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447 results for “phytoplankton”
BGC-Argo Satellite matchup to compute variability in the Chl:C ratio of phytoplankton.
<p>This dataset provides matchups between BGC-Argo and MODIS satellites (both atmospheric and ocean color products). This dataset allows users to compare the variability of the Chlorophyll (Chl) to Phytoplankton Carbon ratio from BGC-Argo floats depending on the light in the mixed layer and link to information obtained from satellites about cloud coverage. </p> <p>Quality control previously performed on this dataset and matchup criteria are described in the associated publication.</p> <p>Here are some of the column headers detailed for clarity:</p> <p>Columns 1-25 represent data from the BGC-Argo floats:</p> <ul> <li>ID: Float WMO ID number</li> <li>dt: Datetime in datenum format.</li> <li>biomes: Biomes according to Fay & McKinley, 2014 (with West Mediterranean biome 18 and East Mediterranean biome 19)</li> <li>zenith: Sun zenith angle at time of surfacing.</li> <li>kd_490_Xing: Downwelling diffuse attenuation coefficient at 490nm from Xing et al.,2021 method. </li> <li>kd_PAR_Xing: Downwelling diffuse attenuation coefficient of PAR from Xing et al.,2021 method. </li> <li>chla: Median chlorophyll from fluorescence in the mixed layer (corrected for Non-Photochemical Quenching following Xing et al., 2012)</li> <li>F_indiv: Calibration factor for chla (chlorophyll from fluorescence) according to the method described in Xing et al., 2011. </li> <li>F_median: Median Correction factor (F) for all the floats in a biome</li> <li>F_median_season: Median Correction factor (F) for all the floats in a biome in a given season</li> <li>Chl_cor: Chla from floats corrected using the F_median factor according to Xing et al., 2011. </li> <li>PAR_0_Argo: PAR(0-) right below the surface also from Xing et al., 2021.</li> <li>Z_iso : Depth of the 0.415 mol/quanta/m-2/d-1 isolume. </li> <li>Zeu: Euphotic depth, 1% of surface light.</li> <li>Eg_Argo: Median light level in the mixed layer during a float's profile, bounded by the surface and the MLD (in mol quanta m^-2 h^-1).</li> <li>MLD: Mixed layer depth, determined using the 0.03 density criteria from de Boyer Montégut, et al.,2004.</li> <li>bbp_XXX: Backscattering at a specific wavelength</li> <li>Cphyto: Median Phytoplankton Carbon in the mixed layer computed from Bbp following Graff et al., 2015.</li> <li>Cphyto_B: Median Phytoplankton Carbon in the mixed layer computed from Bbp following Behrenfeld et al., 2005.</li> <li>Cphyto_M: Median Phytoplankton Carbon in the mixed layer computed from Bbp following Martinez-Vincente et al., 2013.</li> <li>ratio_cor: Chl_cor /Cphyto.</li> </ul> <p>Columns 26-45 have products from matchups with ocean-color MODIS files:</p> <ul> <li>sat_dt: Datetime of satellite overpass in datenum format. </li> <li>chlor_a: Satellite chl obtained from NASA's OBPG hybrid algorithm.</li> <li>sat_IPAR: Instantaneous PAR at time of overpass.</li> <li>sat_PAR: MODIS Daily PAR product above the surface.</li> <li>sat_Daily_PARminus: MODIS Daily PAR product propagated right below the surface (0-)</li> <li>sat_Daily_Eg: Daily median light in the mixed layer computed as sat_DailyPAR_minus * exp(-Kd_PAR*MLD/2) ( in mol quanta m^-2 d^-1).</li> </ul> <p>Columns 46-49 have products from matchups with atmospheric MODIS files: </p> <ul> <li>a_lat, a_lon, a_dt: Same as above but for the atmospheric file</li> <li>Confident Cloudy: Number of pixels (Out of 25) with the Confident Cloudy flag. </li> </ul> <p> </p>
Data from: Padfield et al. (2016) Rapid evolution of metabolic traits explains thermal adaptation in phytoplankton. Ecology letters.
