Accessing BCO-DMO data
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| Dataset Title: | [Cell counts in dilution experiment] - Prochlorococcus and Synechococcus cell counts in dilution experiment treatments from samples collected on RV Cape Hatteras cruises CH0409 and CH0510 in 2009 and 2010. (Top-Down Regulation of Picophytoplankton in the Sargasso Sea: Application of a Reciprocal Transplant / Dilution Approach) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_716979) |
| Information: | Summary
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| ISO 19115
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Attributes {
s {
Cruise {
String bcodmo_name "cruise_id";
String description "R/V Cape Hatteras Cruise Designation";
String long_name "Cruise";
String units "unitless";
}
Exper {
String bcodmo_name "exp_id";
String description "Experiment Designation";
String long_name "Exper";
String units "unitless";
}
Bottle {
String bcodmo_name "bottle";
String description "Unique incubation bottle identifier";
String long_name "Bottle";
String units "unitless";
}
Depth_Sample {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 20, 86;
String bcodmo_name "depth_w";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "Depth of source water";
String long_name "Depth";
String standard_name "depth";
String units "meters";
}
Depth_Incubate {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 20, 86;
String bcodmo_name "depth_in";
Float64 colorBarMaximum 8000.0;
Float64 colorBarMinimum -8000.0;
String colorBarPalette "TopographyDepth";
String description "Depth of incubation";
String long_name "Depth";
String standard_name "depth";
String units "meters";
}
Dilution {
Float32 _FillValue NaN;
Float32 actual_range 0.1, 1.0;
String bcodmo_name "dilution";
String description "Fraction of unfiltered seawater in bottle";
String long_name "Dilution";
String units "number";
}
time2 {
String bcodmo_name "unknown";
String description "Sampling time; timepoints";
String long_name "Time";
String units "unitless";
}
Pro {
Float32 _FillValue NaN;
Float32 actual_range 826.0, 140000.0;
String bcodmo_name "cell_concentration";
String description "Prochlorococcus Cell Concentration";
String long_name "Pro";
String units "cells per milliliter";
}
Syn {
Float32 _FillValue NaN;
Float32 actual_range 527.0, 35500.0;
String bcodmo_name "cell_concentration";
String description "Synechococcus Cell Concentration";
String long_name "SYN";
String units "cells per milliliter";
}
Count {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 7;
String bcodmo_name "count";
Float64 colorBarMaximum 100.0;
Float64 colorBarMinimum 0.0;
String description "Number of counts underlying cell concentrations";
String long_name "Count";
String units "number";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Dilution Experiments: For an overview of the purpose and interpretation of
dilution experiments see Landry (1993) and Worden & Binder (2003). Seawater
samples were taken with Go-Flo bottles suspended on non-metallic cable. A
portion of this water was gravity-filtered through 0.2 um pore-size capsule
filters (Whatman Polycap 36 TC), and appropriate volumes of filtered and
unfiltered seawater were added to 500 ml polycarbonate bottles to achieve the
indicated dilutions. Time-0 (T0) samples were removed from each bottle and
preserved for later flow cytometric analysis as described below. Incubation
bottles were then distributed to nylon mesh bags and resuspended in the water
column at the depths indicated. After 24 hours, the bottles were recovered and
sampled for time-final (TF) counts. All sampling gear, filters, and incubation
bottles were acid-washed per Fitzwater et al. (1982). The dates, times, and
locations of the experiments were as follows:
\\u00a0
Cruise\\u00a0 \\u00a0 \\u00a0 Exper\\u00a0 \\u00a0 Date (UTC)\\u00a0 \\u00a0 T0
(UTC)\\u00a0 \\u00a0 \\u00a0E Long\\u00a0 \\u00a0 \\u00a0N Lat
CH0409\\u00a0 \\u00a0 X1\\u00a0 \\u00a0 \\u00a0 \\u00a0 \\u00a026-May-09\\u00a0 \\u00a0
\\u00a017:58:30\\u00a0 \\u00a0 \\u00a0-71.998\\u00a0 \\u00a0 30.171
CH0409\\u00a0 \\u00a0 X2\\u00a0 \\u00a0 \\u00a0 \\u00a0 \\u00a029-May-09\\u00a0 \\u00a0
\\u00a013:28:09\\u00a0 \\u00a0 \\u00a0-72.002\\u00a0 \\u00a0 30.173
CH0510\\u00a0 \\u00a0 X2\\u00a0 \\u00a0 \\u00a0 \\u00a0 \\u00a027-May-10\\u00a0 \\u00a0
\\u00a013:33:30\\u00a0 \\u00a0 \\u00a0-72.683\\u00a0 \\u00a0 30.699
\\u00a0
Flow Cytometric Cell Counts: Samples were fixed with freshly titrated
paraformaldehyde (pH 7.4\\u20138.1, 0.1% final concentration), held in the dark
for 10 min, frozen in liquid nitrogen, and stored in a \\u201180 deg C freezer
(CH0409 samples) or in liquid nitrogen (CH0510 samples) until analysis.
