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Title Sum-
Institution Dataset ID
     data   graph     files  public Cell abundance estimates of eukaryotic phytoplankton by taxa and size-class, based on
epifluorescence microscopy from samples collected on R/V Melville cruise MV1008 in the Costa
Rica Dome in 2010 (CRD FLUZiE project)
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The Dataset's Variables and Attributes

Row Type Variable Name Attribute Name Data Type Value
attribute NC_GLOBAL access_formats String .htmlTable,.csv,.json,.mat,.nc,.tsv,.esriCsv,.geoJson
attribute NC_GLOBAL acquisition_description String Seawater samples (500 mL) for microscopical analysis were gently collected
from the CTD and immediately preserved for slide preparation according to a
modified protocol of Sherr and Sherr (1993). The samples were first preserved
with 260 uL of alkaline Lugol\u2019s solution, immediately followed by 10 mL
of buffered formalin and 500 uL of sodium thiosulfate, with gentle mixing
between each addition. Preserved samples were shielded from light and left to
rest at room temperature for 1 h. After the rest period, 1 mL of proflavin
(0.33% w/v) was added and the samples were stored in the dark for an
additional hour. Just prior to filtration, the preserved samples were stained
with 1 mL of DAPI (0.01 mg mL-1) and immediately transferred to the filtration
manifold. A 50-mL aliquot (small volume, SV) of the sample was filtered
through a 25-mm black polycarbonate filter with 0.8-um pore size, and the
remaining 450 mL aliquot (large volume, LV) was filtered through a 25-mm black
polycarbonate filter with 8.0-um pores. A 10-mm nylon backing filter was
placed under all polycarbonate filters to promote even cell distribution, and
filtered the samples under gentle vacuum pressure (<100 mm Hg). Each filter
was then mounted onto glass slides with one drop of Type DF immersion oil and
a No. 2 cover slip, and the prepared slides were frozen at -80\u00b0C for
later analysis in the lab.
attribute NC_GLOBAL awards_0_award_nid String 515386
attribute NC_GLOBAL awards_0_award_number String OCE-0826626
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward?AWD_ID=0826626 (external link)
attribute NC_GLOBAL awards_0_funder_name String NSF Division of Ocean Sciences
attribute NC_GLOBAL awards_0_funding_acronym String NSF OCE
attribute NC_GLOBAL awards_0_funding_source_nid String 355
attribute NC_GLOBAL awards_0_program_manager String David L. Garrison
attribute NC_GLOBAL awards_0_program_manager_nid String 50534
attribute NC_GLOBAL cdm_data_type String Other
attribute NC_GLOBAL comment String Eukaryotic Phytoplankton Abundance (by epifluorescence microscopy)
PI: Michael Landry (UCSD-SIO)
Contact: Andrew Taylor (UCSD-SIO)
Version: 12 June 2014
Note: size_class: lt2 = less than 2 um; gt20 = greater than 20 um.
attribute NC_GLOBAL Conventions String COARDS, CF-1.6, ACDD-1.3
attribute NC_GLOBAL creator_email String info at bco-dmo.org
attribute NC_GLOBAL creator_name String BCO-DMO
attribute NC_GLOBAL creator_type String institution
attribute NC_GLOBAL creator_url String https://www.bco-dmo.org/ (external link)
attribute NC_GLOBAL data_source String extract_data_as_tsv version 2.3 19 Dec 2019
attribute NC_GLOBAL date_created String 2014-06-02T19:01:31Z
attribute NC_GLOBAL date_modified String 2019-12-30T14:55:39Z
attribute NC_GLOBAL defaultDataQuery String &amp;time&lt;now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.516356.1
attribute NC_GLOBAL Easternmost_Easting double -89.99424
attribute NC_GLOBAL geospatial_lat_max double 10.29979
attribute NC_GLOBAL geospatial_lat_min double 8.39218
attribute NC_GLOBAL geospatial_lat_units String degrees_north
attribute NC_GLOBAL geospatial_lon_max double -89.99424
attribute NC_GLOBAL geospatial_lon_min double -92.98714
attribute NC_GLOBAL geospatial_lon_units String degrees_east
attribute NC_GLOBAL geospatial_vertical_max double 100.0
attribute NC_GLOBAL geospatial_vertical_min double 2.0
attribute NC_GLOBAL geospatial_vertical_positive String down
attribute NC_GLOBAL geospatial_vertical_units String m
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/516356 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String camera
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Digital images were acquired with a Zeiss AxioCam MRc black and white 8-bit CCD camera.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 516480
attribute NC_GLOBAL instruments_0_description String All types of photographic equipment including stills, video, film and digital systems.