<p>This repository provides the data from the TPC and logistic growth curves from the paper:</p> <p>Padfield, D., Yvon‐Durocher, G., Buckling, A., Jennings, S., & Yvon‐Durocher, G. (2016). Rapid evolution of metabolic traits explains thermal adaptation in phytoplankton. Ecology letters, 19(2), 133-142.</p> <p>metadata.pdf gives a more detailed explanation of the data.</p>
Phytoplankton chlorophyll in Iowa state recreational lakes 2018-2020
Chlorophyll a dataset is curated by Phyto-PAM, a multi-wavelength fluorometer that rapidly infers the abundance and composition of phytoplankton communities based on the fluorescence excitation of chlorophyll a and accessory pigments. This dataset categorizes phytoplankton into four taxa: 1) cyanobacteria; 2) ‘Green algae’ (euglenophytes and chlorophytes; 3) ‘Brown algae’ (ochrophytes, dinophytes, haptophytes); and 4) ‘Red organisms’ (phycoerythrin-rich phytoplankton). Sub-surface water samples (n > 450) collected in eutrophic lakes for three summer seasons (2018-2020; 15 weeks per season; from May through September). DNA sequencing data for bacteria and eukaryotes are available at NCBI (16s rRNA: PRJNA764241, PRJNA763651, and 18s rRNA: PRJNA787030).
Interlaboratory testing of CuSO4 toxicity in the “Standardized Aquatic Microcosm” protocol consisting of multiple phytoplankton and animals in a chemically defined medium.
Four different laboratories conducted a total of ten experiments of the “Standardized Aquatic Microcosm” to test the reproducibility of results to control, low, medium, and high concentrations of CuSO4. In nine experiments, treatments consisted of six replicates of 0, 500, 1000, and 2000 ppb Cu++. One experiment, ME74, used 0, 127, 255, 509 ppb. The purpose was to test a chemically defined medium (thus negating differences due to local water supplies) and the same 10 species of phytoplankton and 5 animals, including Daphnia. Microbes were undefined. The protocol included the weekly re-introduction of small numbers of each species to allow potential recovery from toxicity. Control microcosms had a “spring algal bloom” terminated by zooplankton grazing and multiple competitive interactions. The copper inhibited some phytoplankton more than others and killed many grazers, especially Daphnia. The data set presented several interesting statistical properties that would yield new insights. (a) The results were very similar, but the timing varied— the higher the concentration of copper, the longer the inhibition and mortality of organisms, so those at 500 ppb recovered earlier, the 1000 ppb recovered later, and at 2000 ppb most never recovered. But if compared on each sampling day, e.g., 10, 14, … to 64, results appear highly variable. (b) In at least one experiment, the toxicity of copper was challenging to demonstrate statistically because high variability in the timing of recovery of the intermediate concentration increased pooled variances. (c) The elimination of highly-sensitive dominant organisms allowed less-sensitive organisms to increase in abundance. Within natural environments, the observation that some species increase in the presence of toxic substances has been used to discredit toxicity testing without considering the relative sensitivities of competing or predatory species. (d) The competitive interactions among organisms, e.g., cyanobacteria and green alga
Summer water chemistry, phytoplankton and zooplankton community composition, size structure, and biomass in a shallow, hypereutrophic reservoir in southwestern Iowa, USA (2019).
This data product contains data for Green Valley Lake, a hypereutrophic reservoir in southwest Iowa (USA) from the summer of 2019. We sampled and quantified zooplankton, phytoplankton, and nutrient concentrations (total N, total P, soluble reactive P, nitrate) in the lake weekly with the primary aim of assessing consumer nutrient cycling, specifically zooplankton nutrient cycling, in a hypereutrophic reservoir. Weekly plankton sampling included quantifying zooplankton and phytoplankton biomass, community composition, and size structure. Phytoplankton size was measured as the greatest axial linear distance which would be approached by a zooplankton grazer. Allometric equations from the literature were applied to the zooplankton size measurements to estimate zooplankton community excretion of N and P. We found that the estimated contribution of zooplankton excretion to the dissolved P pool was substantial in the spring. Further, we found evidence that zooplankton affected phytoplankton size distributions through selective grazing of smaller phytoplankton cells likely affecting nutrient uptake and storage by phytoplankton.
Abrupt and Gradual Salt Application Mesocosm Experiment Zooplankton, Phytoplankton, Periphyton and Abiotic Data, Troy, NY, 2018.
