Abundance of bacteria viruses and chlorophyll containing cells collected from the R/V Oceanus OC1504A in the Oregon/California Coastal Upwelling Zone, between 34-44N and 120-124W during 2015 (NCEI Accession 0277301)
This dataset contains biological and survey - biological data collected on R/V Oceanus during cruise OC1504A in the North Pacific Ocean from 2015-04-20 to 2015-05-01. These data include abundance and depth. The instruments used to collect these data include Flow Cytometer. These data were collected by Dr Kimberlee Thamatrakoln of Rutgers University and Mark Brzezinski of University of California-Santa Barbara as part of the "Linking physiological and molecular aspects of diatom silicification in field populations (Diatom Silicification)" project. The Biological and Chemical Oceanography Data Management Office (BCO-DMO) submitted these data to NCEI on 2023-01-23.
The following is the text of the dataset description provided by BCO-DMO:
Abundance of bacteria viruses and chlorophyll containing cells
Dataset Description:
Enumeration of Bacteria, viruses, and chlorophyll containing particles using flow cytometry.
For related datasets, click on the project link at the top of the page.
The following is the text of the dataset description provided by BCO-DMO:
Abundance of bacteria viruses and chlorophyll containing cells
Dataset Description:
Enumeration of Bacteria, viruses, and chlorophyll containing particles using flow cytometry.
For related datasets, click on the project link at the top of the page.
Dataset Citation
- Cite as: Thamatrakoln, Kimberlee; Brzezinski, Mark A. (2023). Abundance of bacteria viruses and chlorophyll containing cells collected from the R/V Oceanus OC1504A in the Oregon/California Coastal Upwelling Zone, between 34-44N and 120-124W during 2015 (NCEI Accession 0277301). [indicate subset used]. NOAA National Centers for Environmental Information. Dataset. https://www.ncei.noaa.gov/archive/accession/0277301. Accessed [date].
Dataset Identifiers
ISO 19115-2 Metadata
gov.noaa.nodc:0277301
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Ordering Instructions | Contact NCEI for other distribution options and instructions. |
Distributor |
NOAA National Centers for Environmental Information +1-301-713-3277 NCEI.Info@noaa.gov |
Dataset Point of Contact |
NOAA National Centers for Environmental Information ncei.info@noaa.gov |
Time Period | 2015-04-20 to 2015-05-01 |
Spatial Bounding Box Coordinates |
West: -124.482
East: -120.81
South: 34.555
North: 43.654
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Data Presentation Form | Digital table - digital representation of facts or figures systematically displayed, especially in columns |
Dataset Progress Status | Complete - production of the data has been completed Historical archive - data has been stored in an offline storage facility |
Data Update Frequency | As needed |
Supplemental Information | Acquisition Description: Environmental Sample Collection Transfer 1 ml of whole seawater to a 2 ml cryovial. Add 20 ul of 25% glutaraldehyde for a final concentration of 0.5%. Incubate at 4 degrees celsius for 30 min. Flash freeze in liquid N 2 and store at -80 degrees celsius. Fluorescent DNA staining (for bacterial and viral abundances) Thaw samples. To 20 ul of sample, add 980 ul 1X TE buffer with SYBR Gold (see recipe below) Heat to 80 degrees celsius for 10 min in the dark Cool at RT for 5 min Analyze via flow cytometry Analysis (for bacterial and viral abundances) Samples are analyzed on Influx Model 209S Mariner flow cytometer using BD Software (BD Biosciences). An initial Forward Scatter (FSC) vs Side Scatter (SSC) configuration is determined using Molecular Probes Flow Cytometry Sub-micron particles size reference kit (Cat#F13839) consisting of 0.02, 0.1, 0.5, 1.0 and 2.0 um fluorescent beads. A gating hierarchy is established using both beads and previously determined virus and bacteria populations as reference (Sybr Gold Fluorescence versus SSC cytogram). Samples are analyzed using a 488 nm laser for excitation and a minimum trigger threshold is established using 542/15 nm (SYBR Gold) emission. Analysis (for chlorophyll containing cells) Samples are analyzed on a BD Accuri C6. Fixed, frozen samples are thawed and analyzed immediately. An initial Forward Scatter (FSC) vs Side Scatter (SSC) configuration is determined using various sized fluorescent beads as reference points (1.0, 2.0, 3.0, 6.0 and 10 um). Gating is established using both beads and previously determined phytoplankton populations as reference (Chlorophyll Fluorescence versus FSC cytogram). Samples are analyzed using 488nm laser for excitation and the default BD Accuri threshold (80,000 RFU) on FSC is used. TE buffer with SYBR Gold recipe 1X TE (for 100 mls) 1 ml of 1M Tris, pH 8.0 1 ml of 0.5 mM EDTA 98 mls MQ water Store 4 degrees celsius 1X TE + SYBR Gold (for 10 mls) Filter 10 mls 1 TE buffer, 0.22 um filter 1:20,0000 dilution of SYBR Gold (Molecular Probes) stock (0.5 ul stock to 10 mls TE buffer) |
Purpose | This dataset is available to the public for a wide variety of uses including scientific research and analysis. |
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Project keywords | BCO-DMO Standard Projects Provider Cruise IDs Provider Funding Award Information |
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Last Modified: 2024-05-31T15:15:28Z
For questions about the information on this page, please email: ncei.info@noaa.gov
For questions about the information on this page, please email: ncei.info@noaa.gov