Accessing BCO-DMO data
Brought to you by BCO-DMO
|
|
BCO-DMO ERDDAP
Accessing BCO-DMO data |
log in
Brought to you by BCO-DMO |
| Dataset Title: | [Irradiance exposure experiments] - Photophysiological responses of two dinoflagellate species used in natural high light exposure experiments (Protist Signaling project) (Environmental stress and signaling based on reactive oxygen species among planktonic protists) 
|
| Institution: | BCO-DMO (Dataset ID: bcodmo_dataset_723266) |
| Information: | Summary
| License
| ISO 19115
| Metadata
| Background
| Files
| Make a graph
|
Attributes {
s {
Experiment_ID {
String bcodmo_name "exp_id";
String description "Experiment ID number";
String long_name "Experiment ID";
String units "unitless";
}
Experiment_Date {
String bcodmo_name "date";
String description "Experiment date; YYYY/MM/DD";
String long_name "Experiment Date";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/ADATAA01/";
String time_precision "1970-01-01";
String units "unitless";
}
Dinoflagellate_species {
String bcodmo_name "species";
String description "Species of sample";
String long_name "Dinoflagellate Species";
String units "unitless";
}
Max_PAR {
Float32 _FillValue NaN;
Float32 actual_range 0.7845, 1607.0;
String bcodmo_name "PAR";
String description "Maximum instantaneous PAR received during light exposure treatment";
String long_name "Max PAR";
String units "umol photons m^-2 s^-1";
}
Total_PAR {
Float32 _FillValue NaN;
Float32 actual_range 0.004833, 9.897;
String bcodmo_name "PAR";
String description "Total dose of photosynthetically active radiation received during lightexposure treatment";
String long_name "Total PAR";
String units "mol photons m^-2";
}
Sampling_Time {
String bcodmo_name "time";
String description "Time of sampling; HH:MM";
String long_name "Sampling Time";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/AHMSAA01/";
String units "unitless";
}
Treatment {
String bcodmo_name "treatment";
String description "Treatment";
String long_name "Treatment";
String units "unitless";
}
Sample_Number {
Byte _FillValue 127;
String _Unsigned "false";
Byte actual_range 1, 4;
String bcodmo_name "sample";
Float64 colorBarMaximum 100.0;
Float64 colorBarMinimum 0.0;
String description "Sample ID Number";
String long_name "Sample Number";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P02/current/ACYC/";
String units "unitless";
}
FvFm {
Float32 _FillValue NaN;
Float32 actual_range 0.0, 0.76;
String bcodmo_name "Fv2Fm";
String description "Photosynthetic efficiency (variable fluorescence normalized to maximum fluorescence)";
String long_name "FV FM";
String units "unitless";
}
time {
String _CoordinateAxisType "Time";
Float64 actual_range 1.43696214e+9, 1.44191394e+9;
String axis "T";
String bcodmo_name "ISO_DateTime_UTC";
String description "DateTime ISO Formatted; UTC";
String ioos_category "Time";
String long_name "ISO Date Time UTC";
String nerc_identifier "https://vocab.nerc.ac.uk/collection/P01/current/DTUT8601/";
String source_name "ISO_DateTime_UTC";
String standard_name "time";
String time_origin "01-JAN-1970 00:00:00";
String time_precision "1970-01-01T00:00:00Z";
String units "seconds since 1970-01-01T00:00:00Z";
}
}
NC_GLOBAL {
String access_formats ".htmlTable,.csv,.json,.mat,.nc,.tsv";
String acquisition_description
"Irradiance exposure experiments:\\u00a0 Experiments to test the light stress
response consisted of exposing dinoflagellates to natural sunlight and
monitoring a range of physiological and biochemical responses. Sunlight
exposure took place in unshaded outdoor Plexiglas tanks (without lids),
supplied with a constant flow of seawater to maintain incubation bottles
approximate growth temperatures of 15-16\\u00b0C for the duration of each
experimental exposure period. A Li-Cor LI-1400 data logger with a 2\\u03c0
sensor collected incident PAR data; irradiance received during incubation
period is presented as total dose (mol photons m-2) and (for Fv/Fm data) as
the maximum instantaneous irradiance recorded during the exposure period
(\\u00b5mol photons m-2 s-1). To initiate experiments, dinoflagellate cultures
were combined and divided into 250-mL polycarbonate bottles, which block
penetration of UVR. Bottles were returned to the growth incubator for
approximately 1 h acclimation before the experiment began. After acclimation,
\\u201cpre-exposure\\u201d samples were collected from each bottle for
determination of morphological, biochemical, and physiological characteristics
of dinoflagellate cells. Bottles were then covered in treatment-specific
neutral density screening as needed to achieve desired irradiances, and placed
in the outdoor tank to begin the light exposure period. Control bottles were
covered with enough screen layers to approximate growth incubator irradiances.
