Accessing BCO-DMO data
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BCO-DMO ERDDAP
Accessing BCO-DMO data |
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| Dataset Title: | [Pmin strain feeding 2] - Data from an experiment that measured the occurrence of feeding among 8 Prorocentrum minimum strains on fluorescently labeled bacteria or the cryptophyte Teleaulax amphioxeia (Exploring the physiological and ecological basis of mixotrophy in marine food webs) 
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| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_750823) |
| Information: | Summary
| License
| ISO 19115
| Metadata
| Background
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Attributes {
s {
Prey {
String bcodmo_name "treatment";
String description "Either fluorescently labeled bacteria (FLB) or the cryptophyte Teleaulax amphioxeia (CRYPT) was used";
String long_name "Prey";
String units "unitless";
}
Strain {
String bcodmo_name "sample";
String description "Prorocentrum minimum culture strain name";
String long_name "Strain";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
treatment {
String bcodmo_name "treatment";
String description "Treatments are as follows: LOG1 is 3 days growing in F/2 in log phase; LOG2 is 7 days growing in F/2 in log phase; STAT1 is 14 days growing in F/2 in stationary phase; STAT2 is 21 days growing in F/2 in stationary phase; P1 is 3 days of growing under phosphorous starvation (F/2-P); P2 is 7 days of growing under phosphorous starvation (F/2-P); P3 is 14 days of growing under phosphorous starvation (F/2-P); P4 is 21 days of growing under phosphorous starvation (F/2-P)";
String long_name "Treatment";
String units "unitless";
}
rep {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 2;
String bcodmo_name "replicate";
String description "Replicate for each strain (treatment) n=3";
String long_name "Rep";
String units "unitless";
}
cells {
Int16 _FillValue 32767;
Int16 actual_range 93, 561;
String bcodmo_name "count";
String description "Number of P. minimum cells counted";
String long_name "Cells";
String units "unitless";
}
cells_feeding {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 0, 113;
String bcodmo_name "count";
String description "Number of P. minimum cells with ingested fluorescently labeled prey";
String long_name "Cells Feeding";
String units "unitless";
}
pcnt_cells_feeding {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 70.8;
String bcodmo_name "count";
String description "The percentage of cells feeding";
String long_name "Pcnt Cells Feeding";
String units "unitless";
}
GFI {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 307.0;
String bcodmo_name "count";
String description "Number of green fluorescent inclusions (GFIs); GFIs are food vacuoles of ingested FLB";
String long_name "GFI";
String units "unitless";
}
GFI_per_cell {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 1.91;
String bcodmo_name "count";
String description "Number of GFIs per P. minimum cell";
String long_name "GFI Per Cell";
String units "unitless";
}
OFI {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 240.0;
String bcodmo_name "count";
String description "Number of orange fluorescent inclusions (OFIs); OFIs are food vacuoles from ingesting phycoerythrin-containing cryptophyte prey";
String long_name "OFI";
String units "unitless";
}
OFI_per_cell {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 2.39;
String bcodmo_name "count";
String description "Number of OFIs per P. minimum cell";
String long_name "OFI Per Cell";
String units "unitless";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Prorocentrum minimum culturing: All cultures were maintained routinely in
F/2-Si in 32 PSU seawater, at 18C and 14:10 light:dark cycle at 50 uE (u =
micro). All cultures were transferred once every two weeks.
At each time point, 2 ml of cells were removed from experimental culture
flasks and preserved with gluteraldehyde (1% final concentration) and stored
at 4C until used to make microscopy slides. To make slides, 1 ml of preserved
sample was filtered onto a black 2 um nucleopore polycarbonate filter, and
then mounted on a glass microscope slide with fluorescence grade immersion
oil. Slides were then counted using fluorescence microscopy\\u00a0and stored at
-20C.