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/311/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Camera
attribute NC_GLOBAL instruments_0_instrument_nid String 520
attribute NC_GLOBAL instruments_0_supplied_name String Zeiss AxioCam MRc
attribute NC_GLOBAL instruments_1_acronym String Inverted Microscope
attribute NC_GLOBAL instruments_1_dataset_instrument_description String Slides were digitally imaged using a Zeiss Axiovert 200 M inverted compound microscope equipped for high-throughput epifluorescence microscopy with a motorized focus drive, stage, objective and filters.
attribute NC_GLOBAL instruments_1_dataset_instrument_nid String 516479
attribute NC_GLOBAL instruments_1_description String An inverted microscope is a microscope with its light source and condenser on the top, above the stage pointing down, while the objectives and turret are below the stage pointing up. It was invented in 1850 by J. Lawrence Smith, a faculty member of Tulane University (then named the Medical College of Louisiana).

Inverted microscopes are useful for observing living cells or organisms at the bottom of a large container (e.g. a tissue culture flask) under more natural conditions than on a glass slide, as is the case with a conventional microscope. Inverted microscopes are also used in micromanipulation applications where space above the specimen is required for manipulator mechanisms and the microtools they hold, and in metallurgical applications where polished samples can be placed on top of the stage and viewed from underneath using reflecting objectives.

The stage on an inverted microscope is usually fixed, and focus is adjusted by moving the objective lens along a vertical axis to bring it closer to or further from the specimen. The focus mechanism typically has a dual concentric knob for coarse and fine adjustment. Depending on the size of the microscope, four to six objective lenses of different magnifications may be fitted to a rotating turret known as a nosepiece. These microscopes may also be fitted with accessories for fitting still and video cameras, fluorescence illumination, confocal scanning and many other applications.
attribute NC_GLOBAL instruments_1_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/LAB05/ (external link)
attribute NC_GLOBAL instruments_1_instrument_name String Inverted Microscope
attribute NC_GLOBAL instruments_1_instrument_nid String 675
attribute NC_GLOBAL instruments_1_supplied_name String Zeiss Axiovert 200 M inverted compound microscope
attribute NC_GLOBAL keywords String abundance, array, array-data, bco, bco-dmo, biological, cast, chemical, class, comprehensive, cycle, data, dataset, date, date_local, depth, dmo, erddap, event, large, latitude, local, longitude, management, niskin, oceanography, office, preliminary, size, size_class, stewardship, system, taxon
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/516356/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/516356 (external link)
attribute NC_GLOBAL Northernmost_Northing double 10.29979
attribute NC_GLOBAL param_mapping String {'516356': {'lat': 'master - latitude', 'depth': 'flag - depth', 'lon': 'master - longitude'}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/516356/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of California-San Diego
attribute NC_GLOBAL people_0_affiliation_acronym String UCSD-SIO
attribute NC_GLOBAL people_0_person_name String Michael R. Landry
attribute NC_GLOBAL people_0_person_nid String 50545
attribute NC_GLOBAL people_0_role String Principal Investigator
attribute NC_GLOBAL people_0_role_type String originator
attribute NC_GLOBAL people_1_affiliation String University of California-San Diego
attribute NC_GLOBAL people_1_affiliation_acronym String UCSD-SIO
attribute NC_GLOBAL people_1_person_name String Andrew G. Taylor
attribute NC_GLOBAL people_1_person_nid String 516476
attribute NC_GLOBAL people_1_role String Contact
attribute NC_GLOBAL people_1_role_type String related
attribute NC_GLOBAL people_2_affiliation String Woods Hole Oceanographic Institution
