| Estimated feeding rates of adult and nauplius copepod species on three phytoplankton species from the San Francisco estuary in 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EM filter pair for chlorophyll a.
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| Experimental results describing copepod gut evacuation time from species collected in the San Francisco estuary during 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EMfilter pair for Chl a.
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| Experimental results describing the minimum time for copepod gut fluorescence by plate reader method analyzed at San Francisco State University during 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EMfilter pair for Chl a.
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| Experimental results describing if sonication is needed for chlorophyll extraction by copepods in the San Francisco estuary conducted during 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EMfilter pair for Chl a.
| |
| Experimental results describing Pseudodiaptomus marinus gut minimum fluorescence thresholds that were analyzed at San Francisco State University in 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EMfilter pair for Chl a.
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| Alkaline phosphatase activities for in situ and incubation samples from RV/Atlantic Explorer cruise AE1812 cruise transect from Bermuda to Rhode Island in May 2018. | Samples were run on a Biotek Synergy fluorescent plate reader using black plates
| Biotek Synergy fluorescent plate reader |
| Thermal growth for Skeletonema species as analyzed in Anderson and Rynearson, 2020 | | Microplate Reader (Spectramax M Series, Molecular Devices, Sunnyvale, CA) |
| Alkaline phosphatase activity over bioassay experiments with seawater from R/V Savannah cruise SAV-19-02 in the NW Atlantic Ocean in Spring of 2019 | Reading of fluorescence was performed on a plate reader (SpectraMax® M2, Molecular Devices).
| SpectraMax® M2, Molecular Devices |
| Alkaline phosphatase activity (APA) Michaelis-Menten kinetic parameters (Vmax and Km) in both whole and filtered seawater collected during R/V Savannah cruise SAV-19-02 in the NW Atlantic Ocean in the Spring of 2019 | Sampling was performed using Niskin bottles (12 L) mounted on a rosette. Reading of fluorescence was performed on a plate reader (SpectraMax® M2, Molecular Devices).
| SpectraMax® M2, Molecular Devices |
| CO2, temperature, and oxygen effects on Atlantic silverside metabolic rates | 24-channel SensorDish Readers, Presens Precision Sensing, GmbH, Regensburg, Germany.
| Respirometry oxygen sensor readers |
| Proximate biochemistry of sponge species collected in 2017 and 2018 across the Caribbean Basin in Curacao, Belize, Grand Cayman, St. Croix | | BioTek Synergy HT Multi-Detection Microplate Reader |
| Metabolic potential for heterotrophic utilization of a large array of organics by coccolithophores determined through experiments at Bigelow Laboratory for Ocean Sciences using BioLog Eco-plates | FilterMax F5 multimode plate reader (Molecular Devices, LLC, San Jose, CA, U.S.A.).
| FilterMax F5 multimode plate reader |
| Brooded coral larval size, protein content, symbiont (Symbiodinium) densities, maximum photochemical efficiency of PSII (Cumbo, 2012) from Taiwan, 2010 (Cumbo, 2012) (MCR LTER project, Climate_Coral_Larvae project) | Biotek Synergy H4 Hybrid Reader, USA
| plate reader |
| Protein content of brooded coral larvae at high and ambient temperature and pCO2, March 2011 (Cumbo et al, JEMBE, 2013) (MCR LTER & Climate Coral Larvae projects) | BioRad Life Sciences Research, CA
| plate reader |
| Respiration and protein content of brooded coral larvae at high and ambient temperature and pCO2, Taiwan, March 2011 (Cumbo et al, JEMBE, 2013) (MCR LTER & Climate Coral Larvae projects) | BioRad Life Sciences Research, CA
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| Carbonate chemistry data collected as part of a study of the "Community context and pCO2 impact the transcriptome of the "helper" bacterium Alteromonas in co-culture with picocyanobacteria" | | BioTek H1 plate reader |
| Chemotaxis of Pseudoalteromonas haloplanktis towards exudates of phage-infected and control Synechoccocus (VIC project) | Culture growth was tracked using a SpectraMax ID3 plate reader (Molecular Devices) and cell counts were measured using a CytoFLEX flow cytometer (Beckman Coulter).
| SpectraMax ID3 plate reader (Molecular Devices) |
| Chemotaxis of Vibrio alginolyticus towards live phage-infected/control Synechococcus cells (VIC project) | Culture growth was tracked using a SpectraMax ID3 plate reader (Molecular Devices) and cell counts were measured using a CytoFLEX flow cytometer (Beckman Coulter).
