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Title Sum-
Institution Dataset ID
     data   graph     files  public Retinal responses during exposure to decreasing oxygen partial pressure (pO2)    ?     I   M   background (external link) RSS Subscribe BCO-DMO bcodmo_dataset_779540

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
attribute NC_GLOBAL acquisition_description String Detailed methods can be found in McCormick et al., 2019

Briefly, the time series test recorded electroretinogram (ERG) responses to a
1 s square step of light at a constant irradiance of 3.56 \u03bcmol photons
m\u22122 s\u22121 repeated every 20 s, providing a nearly continuous measure
of ERG response in a tethered, live larva during the experimental manipulation
of partial pressure of oxygen (pO2). There was a constant flow of pH-buffered
sterile seawater in the chamber where the larva was held, and after a brief
period in \u201cnormoxia\u201d (surface-ocean oxygen levels), the pO2 was
decreased, and then held at a low pO2 before re-oxygenating the solution.

This dataset shows the retinal responses measured every 20 s for all
individuals used in Figure 1 (top panel) of McCormick et al., 2019. The
retinal responses show a decline in retinal function during a decrease in
oxygen availability.

Oxygen was measured using a Microx4 (PreSens) oxygen meter and a Pst-7 oxygen
optode probe.
attribute NC_GLOBAL awards_0_award_nid String 775842
attribute NC_GLOBAL awards_0_award_number String OCE-1829623
attribute NC_GLOBAL awards_0_data_url String http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1829623 (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 Retinal response
PI: Lisa A. Levin
Data Version 1: 2019-10-29
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 2019-10-24T00:25:41Z
attribute NC_GLOBAL date_modified String 2019-11-01T15:45:08Z
attribute NC_GLOBAL defaultDataQuery String &time<now
attribute NC_GLOBAL doi String 10.1575/1912/bco-dmo.779540.1
attribute NC_GLOBAL infoUrl String https://www.bco-dmo.org/dataset/779540 (external link)
attribute NC_GLOBAL institution String BCO-DMO
attribute NC_GLOBAL instruments_0_acronym String O2 microsensor
attribute NC_GLOBAL instruments_0_dataset_instrument_description String Oxygen was measured using a Microx4 (PreSens) oxygen meter and a Pst-7 oxygen optode probe.
attribute NC_GLOBAL instruments_0_dataset_instrument_nid String 779904
attribute NC_GLOBAL instruments_0_description String A miniaturized Clark-type dissolved oxygen instrument, including glass micro-sensors with minute tips (diameters ranging from 1 to 800 um). A gold or platinum sensing cathode is polarized against an internal reference and, driven by external partial pressure, oxygen from the environment penetrates through the sensor tip membrane and is reduced at the sensing cathode surface. A picoammeter converts the resulting reduction current to a signal. The size of the signal generated by the electrode is proportional to the flux of oxygen molecules to the cathode.The sensor also includes a polarized guard cathode, which scavenges oxygen in the electrolyte, thus minimizing zero-current and pre-polarization time.With the addition of a meter and a sample chamber, the respiration of a small specimen can be measured. Example: Strathkelvin Inst. http://www.strathkelvin.com
attribute NC_GLOBAL instruments_0_instrument_external_identifier String https://vocab.nerc.ac.uk/collection/L05/current/351/ (external link)
attribute NC_GLOBAL instruments_0_instrument_name String Oxygen Microelectrode Sensor
attribute NC_GLOBAL instruments_0_instrument_nid String 701
attribute NC_GLOBAL keywords String area, average, bco, bco-dmo, biological, chemical, condition, ctrl, data, dataset, dmo, erddap, experiment, Experiment_Name, line, management, n_ctrl_area, name, O2, O2_ml_l, O2_pO2, O2_umol_kg, O2_umol_l, oceanography, office, oxygen, preliminary, round, run, RunAvgLine, running, RunningAvg, species, umol
attribute NC_GLOBAL license String https://www.bco-dmo.org/dataset/779540/license (external link)
attribute NC_GLOBAL metadata_source String https://www.bco-dmo.org/api/dataset/779540 (external link)
attribute NC_GLOBAL param_mapping String {'779540': {}}
attribute NC_GLOBAL parameter_source String https://www.bco-dmo.org/mapserver/dataset/779540/parameters (external link)
attribute NC_GLOBAL people_0_affiliation String University of California-San Diego
attribute NC_GLOBAL people_0_affiliation_acronym String UCSD
