Processing Steps |
- Parameter or Variable: Synechococcus abundance; Abbreviation: Synechococcus_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Sample gating based on forward scatter, side scatter, orange fluorescence (564-606 nm), and long band-pass red fluorescence (>670 nm), data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: Robert J. Olson, Erik R. Zettler, Michele D. DuRand. Phytoplankton Analysis Using Flow Cytometry (Chapter 22). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Synechococcus; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
- Parameter or Variable: Eukarotic picophytoplankton abundance; Abbreviation: Euk_phytoplankton_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Sample gating based on forward scatter, side scatter, orange fluorescence (564-606 nm), and long band-pass red fluorescence (>670 nm), data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: Robert J. Olson, Erik R. Zettler, Michele D. DuRand. Phytoplankton Analysis Using Flow Cytometry (Chapter 22). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Prymnesiophyceae, Chrysophyceae, Cryptophyceae, Pelagophyceae, Pinguiophyceae,Chlorarachniophyceae, Eustigmatophyceae, Pavlovophyceae, Trebouxiophyceae, Prasnophyceae; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
- Parameter or Variable: Large diatom (non-chain-forming) abundance; Abbreviation: Big_diatoms_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Sample gating based on forward scatter, side scatter, orange fluorescence (564-606 nm), and long band-pass red fluorescence (>670 nm), data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: Robert J. Olson, Erik R. Zettler, Michele D. DuRand. Phytoplankton Analysis Using Flow Cytometry (Chapter 22). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Bacillariophyceae; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
- Parameter or Variable: Prochlorococcus abundance; Abbreviation: Prochlorococcus_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Sample gating based on forward scatter, side scatter, orange fluorescence (564-606 nm), and long band-pass red fluorescence (>670 nm), data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: Robert J. Olson, Erik R. Zettler, Michele D. DuRand. Phytoplankton Analysis Using Flow Cytometry (Chapter 22). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Prochlorococcus; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
- Parameter or Variable: Cryptophyte abundance; Abbreviation: Cryptophytes_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Sample gating based on forward scatter, side scatter, orange fluorescence (564-606 nm), and long band-pass red fluorescence (>670 nm), data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: Robert J. Olson, Erik R. Zettler, Michele D. DuRand. Phytoplankton Analysis Using Flow Cytometry (Chapter 22). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Cryptophyceae; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
- Parameter or Variable: Total bacteria and archaea abundance; Abbreviation: Bacteria_total_cell_per_ml; Unit: cell per ml; Observation type: Counts by flow cytometry; Measured or calculated: Measured; Sampling instrument: Niskin bottle; Analyzing instrument: BD 4-color FACSCalibur; Detailed sampling and analyzing information: Single 2L sample collected from Niskin bottle, duplicate 3 ml aliquots removed for preservation with 60µl of 10% paraformaldehyde, flash-frozen in liquid nitrogen, and transferred to -80°C longer term storage. Flow cytometer calibrated with 1.0 and 3.0 Floresbrite, and 6.0 µm TruCount beads as appropriate for sample volume determination and size gating. Cellular double-stranded nucleic acid stained with SYBR Green. Sample gating based on forward scatter, side scatter and green fluorescence (515 - 545 nm). Data collection for 1000000 events or 180 seconds with 200 ms resolution.; Replicate information: Duplicate; Quality flag convention: Cell count flag used for all flow cytometry samples. 2 = good value, 3 = questionable value, 4 = bad value, 5 = value not reported, 6 = mean of replicate measurements, 9 = sample not drawn.; Method reference: D. K. Button, B. R. Robertson. Use of High-Resolution Flow Cytometry to Determine the Activity and Distribution of Aquatic Bacteria (Chapter 21). IN: Kemp, P.F., Cole, J.J., Sherr, B.F., and Sherr, E.B. (Eds.). (1993). Handbook of Methods in Aquatic Microbial Ecology (1st ed.). CRC Press. https://doi.org/10.1201/9780203752746; Biological subject: Bacteria, Archaea; Researcher name: Maria Kavanaugh; Researcher institution: Oregon State University, College of Earth, Ocean, and Atmospheric Sciences (under contract to NOAA Fisheries); PI: Linda Rhodes
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