attribute NC_GLOBAL people_2_affiliation_acronym String WHOI BCO-DMO
attribute NC_GLOBAL people_2_person_name String Shannon Rauch
attribute NC_GLOBAL people_2_person_nid String 51498
attribute NC_GLOBAL people_2_role String BCO-DMO Data Manager
attribute NC_GLOBAL people_2_role_type String related
attribute NC_GLOBAL project String CRD FLUZiE
attribute NC_GLOBAL projects_0_acronym String CRD FLUZiE
attribute NC_GLOBAL projects_0_description String Research was aimed at improved understanding of plankton dynamics, carbon and nutrient fluxes, and potential trace element limitation in the Costa Rica Dome region of the eastern tropical Pacific. The specific science objectives of the 2010 R/V Melville cruise (MV1008) were:
1) to assess grazing and trace metal/nutrient controls on primary production and phytoplankton standing stocks;
2) to quantify carbon and elemental fluxes and export rates from the euphotic zone; and
3) to measure microbial population, processes, stable isotope abundances associated with the OMZ and nitrite maxima.
Additional information about MV1008 can be found in the cruise report (PDF).
NOTE: The original proposal and award abstract are not relevant. The project was originally funded by NSF as experimental tests of phytoplankton controls in the Arabian Sea. Piracy concerns in the region led to the cancellation of the research cruise in 2009, and a Change of Scope request was approved to focus the project on related issues in the Costa Rica Dome (CRD).
Though this project is not formally affiliated with any large program, it aligns with IMBER's emphasis on community ecology and biogeochemistry, and the OCB focus on carbon-based measurements of production, grazing and export processes.
attribute NC_GLOBAL projects_0_end_date String 2013-12
attribute NC_GLOBAL projects_0_geolocation String Costa Rica Dome, Eastern Tropical Pacific Ocean
attribute NC_GLOBAL projects_0_name String Costa Rica Dome FLUx and Zinc Experiments
attribute NC_GLOBAL projects_0_project_nid String 515387
attribute NC_GLOBAL projects_0_start_date String 2009-01
attribute NC_GLOBAL publisher_name String Biological and Chemical Oceanographic Data Management Office (BCO-DMO)
attribute NC_GLOBAL publisher_type String institution
attribute NC_GLOBAL sourceUrl String (local files)
attribute NC_GLOBAL Southernmost_Northing double 8.39218
attribute NC_GLOBAL standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Cell abundance estimates of eukaryotic phytoplankton by taxa and size-class, based on epifluorescence microscopy. Samples were collected on the MV1008 cruise in the Costa Rica Dome (CRD) region of the Eastern Tropical Pacific Ocean.
attribute NC_GLOBAL title String Cell abundance estimates of eukaryotic phytoplankton by taxa and size-class, based on epifluorescence microscopy from samples collected on R/V Melville cruise MV1008 in the Costa Rica Dome in 2010 (CRD FLUZiE project)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL Westernmost_Easting double -92.98714
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable event   short  
attribute event _FillValue short 32767
attribute event actual_range short 304, 950
attribute event bcodmo_name String event
attribute event description String Number referring to the particular activity (event) on the FluZiE cruise.
attribute event long_name String Event
attribute event nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/EVTAGFL/ (external link)
attribute event units String integer
variable cast   byte  
attribute cast _FillValue byte 127
attribute cast actual_range byte 25, 70
attribute cast bcodmo_name String cast
attribute cast description String CTD Cast number from the FluZiE cruise.
attribute cast long_name String Cast
attribute cast units String integer
variable cycle   String  
attribute cycle bcodmo_name String unknown
attribute cycle description String Type and number of cruise sampling event. Either "Stn_n" or "Cycle_n". A transect of stations was sampled from 29 June to 03 July. Five quasi-Lagrangian experiments called "cycles" were conducted during the remainder of the cruise.