attribute NC_GLOBAL people_0_person_name String Lisa A Levin
attribute NC_GLOBAL people_0_person_nid String 51242
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
attribute NC_GLOBAL people_1_person_name String Nicholas Oesch
attribute NC_GLOBAL people_1_person_nid String 775846
attribute NC_GLOBAL people_1_role String Co-Principal Investigator
attribute NC_GLOBAL people_1_role_type String originator
attribute NC_GLOBAL project String Vision under hypoxia
attribute NC_GLOBAL projects_0_acronym String Vision under hypoxia
attribute NC_GLOBAL projects_0_description String NSF abstract:
Oxygen is being lost in the ocean worldwide as a result of ocean warming and the input of nutrients from land. Vision requires a large amount of oxygen, and may be less effective or require more light when oxygen is in short supply. This is especially true for active marine animals with complex eyes and visual capabilities, including active arthropods (crabs), cephalopods (squid), and fish. The California coastal waters exhibit a sharp drop in oxygen and light with increasing water depth. This project examines how visual physiology and ecology in young (larval) highly visual marine animals respond to oxygen loss, with a focus on key fisheries and aquaculture species. Experiments and observations will test the hypothesis that oxygen stress will change the light required for these organisms to see effectively, influencing the water depths where they can live and survive. The project will provide interdisciplinary experiences to students and an early career scientist and inform both the public (through outreach at the Birch Aquarium at Scripps Institution of Oceanography) and policy makers about the effects of oxygen decline in the ocean.
Negative effects of oxygen loss on vision have been described for humans and other terrestrial organisms, but never in the marine environment, despite the large changes in oxygen that can occur with depth and over time in the ocean, and the high metabolic demand of visual systems. This project will test the effects of low oxygen on vision in 3 combinations of eye design and photo-transduction mechanisms: compound eye with rhabdomeric photoreceptors (arthropods), simple eye with rhabdomeric photoreceptors (cephalopods), and simple eye with ciliary photoreceptors (fish). A series of oxygen- and light-controlled laboratory experiments will be conducted on representative taxa of each group including the tuna crab, Pleuroncodes planipes; the market squid, Doryteuthis opalescens, and the white sea bass, Atractoscion nobilis. In vivo electrophysiology and behavioral phototaxis experiments will identify new oxygen metrics for visual physiology and function, and will be compared to metabolic thresholds determined in respiration experiments. Hydrographic data collected over 3 decades by the CalCOFI program in the Southern California Bight will be evaluated with respect to visual and metabolic limits to determine the consequences of oxygen variation on the critical luminoxyscape (range of oxygen and light conditions required for visual physiology and function in target species) boundary in each species. Findings for the three vision-based functional groups may test whether oxygen-limited visual responses offer an additional explanation for the shoaling of species distributions among highly visual pelagic taxa in low oxygen, and will help to focus future research efforts and better understand the stressors contributing to habitat compression with expanding oxygen loss in the ocean.
This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.
attribute NC_GLOBAL projects_0_end_date String 2020-09
attribute NC_GLOBAL projects_0_geolocation String Southern California Bight, Northeast Pacific Ocean
attribute NC_GLOBAL projects_0_name String Vision-mediated influence of low oxygen on the physiology and ecology of marine larvae
attribute NC_GLOBAL projects_0_project_nid String 775843
attribute NC_GLOBAL projects_0_start_date String 2018-10
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 standard_name_vocabulary String CF Standard Name Table v55
attribute NC_GLOBAL summary String Retinal responses during exposure to decreasing oxygen partial pressure (pO2) in marine invertebrate larvae determined with electroretinograms.
attribute NC_GLOBAL title String Retinal responses during exposure to decreasing oxygen partial pressure (pO2)
attribute NC_GLOBAL version String 1
attribute NC_GLOBAL xml_source String osprey2erddap.update_xml() v1.3
variable Species   String  
