoxanthin; Diatoxanthin; Divinyl chlorophyll a; Divinyl chlorophyll b; Element analyser CHN, Costech; Entire community; Epifluorescence microscopy; Event label; Field experiment; Flow cytometry; Fluorometer; Fucoxanthin; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gross community production of oxygen; Gross community production of oxygen, standard error; Gross primary production, 18O; Gross primary production, 18O, standard error; High Performance Liquid Chromatography (HPLC); INCUB; Incubation; Irradiance; Leucine aminopeptidase activity; Lipase activity; Lutein; Mediterranean Sea; Mediterranean Sea Acidification in a Changing Climate; MedSeA; MESO; Mesocosm experiment; Mesocosm or benthocosm; Neoxanthin; Net community production of oxygen; Net community production of oxygen, standard error; Nitrate; Nitrogen, organic, dissolved; Nitrogen, organic, particulate; Nitrogen, total, particulate; Nitrogen fixation rate; OA-ICC; Ocean Acidification International Coordination Centre; Other event; Other metabolic rates; Oxygen; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Pelagos; Peridinin; pH; Phaeophorbide a; Phaeophytin a; Phosphatase activity; Phosphate; Phosphate, organic, dissolved; Phosphorus, particulate; Picoeukaryotes, autotrophic; Prasinoxanthin; Primary production/Photosynthesis; Prokaryotes; Respiration; Respiration rate, oxygen; Respiration rate, oxygen, standard deviation; Salinity; see comment; Silicon; Skalar AutoAnalyser; Spectrophotometric method with Liquid Waveguide Capillary Cell (LWCC); Stareso-2012-CTD-perturbation; Stareso-2012-IWS-perturbation; Synechococcus; Temperate; Temperature, water; Titration potentiometric, Metrohm; Treatment; UV light photo oxidation then spectrophotometric method with LWCC; Violaxanthin; Viral abundance; Virus, high DNA fluorescence; Virus, low DNA fluorescence; Zeaxanthin
    Type: Dataset
    Format: text/tab-separated-values, 105103 data points
    Location Call Number Limitation Availability
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  • 5
    Publication Date: 2024-03-15
    Keywords: 19-Butanoyloxyfucoxanthin; 19-Hexanoyloxyfucoxanthin; AIRICA analyzer (Miranda); Alkalinity, total; Alloxanthin; Ammonium; Aragonite saturation state; Bacteria; Bacteria, high DNA fluorescence; Bacteria, low DNA fluorescence; Bacterial production; Bacteriochlorophyll a; Bay of Villefranche, Mediterranean Sea; beta-glucosidase activity; Bicarbonate ion; Calcification/Dissolution; Calcification rate, standard deviation; Calcification rate of calcium carbonate; Calcite saturation state; Calculated; Calculated from linear regression; Calculated using error propagation; Calculated using seacarb; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, particulate; Carbon, total, particulate; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carotene; Chitinase activity; Chlorophyll a; Chlorophyll b; Chlorophyll c1+c2; Chlorophyll c3; Chlorophyllide a; Coast and continental shelf; Colorimetric, GF/F filters, autoanalyzer (Bran Luebbe); Community composition and diversity; CTD; CTD with attached oxygen sensor; DATE/TIME; Day of experiment; Density, sigma, in situ; DEPTH, water, experiment; Diadinoxanthin; Diatoxanthin; Divinyl chlorophyll a; Divinyl chlorophyll b; Element analyser CHN, Costech; Entire community; Epifluorescence microscopy; Event label; Exudation as determined by 14C DOC production; Exudation as determined by 14C DOC production, standard deviation; FIA with chemiluminescence detection; Field experiment; Flow cytometry; Fluorometer; Fucoxanthin; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gross community production of oxygen; Gross community production of oxygen, standard error; High Performance Liquid Chromatography (HPLC); INCUB; Incubation; Iron, dissolved; Irradiance; Leucine aminopeptidase activity; Lipase activity; Lutein; Mediterranean Sea; Mediterranean Sea Acidification in a Changing Climate; MedSeA; MESO; Mesocosm experiment; Mesocosm or benthocosm; Nanoeukaryotes; Neoxanthin; Net community production of oxygen; Net community production of oxygen, standard error; Nitrate; Nitrogen, organic, dissolved; Nitrogen, total, particulate; OA-ICC; Ocean Acidification International Coordination Centre; Other event; Other metabolic rates; Oxygen; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Pelagos; Peridinin; pH; Phaeophorbide a; Phaeophytin a; Phosphatase activity; Phosphate; Phosphate, organic, dissolved; Phosphorus, particulate; Picoeukaryotes, autotrophic; Prasinoxanthin; Primary production/Photosynthesis; Primary production of POC as determined by 14C POC production; Primary production of POC as determined by 14C POC production, standard deviation; Prochlorococcus; Prokaryotes; Respiration; Respiration rate, oxygen; Respiration rate, oxygen, standard deviation; Salinity; Silicon; Skalar AutoAnalyser; Spectrophotometric method with Liquid Waveguide Capillary Cell (LWCC); Synechococcus; Temperate; Temperature, water; Titration potentiometric, Metrohm; Transparent exopolymer particles as Gum Xanthan equivalents per volume; Treatment; UV light photo oxidation then spectrophotometric method with LWCC; Validation flag/comment; Villefranche-2013-CTD-perturbation; Villefranche-2013-IWS-perturbation; Violaxanthin; Viral abundance; Virus, high DNA fluorescence; Virus, low DNA fluorescence; Virus, medium DNA fluorescence; Zeaxanthin