Preserved samples were analyzed by flow cytometry on a modified Coulter-EPICS
753 flow cytometer (Binder et al. 1996). Samples were chosen in random order
and defrosted in a 30 deg C water bath (just long enough to melt, ~5 min).
Prior to analysis, polystyrene fluorescent beads (Flow Check\\u00ae 0.494 um
\\u201cBB\\u201d; Polysicences Inc., Washington, PA, USA), were added to each
sample, and used to normalize cellular light scatter and fluorescence. Samples
were typically run at an infusion rate of 20 uL min-1 for 1 to 20 min,
depending on cell abundance within the sample. A minimum of 1,000
Prochlorococcus cells were analyzed, except for samples in which low cell
concentrations made this impractical. Final cell concentrations tabulated here
were calculated from 1-7 replicate counts (Count.n).";
String awards_0_award_nid "709338";
String awards_0_award_number "OCE-0751672";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=0751672";
String awards_0_funder_name "NSF Division of Ocean Sciences";
String awards_0_funding_acronym "NSF OCE";
String awards_0_funding_source_nid "355";
String awards_0_program_manager "David L. Garrison";
String awards_0_program_manager_nid "50534";
String cdm_data_type "Other";
String comment
"Dilution Experiment - Cell Counts
B. Binder, PI
Version 12 October 2017";
String Conventions "COARDS, CF-1.6, ACDD-1.3";
String creator_email "info@bco-dmo.org";
String creator_name "BCO-DMO";
String creator_type "institution";
String creator_url "https://www.bco-dmo.org/";
String data_source "extract_data_as_tsv version 2.3 19 Dec 2019";
String date_created "2017-10-13T21:52:11Z";
String date_modified "2019-03-19T15:36:41Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.716979.1";
String history
"2024-11-05T12:44:38Z (local files)
2024-11-05T12:44:38Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_716979.html";
String infoUrl "https://www.bco-dmo.org/dataset/716979";
String institution "BCO-DMO";
String instruments_0_acronym "GO-FLO";
String instruments_0_dataset_instrument_description "Used to take seawater samples";
String instruments_0_dataset_instrument_nid "717000";
String instruments_0_description "GO-FLO bottle cast used to collect water samples for pigment, nutrient, plankton, etc. The GO-FLO sampling bottle is specially designed to avoid sample contamination at the surface, internal spring contamination, loss of sample on deck (internal seals), and exchange of water from different depths.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/30/";
String instruments_0_instrument_name "GO-FLO Bottle";
String instruments_0_instrument_nid "411";
String instruments_0_supplied_name "Go-flo bottle";
String instruments_1_acronym "Flow Cytometer";
String instruments_1_dataset_instrument_description "Used to analyze preserved samples";
String instruments_1_dataset_instrument_nid "716987";
String instruments_1_description
"Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm)";
String instruments_1_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB37/";
String instruments_1_instrument_name "Flow Cytometer";
String instruments_1_instrument_nid "660";
String instruments_1_supplied_name "Coulter-EPICS 753 flow cytometer";
String keywords "bco, bco-dmo, biological, bottle, chemical, count, cruise, data, dataset, depth, Depth_Incubate, Depth_Sample, dilution, dmo, erddap, exper, management, oceanography, office, preliminary, pro, syn, time, time2";
String license "https://www.bco-dmo.org/dataset/716979/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/716979";
String param_mapping "{'716979': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/716979/parameters";
String people_0_affiliation "University of Georgia";
String people_0_affiliation_acronym "UGA";
String people_0_person_name "Dr Brian Binder";
String people_0_person_nid "50893";
String people_0_role "Principal Investigator";
String people_0_role_type "originator";
String people_1_affiliation "Woods Hole Oceanographic Institution";
String people_1_affiliation_acronym "WHOI BCO-DMO";