Culturing and experimental methods can be found in Johnson 2015.";
String awards_0_award_nid "615829";
String awards_0_award_number "OCE-1436169";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1436169";
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 "Michael E. Sieracki";
String awards_0_program_manager_nid "50446";
String cdm_data_type "Other";
String comment
"Pmin strain feeding 2
Data from experiment measuring feeding among 8 Prorocentrum minimum
strains on fluorescently labeled bacteria or the cryptophyte Teleaulax amphioxeia\t\t\t
PI: Matthew D. Johnson (WHOI)
Version date: 06 December 2018";
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 "2018-12-04T21:37:45Z";
String date_modified "2019-03-15T15:32:48Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.750823.1";
String history
"2024-12-21T14:16:45Z (local files)
2024-12-21T14:16:45Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_750823.html";
String infoUrl "https://www.bco-dmo.org/dataset/750823";
String institution "BCO-DMO";
String instruments_0_dataset_instrument_nid "750828";
String instruments_0_description "Instruments that generate enlarged images of samples using the phenomena of fluorescence and phosphorescence instead of, or in addition to, reflection and absorption of visible light. Includes conventional and inverted instruments.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/LAB06/";
String instruments_0_instrument_name "Microscope-Fluorescence";
String instruments_0_instrument_nid "695";
String keywords "bco, bco-dmo, biological, cell, cells, cells_feeding, chemical, data, dataset, dmo, erddap, feeding, gfi, GFI_per_cell, management, oceanography, office, ofi, OFI_per_cell, pcnt, pcnt_cells_feeding, per, preliminary, prey, rep, strain, treatment";
String license "https://www.bco-dmo.org/dataset/750823/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/750823";
String param_mapping "{'750823': {}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/750823/parameters";
String people_0_affiliation "Woods Hole Oceanographic Institution";
String people_0_affiliation_acronym "WHOI";
String people_0_person_name "Matthew D. Johnson";
String people_0_person_nid "51232";
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 "Shannon Rauch";
String people_1_person_nid "51498";
String people_1_role "BCO-DMO Data Manager";
String people_1_role_type "related";
String project "Mixo Foodwebs";
String projects_0_acronym "Mixo Foodwebs";
String projects_0_description
"Marine phytoplankton are responsible for about half of global primary production despite being seasonally or chronically nutrient limited. To cope with this, many phytoplankton supplement their nutritional needs through mixotrophy, which involves feeding on bacteria or other algae. These microscopic Venus Fly Traps of the ocean are major players in marine microbial food webs, yet we know so little about when they feed and how their eating is balanced with photosynthesis. This research will shed light on how environmental and cellular factors control mixotrophy, and how mixotrophy and photosynthesis are integrated in the overall metabolism. While understanding the ecological role of mixotrophy in ocean food webs is center to this work, results from this study will also shed light on the evolution of mixotrophy by identifying potential tradeoffs between feeding and photosynthesis.
Mixotrophy refers to species that combine some level of phagotrophy and phototrophy, and represents a diverse array of ecological interactions and cellular and metabolic adaptations. While often perceived as an exception to the norm, mixotrophy is commonplace in marine food webs, affording phytoplankton greater ecological fitness during periods of low or limiting nutrients while stabilizing food webs. Many mixotrophs have a low chlorophyll: carbon ratio, which tends to make them poor phototrophic competitors. In turn, feeding allows these species to achieve maximum growth while in some cases also eliminating their competitors. Other mixotrophs are strong phototrophic competitors, and only feed when severely nutrient limited. This research will determine the cellular and environmental factors that lead to feeding by marine phytoplankton, and how the contrasting metabolisms of heterotrophy and photosynthesis are integrated within a cell. This research will involve laboratory-based experiments on model dinoflagellate and chrysophyte cultures. Using microscopy, physiology, proteomics and metabolomics approaches, this work will test hypotheses about the ultimate causes and consequences of mixotrophy. The major objectives are to determine 1) environmental controls for inducing mixotrophy, 2) the role of prey quality on predator selection, 3) cellular and molecular controls of mixotrophy, and 4) nutrient assimilation and integrated metabolism. Using these various research approaches, this work will produce a comprehensive view of several mixotrophs and provide new insights into cellular, ecological, and evolutionary aspects of mixotrophy. Results from this research will improve our understanding of the physiological and ecological role of mixotrophy in marine phytoplankton, and provide much needed molecular markers for studying this process in both the laboratory and field.";
String projects_0_end_date "2017-09";
String projects_0_geolocation "laboratory: Woods Hole, Mass. USA";
String projects_0_name "Exploring the physiological and ecological basis of mixotrophy in marine food webs";
String projects_0_project_nid "615830";
String projects_0_start_date "2014-10";
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 "This dataset contains data from an experiment that measured the occurrence of feeding among 8 Prorocentrum minimum strains on fluorescently labeled bacteria or the cryptophyte Teleaulax amphioxeia.";
String title "[Pmin strain feeding 2] - Data from an experiment that measured the occurrence of feeding among 8 Prorocentrum minimum strains on fluorescently labeled bacteria or the cryptophyte Teleaulax amphioxeia (Exploring the physiological and ecological basis of mixotrophy in marine food webs)";
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.