    Type: Dataset
    Format: text/tab-separated-values, 67487 data points
    Location Call Number Limitation Availability
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  • 6
    Publication Date: 2024-03-15
    Keywords: 19-Butanoyloxyfucoxanthin; 19-Hexanoyloxyfucoxanthin; AIRICA analyzer (Miranda); Alkalinity, total; Alloxanthin; Aragonite saturation state; Bacteria; Bacteria, high DNA fluorescence; Bacteria, low DNA fluorescence; Bacteriochlorophyll a; Bay of Villefranche, Mediterranean Sea; Bicarbonate ion; Calcification rate, standard deviation; Calcification rate of calcium carbonate; Calcite saturation state; Calculated using seacarb; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, particulate; Carbon, total, particulate; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carotene; CHEM; Chemistry; Chlorophyll a; Chlorophyll b; Chlorophyll c1+c2; Chlorophyll c3; Chlorophyllide a; Colorimetric, GF/F filters, autoanalyzer (Bran Luebbe); CTD; CTD with attached oxygen sensor; DATE/TIME; Day of experiment; Density, sigma, in situ; DEPTH, water, experiment; Diadinoxanthin; Diatoxanthin; Divinyl chlorophyll a; Element analyser CHN, Costech; Epifluorescence microscopy; Event label; Exudation as determined by 14C DOC production; Exudation as determined by 14C DOC production, standard deviation; FIA with chemiluminescence detection; Flow cytometry; Fluorometer; Fucoxanthin; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); High Performance Liquid Chromatography (HPLC); Iron, dissolved; Irradiance; Lutein; Mediterranean Sea Acidification in a Changing Climate; MedSeA; MESO; Mesocosm experiment; Nanoeukaryotes; Neoxanthin; Nitrate; Nitrogen, organic, dissolved; Nitrogen, total, particulate; Other event; Oxygen; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Peridinin; pH; Phaeophorbide a; Phaeophytin a; Phosphate; Phosphate, organic, dissolved; Phosphorus, particulate; Picoeukaryotes, autotrophic; Prasinoxanthin; Primary production of POC as determined by 14C POC production; Primary production of POC as determined by 14C POC production, standard deviation; Prochlorococcus; Prokaryotes; Salinity; Silicon; Skalar AutoAnalyser; Spectrophotometric method with Liquid Waveguide Capillary Cell (LWCC); Synechococcus; Temperature, water; Titration potentiometric, Metrohm; Transparent exopolymer particles as Gum Xanthan equivalents per volume; Treatment; UV light photo oxidation then spectrophotometric method with LWCC; Validation flag/comment; Villefranche-2013-CTD-outside; Villefranche-2013-IWS-perturbation; Violaxanthin; Viral abundance; Virus, high DNA fluorescence; Virus, low DNA fluorescence; Virus, medium DNA fluorescence; Zeaxanthin
    Type: Dataset
    Format: text/tab-separated-values, 6732 data points
    Location Call Number Limitation Availability
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  • 7
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    PANGAEA
    In:  Supplement to: Maugendre, Laure; Gattuso, Jean-Pierre; Louis, Justine; de Kluijver, Anna; Marro, Sophie; Soetaert, Karline; Gazeau, Frédéric (2014): Effect of ocean warming and acidification on a plankton community in the NW Mediterranean Sea. ICES Journal of Marine Science, https://doi.org/10.1093/icesjms/fsu161
    Publication Date: 2024-03-15
    Description: The effect of ocean warming and acidification was investigated on a natural plankton assemblage from an oligotrophic area, the bay of Villefranche (NW Mediterranean Sea). The assemblage was sampled in March 2012 and exposed to the following four treatments for 12 days: control ( 360 µatm, 14°C), elevated pCO2 ( 610 µatm, 14°C), elevated temperature ( 410 µatm, 17°C), and elevated pCO2 and temperature ( 690 µatm, 17°C). Nutrients were already depleted at the beginning of the experiment and the concentrations of chlorophyll a (chl a), heterotrophic prokaryotes and viruses decreased, under all treatments, throughout the experiment. There were no statistically significant effects of ocean warming and acidification, whether in isolation or combined, on the concentrations of nutrients, particulate organic matter, chl a and most of the photosynthetic pigments. Furthermore, 13C labelling showed that the carbon transfer rates from 13C-sodium bicarbonate into particulate organic carbon were not affected by seawater warming nor acidification. Rates of gross primary production followed the general decreasing trend of chl a concentrations and were significantly higher under elevated temperature, an effect exacerbated when combined to elevated pCO2 level. In contrast to the other algal groups, the picophytoplankton population (cyanobacteria, mostly Synechococcus) increased throughout the experiment and was more abundant in the warmer treatment though to a lesser extent when combined to high pCO2 level. These results suggest that under nutrient-depleted conditions in the Mediterranean Sea, ocean acidification has a very limited impact on the plankton community and that small species will benefit from warming with a potential decrease of the export and energy transfer to higher trophic levels.