| SpectraMax ID3 plate reader (Molecular Devices) |
| Physiology measurements on collected coral pairs from Kaneohe Bay, Oahu, HI between July and December 2019 | Plate reader used in measuring chlorophyll absorbance
| BioTek PowerWave XS2 |
| Physiology measurements on collected coral pairs from Kaneohe Bay, Oahu, HI between July and December 2019 | Plate reader used in measuring protein and antioxidant concentrations
| BioTek ELx808 |
| Terminal restriction fragments from 16S rRNA genes amplified from coral-associated microbes in response to temperature stress from Kaneohe Bay, Oahu, Hawaii in 2007 (MiCoDe project) | SpectraMax M2 plate reader (Molecular Device Corp., Sunnyvale, CA, USA)
| plate reader |
| Specificity of associations between bacteria and Pocillopora meandrina during early development in Kaneohe Bay, Oahu, Hawaii from 2008 (MiCoDe project) | SpectraMax M2 plate reader (Molecular Device Corp., Sunnyvale, CA, USA)
| plate reader |
| T-RFLP, response of the microbial community to coral spawning, lagoon and reef flats in Kaneohe Bay, Oahu, Hawaii during 2006 - 2007 (MiCoDe project) | SpectraMax M2 plate reader (Molecular Device Corp., Sunnyvale, CA, USA)
| plate reader |
| Dissolved inorganic nutrients from two microcosm incubation experiments conducted on sample water collected from West Bay of the Neuse River Estuary, North Carolina USA in 2021 and 2022 | used for NOx and NH4 measurements from spring samples
| Tecan Infinite 200Pro (i-control v2.0.10.0) |
| Population changes in Halobacteriovorax cultured with protist & prey | Absorbance Microplate Reader Q4 (BIO-TEK Instruments Inc., USA)
| Absorbance Microplate Reader Q4 |
| Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project) | Used to measure fluorescent reaction
| BioTek Synergy M plate reader |
| Hydrolysis rates from bulk samples, plate reader results from RV/Endeavor EN556, 2015 (Patterns of activities project) | | TECAN spectrafluor plus |
| Hydrolysis rates from gravity filtered samples, plate reader results from RV/Endeavor EN556, 2015 (Patterns of activities project) | | TECAN spectrafluor plus |
| Measurements of peptidase and glucosidase activities in large volume mesocosm incubations on RV/Endeavor EN584, July 2016 (Patterns of activities project) | Used to measure fluorescence of incubated 96-well plate. Settings: 360 nm excitation, 460 emission.
| TECAN spectrafluor plus |
| Small substrate hydrolysis of bulk water samples taken aboard the R/V Endeavor EN638, May 2019 in the Northern Atlantic. | TECAN infiniteF200; 360 nm excitation, 460 emission
| TECAN infiniteF200 |
| Small substrate hydrolysis of large volume (LV) samples aboard the R/V Endeavor EN638, May 2019 in the Northern Atlantic. | TECAN infinite F200; 360 nm excitation, 460 emission
| TECAN infinite F200 |
| Nutrient concentrations, microbiology (Vibrio abundance), trace metals, and environmental conditions from collection sites in the Florida Keys National Marine Sanctuary, 2014-2016 | To measure colony counts
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| Experimental results describing Copepod fed phytoplankton mixtures that were analyzed at San Francisco State University in 2013 | Tecan Infinite F200 or Biotek Synergy 2 microplate reader was used for each analysis. Each microplate reader contained a 430/20 EX, 680/20 EMfilter pair for Chl a.
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| Physiological metrics recorded at the end of experiments conducted to examine two coral species' responses to thermal stress | | SpectraMax Paradigm Multi‐Mode Microplate Reader (Molecular Devices) |
| Maximum potential quantum efficiency of Photosystem II (Fv/Fm) for two coral species, Acropora hemprichii and Porites lobata, in response to thermal stress | | SpectraMax Paradigm Multi‐Mode Microplate Reader (Molecular Devices) |
| Coral physiology parameters acquired during a heatwave experiment done September to November 2018 using reef building corals collected in Kāne'ohe Bay, O'ahu, Hawai'i. | 96 well microplate reader (BioTek Synergy HTX Multi-Mode Reader)
| BioTek Synergy HTX Multi-Mode Reader |
| High Resolution Growth Screen of Ruegeria pomeroyi Transporter Mutants Data September 2021 - June 2022 (C-CoMP Marine Bacterial Transporters project) | Cultures were grown at 25oC in a Synergy H1 plate reader (BioTek, Winooski, VT, USA) shaking at 425 rpm for 68-72 h. OD600 readings were collected once each hour.
| Synergy H1 plate reader (BioTek, Winooski, VT, USA) |
| High throughput growth screening of the marine bacterium Ruegeria pomeroyi DSS-3 knockout mutants on 70 environmentally relevant marine substrates done in 2021. | | SpectraMax M3 plate reader, Molecular Devices, San Jose, CA |
| Host-symbiont respiration related to symbiont density; anemones from Key Largo from (AnemoneOA project) | Measured baseline absorbance at 412nm. (Fluostar Omega, BMG, Cary, NC, USA)
| microplate reader |
| Hydrolytic enzyme activities during CDOM monoculture experiment with Coscinodiscus | Used to measure fluorescence from which hydrolysis rates were calculated.