attribute cycle long_name String Cycle
attribute cycle units String text
variable date_local   String  
attribute date_local bcodmo_name String date
attribute date_local description String Date of CTD cast (local time zone of UTC -6). in the format mmddyyyy
attribute date_local long_name String Date Local
attribute date_local nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/ (external link)
attribute date_local units String unitless
variable latitude   double  
attribute latitude _CoordinateAxisType String Lat
attribute latitude _FillValue double NaN
attribute latitude actual_range double 8.39218, 10.29979
attribute latitude axis String Y
attribute latitude bcodmo_name String latitude
attribute latitude colorBarMaximum double 90.0
attribute latitude colorBarMinimum double -90.0
attribute latitude description String Latitude in degrees North.
attribute latitude ioos_category String Location
attribute latitude long_name String Latitude
attribute latitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LATX/ (external link)
attribute latitude standard_name String latitude
attribute latitude units String degrees_north
variable longitude   double  
attribute longitude _CoordinateAxisType String Lon
attribute longitude _FillValue double NaN
attribute longitude actual_range double -92.98714, -89.99424
attribute longitude axis String X
attribute longitude bcodmo_name String longitude
attribute longitude colorBarMaximum double 180.0
attribute longitude colorBarMinimum double -180.0
attribute longitude description String Longitude in degrees East.
attribute longitude ioos_category String Location
attribute longitude long_name String Longitude
attribute longitude nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/LONX/ (external link)
attribute longitude standard_name String longitude
attribute longitude units String degrees_east
variable depth   double  
attribute depth _CoordinateAxisType String Height
attribute depth _CoordinateZisPositive String down
attribute depth _FillValue double NaN
attribute depth actual_range double 2.0, 100.0
attribute depth axis String Z
attribute depth bcodmo_name String depth
attribute depth colorBarMaximum double 8000.0
attribute depth colorBarMinimum double -8000.0
attribute depth colorBarPalette String TopographyDepth
attribute depth description String Sample depth.
attribute depth ioos_category String Location
attribute depth long_name String Depth
attribute depth nerc_identifier String https://vocab.nerc.ac.uk/collection/P09/current/DEPH/ (external link)
attribute depth positive String down
attribute depth standard_name String depth
attribute depth units String m
variable niskin   byte  
attribute niskin _FillValue byte 127
attribute niskin actual_range byte 1, 22
attribute niskin bcodmo_name String bot_Nis
attribute niskin description String Niskin bottle that the sample was taken from.
attribute niskin long_name String Niskin
attribute niskin units String integer
variable taxon   String  
attribute taxon bcodmo_name String taxon
attribute taxon description String Taxon. autotrophic_dinos = Autotrophic Dinoflagellates; autotrophic_flags = Autotrophic Flagellates; all = all taxonomic groups (diatoms + autotrophic dinoflagellates + autotrophic flagellates + prymnesiophytes + cryptophytes)
attribute taxon long_name String Taxon
attribute taxon units String text
variable size_class   String  
attribute size_class bcodmo_name String unknown
attribute size_class description String Size-Class Distribution (cell lengths are longest major axis): lt2 = cells < 2 um; 2_to_10 = cells 2_to_10 um; 10_to_20 = cells 10-20 um; gt20 = cells > 20 um; total = all sizes.
attribute size_class long_name String Size Class
attribute size_class units String micrometers (um)
variable abundance   short  
attribute abundance _FillValue short 32767
attribute abundance actual_range short 0, 23402
attribute abundance bcodmo_name String abundance
attribute abundance description String Abundance of the taxon size class.
attribute abundance long_name String Abundance
attribute abundance nerc_identifier String https://vocab.nerc.ac.uk/collection/P03/current/B070/ (external link)
attribute abundance units String cells per milliliter (cells/mL)

The information in the table above is also available in other file formats (.csv, .htmlTable, .itx, .json, .jsonlCSV1, .jsonlCSV, .jsonlKVP, .mat, .nc, .nccsv, .tsv, .xhtml) via a RESTful web service.

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