attribute Species bcodmo_name String species
attribute Species description String Species name. Format is "Species_genus".
attribute Species long_name String Species
attribute Species units String unitless
variable Experiment_Name   String  
attribute Experiment_Name bcodmo_name String exp_id
attribute Experiment_Name description String Original experiment name that can be linked back to raw datafile collected in Igor.
attribute Experiment_Name long_name String Experiment Name
attribute Experiment_Name units String unitless
variable Round   short  
attribute Round _FillValue short 32767
attribute Round actual_range short 1000, 8360
attribute Round bcodmo_name String time_elapsed
attribute Round description String The number of seconds since starting each individual experiment.
attribute Round long_name String Round
attribute Round nerc_identifier String https://vocab.nerc.ac.uk/collection/P01/current/ELTMZZZZ/ (external link)
attribute Round units String unitless
variable O2_umol_l   float  
attribute O2_umol_l _FillValue float NaN
attribute O2_umol_l actual_range float 38.092, 290.884
attribute O2_umol_l bcodmo_name String dissolved Oxygen
attribute O2_umol_l description String Oxygen concentration in umol O2/L for each retinal measurement.
attribute O2_umol_l long_name String O2 Umol L
attribute O2_umol_l units String micromole per liter (umol/L)
variable O2_ml_l   double  
attribute O2_ml_l _FillValue double NaN
attribute O2_ml_l actual_range double 0.912142799, 6.937512367
attribute O2_ml_l bcodmo_name String dissolved Oxygen
attribute O2_ml_l description String Oxygen concentration in mL O2/L for each retinal measurement.
attribute O2_ml_l long_name String O2 Ml L
attribute O2_ml_l units String milliliter per liter (ml/l)
variable O2_umol_kg   double  
attribute O2_umol_kg _FillValue double NaN
attribute O2_umol_kg actual_range double 37.1657174, 283.8343126
attribute O2_umol_kg bcodmo_name String dissolved Oxygen
attribute O2_umol_kg description String Oxygen concentration in umol O2/kg for each retinal measurement.
attribute O2_umol_kg long_name String O2 Umol Kg
attribute O2_umol_kg units String micromole per kg (umol/kg)
variable O2_pO2   double  
attribute O2_pO2 _FillValue double NaN
attribute O2_pO2 actual_range double 3.114095984, 24.34012388
attribute O2_pO2 bcodmo_name String unknown
attribute O2_pO2 description String The partial pressure of oxygen of the given metric “n.ctrl.area”: The ERG response normalized to the average retinal response measured during exposure to normoxia.
attribute O2_pO2 long_name String O2 P O2
attribute O2_pO2 units String kiloPascal (kPa)
variable n_ctrl_area   double  
attribute n_ctrl_area _FillValue double NaN
attribute n_ctrl_area actual_range double -0.198700766, 1.35949739
attribute n_ctrl_area bcodmo_name String unknown
attribute n_ctrl_area description String The integration of the ERG wave at any given time divided by the average integrated ERG during control oxygen conditions. Normalization was done to compare between individuals and species.
attribute n_ctrl_area long_name String N Ctrl Area
attribute n_ctrl_area units String unitless
variable RunningAvg   double  
attribute RunningAvg _FillValue double NaN
attribute RunningAvg actual_range double -0.116828586, 1.315104841
attribute RunningAvg bcodmo_name String unknown
attribute RunningAvg description String The running average of retinal responses in the last minute, used to show smoothed responses over time.
attribute RunningAvg long_name String Running Avg
attribute RunningAvg units String unitless
variable RunAvgLine   short  
attribute RunAvgLine _FillValue short 32767
attribute RunAvgLine actual_range short 0, 225
attribute RunAvgLine bcodmo_name String unknown
attribute RunAvgLine description String The line number for the running average, used to order measurements within an individual experiment.
attribute RunAvgLine long_name String Run Avg Line
attribute RunAvgLine units String unitless
variable Condition   String  
attribute Condition bcodmo_name String unknown
attribute Condition description String Oxygen exposure during the experiment, either "normoxia", “decrease”, or “Low”. First, animals were exposed to “normoxia” (~100-105% oxygen saturation), then a “Deacrease” in oxygen (slow decline of oxygen), until the “Low” oxygen was reached.
attribute Condition long_name String Condition
attribute Condition units String unitless

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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