String people_1_person_name "Hannah Ake";
String people_1_person_nid "650173";
String people_1_role "BCO-DMO Data Manager";
String people_1_role_type "related";
String project "Picophytoplankton_Regulation";
String projects_0_acronym "Picophytoplankton_Regulation";
String projects_0_description
"The intellectual merit of the research is to extend our understanding of the biology and ecology of marine picophytoplankton, a group of microbes that are responsible for a large proportion of the total photosynthetic carbon fixation that occurs in the world's oceans. The importance of picophytoplankton as the dominant primary producers in open-ocean ecosystems is well-established. However, the factors that regulate the distribution and abundance of these populations remain poorly understood. The investigators will explore the dynamics of top-down (grazer-mediated) regulation of picophytoplankton populations in a specific context: the maintenance of summertime subsurface maxima in the pico-cyanobacterium Prochlorococcus (but not Synechococcus) in the Sargasso Sea. This phenomenon represents a relatively simple and predictable model system within which to test hypotheses about the regulation of oceanic picophytoplankton in general.
Recent results suggest that despite their abundance, Prochlorococcus in the subsurface maxi-mum are growing (and being grazed) rather slowly, as compared to the smaller population at the surface. In order to understand the factors responsible for this apparent paradox, this project will use a combination of field and laboratory studies to characterize and compare the interactions between Prochorococcus and its protozoan grazers at these two contrasting depths, and in relation to Synechococcus, which forms no such sub-surface maximum.
The broader impacts include training for graduate and undergraduate students. In addition, given the significance of picophytoplankton as primary producers at the base of oceanic microbial food webs, the results of this project should inform efforts to describe and model the broader oceanic ecosystem, and ultimately to understand its role in the global carbon cycle.";
String projects_0_end_date "2013-02";
String projects_0_geolocation "Western Sargasso Sea (vicinity of 30 N 72 W)";
String projects_0_name "Top-Down Regulation of Picophytoplankton in the Sargasso Sea: Application of a Reciprocal Transplant / Dilution Approach";
String projects_0_project_nid "709339";
String projects_0_start_date "2008-03";
String publisher_name "Biological and Chemical Oceanographic Data Management Office (BCO-DMO)";
String publisher_type "institution";
String sourceUrl "(local files)";
String standard_name_vocabulary "CF Standard Name Table v55";
String summary "Prochlorococcus and Synechococcus cell counts in dilution experiment treatments from samples collected on RV Cape Hatteras cruises CH0409 and CH0510 in 2009 and 2010.";
String title "[Cell counts in dilution experiment] - Prochlorococcus and Synechococcus cell counts in dilution experiment treatments from samples collected on RV Cape Hatteras cruises CH0409 and CH0510 in 2009 and 2010. (Top-Down Regulation of Picophytoplankton in the Sargasso Sea: Application of a Reciprocal Transplant / Dilution Approach)";
String version "1";
String xml_source "osprey2erddap.update_xml() v1.3";
}
}
Data Access Protocol (DAP) and its
selection constraints.
The URL specifies what you want: the dataset, a description of the graph or the subset of the data, and the file type for the response.
Tabledap request URLs must be in the form
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/datasetID.fileType{?query}
For example,
https://coastwatch.pfeg.noaa.gov/erddap/tabledap/pmelTaoDySst.htmlTable?longitude,latitude,time,station,wmo_platform_code,T_25&time>=2015-05-23T12:00:00Z&time<=2015-05-31T12:00:00Z
Thus, the query is often a comma-separated list of desired variable names,
followed by a collection of
constraints (e.g., variable<value),
each preceded by '&' (which is interpreted as "AND").
For details, see the tabledap Documentation.