Experiments included four replicates each of either two or three treatments:
all experiments included \\u201chigh PAR\\u201d and \\u201ccontrol\\u201d
treatments, while A2 and H2 also included \\u201cmoderate PAR\\u201d. Exposure
duration varied slightly by experiment but was approximately 1.5 h.
Photosynthetic efficiency Fv/Fm (unitless) was measured at 15, 25, or 30 min
time intervals during the exposure period, depending on the experiment. After
the exposure period, all bottles were taken indoors for a second round of
sampling (henceforth referred to as \\u201cpost-exposure\\u201d). Bottles were
then rid of any screening and returned to the growth incubator for the
recovery period (1.5-2 h depending on experiment). After recovery a third
round of samples (termed \\u201cpost-recovery\\u201d) was collected.
Photosynthetic efficiency Fv/Fm:\\u00a0 Samples (2 mL) were taken from each
bottle at regular intervals (see above) during the light treatment exposure
and subsequent recovery period; samples were then dark-incubated at 15\\u00b0C
for 20 min. After dark acclimation, Fv/Fm was measured using a Walz Water-PAM
pulse amplitude-modulated fluorometer.";
String awards_0_award_nid "614837";
String awards_0_award_number "OCE-1434842";
String awards_0_data_url "http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1434842";
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
"Irradiance exposure experiments
S. Strom, PI
Version 22 January 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 "2018-01-11T20:04:43Z";
String date_modified "2019-03-18T18:42:30Z";
String defaultDataQuery "&time<now";
String doi "10.1575/1912/bco-dmo.723266.1";
String history
"2024-12-22T01:14:38Z (local files)
2024-12-22T01:14:38Z https://erddap.bco-dmo.org/erddap/tabledap/bcodmo_dataset_723266.html";
String infoUrl "https://www.bco-dmo.org/dataset/723266";
String institution "BCO-DMO";
String instruments_0_acronym "Fluorometer";
String instruments_0_dataset_instrument_description "Used to measure FvFm";
String instruments_0_dataset_instrument_nid "723341";
String instruments_0_description "A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ.";
String instruments_0_instrument_external_identifier "https://vocab.nerc.ac.uk/collection/L05/current/113/";
String instruments_0_instrument_name "Fluorometer";
String instruments_0_instrument_nid "484";
String instruments_0_supplied_name "Walz Water-PAM pulse amplitude-modulated fluorometer";
String instruments_1_acronym "LI-COR LI-1000";
String instruments_1_dataset_instrument_description "Used to collect PAR data";
String instruments_1_dataset_instrument_nid "723340";
String instruments_1_description "\"The LI-1000 DataLogger is a 10 channel datalogger that functions both as a data logging device and a multichannel, autoranging meter. The electronics of the LI-1000 have been optimized for highly accurate measurement of LI-COR radiation sensors which have a current signal\" (from LI-COR Datalogging Instruction Manual, p 1). LI-COR began manufacturing these instruments in 1985 and discontinued in 1998. Serial Numbers for this model have the prefix of LDL-XXXX. (www.licor.com)";
String instruments_1_instrument_name "LI-COR LI-1000 Data Logger";
String instruments_1_instrument_nid "543";
String instruments_1_supplied_name "Li-Cor LI-1400 data logger with a 2π sensor";
String keywords "available, bco, bco-dmo, biological, chemical, data, dataset, date, dinoflagellate, Dinoflagellate_species, dmo, erddap, experiment, Experiment_Date, Experiment_ID, FvFm, iso, management, max, Max_PAR, number, oceanography, office, par, photosynthetically, preliminary, radiation, sample, Sample_Number, sampling, Sampling_Time, species, time, total, Total_PAR, treatment";
String license "https://www.bco-dmo.org/dataset/723266/license";
String metadata_source "https://www.bco-dmo.org/api/dataset/723266";
String param_mapping "{'723266': {'ISO_DateTime_UTC': 'flag - time'}}";
String parameter_source "https://www.bco-dmo.org/mapserver/dataset/723266/parameters";
String people_0_affiliation "Western Washington University - Shannon Point Marine Center";
String people_0_affiliation_acronym "SPMC";
String people_0_person_name "Suzanne Strom";
String people_0_person_nid "50471";
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 "Protist signaling";
String projects_0_acronym "Protist signaling";
String projects_0_description
"Description from NSF proposal:
This proposal arises from the central premise that the oxidative stress response is an emergent property of phototrophic cellular systems, with implications for nearly every aspect of a phytoplankton cell’s life in the upper ocean. Oxidative stress (OS) arises from the uncompensated production of reactive oxygen species (ROS) within a cell, which can occur in response to a myriad of environmental stressors (e.g. nutrient limitation, temperature extremes, toxins, variable light exposure). In addition to the biochemical damage and physiological impairment that OS can cause, the phytoplankton OS response also includes increased net production and extracellular release of ROS, osmolytes, and other compounds that are known or suspected to be potent signals regulating protist behavior. We hypothesize that, through chemical signaling, oxidative stress acts to govern relationships among environmental variability, phytoplankton condition, and protist predation. Our proposed study of these integrated signaling and response processes has three overarching objectives: 1) Create and characterize oxidatively stressed phytoplankton. We will use light stress (variable exposure to visible light and UV) to create oxidatively stressed phytoplankton in the laboratory. Common coastal taxa with contrasting stress responses will be characterized using an array of fluorescent probes, biochemical measurements, and physiological assays. In addition, intracellular production and extracellular release of ROS and the associated chemical signal DMSP will be quantified. Use of Phaeodactylum tricornutum light stress mutants will add an independent means of connecting OS to signal production and predation response. 2) Examine protist predator responses to oxidatively stressed phytoplankton and associated chemical signals. Responses will be investigated by means of manipulation experiments and thorough characterization of associated signal chemistry. Assessment of predator response will be via predation rate measurements and population aggregation/dispersal behaviors in structured columns. 3) Investigate the prevalence of OS, its environmental correlates, and the microzooplankton predation response in the natural waters of a well-characterized local embayment. Application of ROS probes and OS assays to the natural environment and the design of OS manipulation experiments will be informed by the laboratory experiments using local protist species.
Our work will help to elucidate some of the multiple ways in which the OS response can affect phytoplankton fitness, contributing information that can be used to characterize the position of key coastal species along an OS response spectrum. Ultimately such information could be used in trait-based conceptual and numerical models in a manner analogous to cell size and other 'master traits'. Our research will also inform the relatively new and exciting field of chemical signaling in planktonic communities, exploring DMSP- and ROS-based signaling between two of the most significant groups in the plankton, the eukaryotic phytoplankton and their protist predators. Finally, findings will help elucidate the links between environmental stress, phytoplankton response, and predation in planktonic ecosystems. These links relate to central issues in biological oceanography, including the predator-prey interactions that influence bloom demise, and the mechanisms by which protists feed selectively and thereby structure prey communities. The proposed research is a cross-cutting endeavor that unites subjects usually studied in isolation through a novel conceptual framework. Thus the findings have the potential to generate broadly applicable new insights into the ecological and evolutionary regulation of this key trophic link in planktonic food webs.";
String projects_0_end_date "2017-08";
String projects_0_geolocation "Salish Sea: 48.5, -122.75";
String projects_0_name "Environmental stress and signaling based on reactive oxygen species among planktonic protists";
String projects_0_project_nid "614838";
String projects_0_start_date "2014-09";
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 "Photophysiological responses of two dinoflagellate species used in natural high light exposure experiments (Protist Signaling project)";
String time_coverage_end "2015-09-10T19:39:00Z";
String time_coverage_start "2015-07-15T12:09:00Z";
String title "[Irradiance exposure experiments] - Photophysiological responses of two dinoflagellate species used in natural high light exposure experiments (Protist Signaling project) (Environmental stress and signaling based on reactive oxygen species among planktonic protists)";
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.