| Tecan Infinite 200 Pro microplate reader |
| Hydrolytic enzyme activities during CDOM monoculture experiments with Skeletonema, Leptocylindrus, and Phaeocystis | Used to measure fluorescence from which hydrolysis rates were calculated.
| Tecan Infinite 200 Pro microplate reader |
| Supplementary Table 3B: Replicate cell counts for the 11 samples and alkaline phosphatase activity measurements available for any of the 11 samples | Alkaline Phosphate activity was measured with a Spark 10M Multimode Microplate Reader (Tecan, Männedorf, Switzerland).
| Spark 10M Multimode Microplate Reader |
| Antibacterial assays of Montipora capitata aqueous extracts collected in Kaneohe Bay, Oahu, Hawaii during 2014 | BioTek Synergy™ HT Multi-Detection Microplate Reader
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| Antibacterial assays of Montipora capitata mucus collected in Kaneohe Bay, Oahu, Hawaii during 2014 | BioTek Synergy™ HT Multi-Detection Microplate Reader
| plate reader |
| Pore water geochemistry from sediments collected on cruise OC1703A aboard R/V Oceanus and cruise AT36 aboard R/V Atlantis | | Lab BioTek Synergy HT microplate reader (Winooski, VT) |
| Phosphohydrolysis rates from samples collected in the coastal western North Atlantic on R/V Endeavor cruise EN588 during September 2016 | | multimode plate reader (Molecular Devices) |
| Photosynthesis and respiration data recorded during experiments conducted to examine two coral species' responses to thermal stress | | SpectraMax Paradigm Multi‐Mode Microplate Reader (Molecular Devices) |
| Physiological responses of the coral host and associated endosymbionts measured during two experiments testing the effects of acute and chronic thermal stress on the scleractinian coral, Stylophora pistillata | | Biotek HT Synergy plate reader |
| Cell abundance, growth rate, cellular P quotas, and alkaline phosphatase activity from a laboratory experiment examining the response of three species of marine phytoplankton grown under different phosphorus (P) conditions | | Molecular Devices FilterMax F5 microplate reader |
| Polyphosphate and associated measurements from water and particulate samples collected from 13 locations in the Great Lakes in July-Aug 2018 on R/V Blue Heron cruise BH18-09 | The colorimetric and fluorescence measurements were conducted using a BioTek microplate reader.
| FlexStation 3 Multi-mode Microplate Reader, BioTek |
| Stable carbon isotope data for thirteen individual amino acids from twelve species of eukaryotic microalgae and four species of eukaryotic microalgae | Microplate reader (SpectraMax M5 Series, Molecular Devices) - used to obtain growth rates to target biomass collection approximately during exponential growth or early in the stationary phase.
| SpectraMax M5 Series microplate reader (Molecular Devices) |
| Prochlorococcus or Synechococcus cell concentrations and nitrite concentrations during batch culture with ammonium or nitrate as the sole nitrogen source for growth | | Synergy 2 Plate Reader (BioTek Instruments, Winooski, VT, USA) |
| Quantification of ciliated band length per unit protein in early echinoderm larvae (protein data), collected between 2020 and 2022 in the laboratory at California State University, Long Beach. | Biotek Synergy H1 Hybrid Microplate Reader, to measure spectrophotometric absorption values of protein samples and BSA standards.
| Biotek Synergy H1 Hybrid Microplate Reader |
| Ruegeria pomeroyi RB-TnSeq Transponson Mutant Library Screen Experimental Data February 2021 (C-CoMP Marine Bacterial Transporters project) | After growth with shaking at 25oC for 72 h in a Synergy H1 plate reader (BioTek, Winooski, VT, USA) , cultures were serially transferred into fresh media four times and then transferred to 1.5 ml tubes, pelleted by centrifugation at 8,000 x g for 3 min, and stored at -80oC until further processing.