Increasing chloride concentrations from road salt applications are an emerging threat to freshwater diversity in cold weather regions. Few studies have focused on how road salt affects freshwater biota and even fewer have focused on how the rate of exposure alters organism responses. We hypothesized that road salt concentrations delivered gradually would result in slower population declines and more rapid rebounds due to evolved tolerance. To test this hypothesis, we examined the responses of freshwater lake organisms to four environmentally relevant salt concentrations (100, 230, 860, and 1600 mg Cl−/L) that differed in application rate (abrupt vs. gradual). We used outdoor aquatic mesocosms containing zooplankton, filamentous algae, phytoplankton, periphyton, and macroinvertebrates. We found negative effects of road salt on zooplankton and macroinvertebrate abundance, but positive effects on phytoplankton and periphyton, likely resulting from reduced grazing. Only rarely did we detect a difference between abrupt vs gradual salt applications and the directions of those differences were not consistent. This affirms the need for additional research on how road salt pollution entering ecosystems at different frequencies and magnitudes will alter freshwater communities.
Interagency Ecological Program: Discrete water quality and phytoplankton data from the Sacramento River floodplain and Yolo Bypass tidal slough, collected by the Yolo Bypass Fish Monitoring Program, 1998 - 2022
The Yolo Bypass Fish Monitoring Program (YBFMP) operates a rotary screw trap and fyke trap and conducts biweekly beach seine and lower trophic surveys in addition to maintaining water quality instrumentation in the bypass. The YBFMP serves to fill information gaps regarding environmental conditions in the bypass that trigger migrations and enhanced survival and growth of native fishes, as well as provide data for IEP synthesis efforts. YBFMP staff also conduct analyses of YBFMP monitoring data to address pertinent management related questions as identified by IEP. The Yolo Bypass has been identified as a high restoration priority by the National Marine Fisheries Service and US Fish and Wildlife Service Biological Opinions for Delta Smelt, Winter and Spring-run Chinook salmon and by California EcoRestore. The YBFMP informs the restoration actions that are mandated or recommended in these plans and provides critical baseline data on the ecology of the bypass and how it interacts with the broader San Francisco Estuary. Program objectives include: Collecting baseline data on water quality, chlorophyll, lower trophic level biota, and fish in the Yolo Bypass to monitor spatial and temporal changes in trends and abundance; Analyzing and communicating Yolo Bypass data with stakeholders and the scientific and management communities to address pertinent management related questions; Providing technical expertise on Yolo Bypass aquatic ecology and monitoring and sampling methods. We collect discrete water quality data using a YSI ProDSS and sample phytoplankton, chlorophyll and nutrients as discrete water grabs taken biweekly (or weekly during Yolo Bypass inundation) along with lower trophic tows. Water is sampled at three sites along the Yolo Bypass and Sacramento River, then processed and analyzed by an internal DWR laboratory.
Sherbo et al. 2023 Data Package. Data associated with study assessing effects of dissolved organic matter on phytoplankton productivity in boreal lakes. The majority of data was collected in 2018 at the IISD Experimental Lakes Area in Northwestern Ontario
Allochthonous dissolved organic matter (DOM) structures many physical, chemical, and biological properties of lakes, including key variables that control productivity at the base of freshwater food webs. We examined phytoplankton biomass and productivity and their drivers, across eight pristine boreal lakes with DOM ranging from 3.5 to 9.5 mg DOC L-1. Increases in DOM were associated with significant increases in epilimnetic nitrogen, phosphorus and chlorophyll a (Chl a) concentrations suggesting that nutrients associated with DOM stimulate phytoplankton biomass and productivity. Such results were misleading; there was no significant relationship between Chl a and phytoplankton biomass measured via microscopy, and results did not incorporate the effects of DOM on thermocline and euphotic depth. Chl a:biomass and Chl a: carbon ratios indicated that increases in Chl a with DOM were driven by photo-acclimation to declining light availability. Increases. Further, increases in DOM led to large declines in thermocline (~50 %) and euphotic (~75 %) depths, and depth-integrated phytoplankton biomass and primary production (~70 %).