    Keywords: 19-Butanoyloxyfucoxanthin; 19-Hexanoyloxyfucoxanthin; Alkalinity, total; Alloxanthin; Aragonite saturation state; Bacteria; Bicarbonate ion; Biomass/Abundance/Elemental composition; Bottle number; Bottles or small containers/Aquaria (〈20 L); Calcite saturation state; Calculated using seacarb; Calculated using seacarb after Nisumaa et al. (2010); Carbon, inorganic, dissolved; Carbon, organic, dissolved; Carbon, organic, particulate; Carbonate ion; Carbonate system computation flag; Carbon dioxide; Carotene; Chlorophyll a; Chlorophyll b; Chlorophyll c1+c2; Chlorophyll c3; Coast and continental shelf; Coulometric titration; DATE/TIME; Day of experiment; Diadinoxanthin; Diatoxanthin; Element analyser CHN; Entire community; EXP; Experiment; Flow cytometry; Fucoxanthin; Fugacity of carbon dioxide (water) at sea surface temperature (wet air); Gross community production of oxygen; Gross community production of oxygen, standard error; Gross primary production, 18O; High Performance Liquid Chromatography (HPLC); Irradiance; Laboratory experiment; Mediterranean Sea; Mediterranean Sea Acidification in a Changing Climate; MedSeA; Nanoprokaryotes; Neoxanthin; Net community production, carbon dioxide; Net community production of oxygen; Net community production of oxygen, standard error; Nitrogen, inorganic, dissolved; Nitrogen, organic, particulate; OA-ICC; Ocean Acidification International Coordination Centre; Other event; Oxygen; Partial pressure of carbon dioxide (water) at sea surface temperature (wet air); Pelagos; Peridinin; pH; Phaeophytin a; Phosphorus, inorganic, dissolved; Picoeukaryotes, autotrophic; Potentiometric titration; Prasinoxanthin; Primary production/Photosynthesis; Prochlorococcus; Respiration; Respiration rate, oxygen; Respiration rate, oxygen, standard error; Salinity; Silicate; Spectrophotometric; Synechococcus; Temperate; Temperature; Temperature, water; Titration, Winkler; Treatment; Villefranche-2012; Violaxanthin; Viral abundance; Virus, high DNA fluorescence; Virus, low DNA fluorescence; Virus, medium DNA fluorescence; Zeaxanthin; Δδ13C; δ13C, dissolved inorganic carbon; δ13C, particulate organic carbon
    Type: Dataset
    Format: text/tab-separated-values, 3443 data points
    Location Call Number Limitation Availability
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  • 8
    Publication Date: 2024-02-16
    Description: A joint mesocosm experiment took place in February/March 2013 in the bay of Villefranche in France as part of the european MedSeA project. Nine mesocosms (52 m**3) were deployed over a 2 weeks period and 6 different levels of pCO2 and 3 control mesocosms (about 450 µatm), were used, in order to cover the range of pCO2 anticipated for the end of the present century. During this experiment, the potential effects of these perturbations on chemistry, planktonic community composition and dynamics including: eucaryotic and prokaryotic species composition, primary production, nutrient and carbon utilization, calcification, diazotrophic nitrogen fixation, organic matter exudation and composition, micro-layer composition and biogas production were studied by a group of about 25 scientists from 8 institutes and 6 countries. This is one of the first mesocosm experiments conducted in oligotrophic waters. A blog dedicated to this experiment can be viewed at: http://medseavillefranche2013.obs-vlfr.fr.
    Keywords: Mediterranean Sea; Mediterranean Sea Acidification in a Changing Climate; MedSeA
    Type: Dataset
    Format: application/zip, 2 datasets
    Location Call Number Limitation Availability
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