| Synergy H1 plate reader (BioTek, Winooski, VT, USA) |
| Coral physiology data (chlorophyll a, symbiont densities) on four collected coral species from six sites in the Red Sea from 2018 to 2020 | | SpectraMax Paradigm Multi‐Mode Microplate Reader (Molecular Devices) |
| RNA:DNA and total lipid measurements for laboratory-based experimental animals collected from the Gulf of Mexico Estuary near Port Aransas, Texas from 2020 to 2022 | | Spectramax 190 Microplate Reader |
| Dissolved organic phosphorus (DOP) hydrolysis rates from Ruegeria pomeroyi laboratory cultures | | Molecular Devices M3 multimode plate reader (Spectra Max) |
| Pore water and solid phase iron geochemical data from a coastal Maine intertidal mudflat from November 2015 to November 2016 | | MultiSkan MCC plate reader |
| Nutrients, microbiology, trace metals, and environmental conditions from seeded microcosm experiments | To measure colony counts
| |
| Single amplified genomes (SAGs) of chemoautotrophs from global deep sea samples (Dark ocean chemoautotrophs project) | | high-throughput plate reader (BMG) |
| Differences in mean oxygen consumption of fed and unfed larvae used to understand the metabolic cost of digestion, Specific Dynamic Action (SDA), under ocean acidification and warming treatments - Experiment 1 | Oxygen consumption was measured within a closed microplate reader system that uses optical fluorescence to measure oxygen concentration (Loligo Systems, Denmark and PreSens, Germany).
| closed microplate reader system |
| Differences in mean oxygen consumption of fed and unfed larvae used to understand the metabolic cost of digestion, Specific Dynamic Action (SDA), under ocean acidification and warming treatments - Experiments 2a and 2b | Oxygen consumption was measured within a closed microplate reader system that uses optical fluorescence to measure oxygen concentration (Loligo Systems, Denmark and PreSens, Germany).
| closed microplate reader system |
| Data on laboratory cultures and statistical analysis code associated with the paper "Co-culture with Synechococcus facilitates the growth of Prochlorococcus under ocean acidification conditions" published in Environmental Microbiology | pH was measured using either a custom-calibrated pH probe or colorimetrically using m-cresol purple administered by sequential injection in a BioTek Synergy H1 spectrophotometer plate reader.
| BioTek Synergy H1 spectrophotometer plate reader |
| Laboratory-cultured Synechococcus (WH8102 and WH5701) MUF-P hydrolysis inhibition by dissolved organic phosphorus (DOP) from experiments between 2018-2023 | | Molecular Devices M2 multimode plate reader (Spectra Max) |
| In vivo fluorescence and flow cytometry cell counts from dissolved organic phosphorus (DOP) hydrolysis experiments with marine cyanobacterium Synechococcus laboratory cultures (WH8102 and WH5701) from 2018-2023 | | Molecular Devices M2 multimode plate reader (Spectra Max) |
| Hydrolysis rates from dissolved organic phosphorus (DOP) hydrolysis experiments with marine cyanobacterium Synechococcus laboratory cultures (WH8102 and WH5701) from 2018-2023 | | Molecular Devices M2 multimode plate reader (Spectra Max) |
| Fluorescence spectra for 3 strains of Synechococcus while increasing temperatures to detect the photosystem components disassociation temperature | Used to measure the fluorescence spectra
| SpectraMax m2 (Molecular Devices, CA) |
| Temperature data measured during two experiments testing the effects of acute and chronic thermal stress on the scleractinian coral, Stylophora pistillata | | Biotek HT Synergy plate reader |
| Comparative analysis of tissue biomass and energy reserves of six coral species from nearshore and offshore reefs in Palau, Micronesia during March 2017 | All samples were analyzed in triplicate using a microplate reader (EPOCH 2, Agilent), measuring absorbance at 465 nm and 595 nm.
| microplate reader (EPOCH 2, Agilent) |
| Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex after about 100 generations of evolution at seven temperatures, 12-34 degrees C. | | SpectraMax M5 microplate reader (Molecular Devices, Sunnyvale, CA, USA) |
| Daily growth rates for Thermal Performance Curve (TPC) of Chaetoceros simplex in nitrogen-replete evolved populations after about 200 generations of evolution at eight temperatures, 10-35 degrees C. | | SpectraMax M5 microplate reader (Molecular Devices, Sunnyvale, CA, USA) |
| Water column data from R/V Atlantic Explorer cruise AE1409 in the Western Tropical North Atlantic from May 2014 (P Processing by Tricho project) | Samples were processed as previously described by Dyhrman and Ruttenberg (2006) using 6,8-difluoro-4-methylumbeliferyl phosphate (DiMufP) on a Synergy H1 Hybrid plate reader using the Gen5 software package (BioTek, Winooski, VT).
Reference:
Dyhrman, S.T., Ruttenberg, K.C., 2006. Presence and regulation of alkaline phosphatase activity in eukaryotic phytoplankton from the coastal ocean: Implications for dissolved organic phosphorus remineralization,. Limnol. Oceanogr. 51, 1381-1390.
| Synergy H1 Hybrid plate reader |
| Respirometry data for pelagic crustaceans, cephalopods, and fish collected on R/V Sikuliaq cruise SKQ201701S from January to February 2017 | Presens Plate Reader SY11000, SDR-547: optical oxygen meter with 24 wells (75 µl each)
| Presens Plate Reader SY11000, SDR-547 |
©2020 Biological and Chemical Oceanography Data Management Office.