IISD Experimental Lakes Area LTER: Phytoplankton Abundance, Biomass, and Community Structure, 1969 – 2024
The IISD Experimental Lakes Area (IISD-ELA) LTER Phytoplankton Abundance, Biomass, and Community Structure data package provides data on phytoplankton from five long-term reference lakes (Lake 114, Lake 224, Lake 239, Lake 373, and Lake 442) in northwestern Ontario, Canada. The data package includes metadata and tabular data. Metadata include a lake information table (lake names, locations, morphometric data) and an HTML information sheet that describes the data package and includes methods, a data dictionary, and references. Tabular data include: phytoplankton biomass summarized at the Division (Cyanobacteria) or Class (chlorophyceae, euglenophyceae, chrysophyceae, bacillariophyceae, cryptophyceae, dinophyceae) level of taxonomic resolution ("Group"); phytoplankton abundance and biomass at the lowest level of taxonomic resolution (usually species level); phytoplankton species codes that act as a primary key linking the previous tables to current scientific names; and the phytoplankton trophic feeding type that partitions taxa into functional feeding groups (autotrophic, heterotrophic, mixotrophic). The data package is ongoing – updated data will be provided as data are collected from these long-term reference lakes in subsequent years. If data are not present for the lake you are interested in (e.g. if the lake was part of an experiment rather than a reference lake) please get in touch with us.
Interagency Ecological Program: Monitoring of water quality, phytoplankton, zooplankton, clams, and Delta Smelt to support the Summer-Fall Suisun Marsh Salinity Control Gates Action 2018-2024
The Suisun Marsh Salinity Control Gates (SMSCG) have the potential to increase low-salinity-zone habitat for endangered Delta Smelt (Hypomesus transpacificus, California Endangered Species Act listed as Endangered, Federal Endangered Species Act listed as Threatened), and to allow them to more frequently occupy Suisun Marsh, especially Montezuma Slough, one of their most important rearing habitats. Operation of the SMSCG in summer and fall to improve Delta Smelt habitat are called for in the Biological Opinion and Incidental Take permit for the Central Valley Project and State Water Project. To support the adaptive management of the action, the California Department of Water Resources and collaborating agencies monitored water quality, phytoplankton, zooplankton, clams, and fishes during the SMSCG management actions in 2018. Monitoring has continued during the summer and fall months of all subsequent years, including both those with and without actions. This data package includes data collected by the Interagency Ecological Program’s (IEP) long-term monitoring programs supplemented with targeted sample collection where existing surveys lacked spatial or temporal coverage. Monitoring during no-action years will be used as a baseline for comparison during action years. This data package will be updated annually.
Temporal and spatial changes of the abundance and species composition of phytoplankton in the California Current from samples collected aboard CalCOFI cruises from summer 1996 through 2022.
The abundances of 385 taxonomic categories of phytoplankton (species where possible) are presented for the 26.5 -year period beginning with summer, 1996 and concluding with autumn 2022. There were four cruises per year. Samples were water samples collected from the second depth, which was designed to sample the mixed layer when a mixed layer existed, generally between 5m - 15m. Before counting, samples from single stations were pooled into four regions: NE (northern inshore), SE (southern inshore), Alley (the region of the California Current) and Offshore (Central Pacific). Pooled samples were enumerated with an inverted microscope. The species data are presented by seven major taxonomic categories followed by the sums of those major taxa. The species codes are defined in the table metadata.
June 2001 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in June 2001. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
October 2001 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in October 2001. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
November 2001 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in November 2001. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
September 2002 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in September 2002. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
December 2002 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in December 2002. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
March 2003 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in March 2003. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
June 2003 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in June 2003. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
September 2003 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in September 2003. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
March 2004 surface water phytoplankton productivity for 10 Georgia Coastal Ecosystems LTER sampling sites
Water samples were collected by Niskin bottle or by hand from just beneath the surface during low tide surveys at or near 10 GCE-LTER sampling sites in March 2004. The incorporation of radiolabelled bicarbonate in response to varying levels of illumination was measured using a photosynthetron apparatus. Photosynthesis-irradiance (P-I) curves constructed from these measurements will be used in conjunction with algal biomass and PAR versus depth measurements to estimate instantaneous gross primary production in the water at each GCE sampling site. This study was part of the GCE-LTER hydrographic monitoring program, and will be repeated quarterly.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.