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Dataset: Photobehavior for octopus (‘Octopus bimaculatus’) and squid (‘Doryteuthis opalescens’) paralarvae during exposure to 9 light irradiance levels and 4 oxygen conditions in trials conducted in April of 2019
Release Date:2022-06-01Final no updates expectedDOI: 10.26008/1912/bco-dmo.835968.1Version 1 (2021-08-30)Dataset Type:experimental
This dataset gives the results of photobehavior experiments under different oxygen conditions in larvae of the market squid (‘Doryteuthis opalescens’) and two-spot octopus (‘Octopus bimaculatus’). Photobehavior experiments were conducted to determine whether the impairment of visual physiology observed in marine invertebrate larvae (McCormick et al., 2019) is subsequently affecting visual behavior in marine larvae.
Experimental conditions (age of larvae, pH, temperature, oxygen conditions) for all photobehavior experiments for both squid (‘Doryteuthis opalescens’) and octopus (‘Octopus bimaculatus’) paralarvae during exposure to 9 light irradiance levels in 4 different oxygen conditions.
Parameters:
“Species”: In form Genus_species
“Oxygen_level”: Experimental oxygen condition (see explanation below)
“Age_mean”: Mean age of all paralarvae in the chamber on the day of testing
“Age_stdev”: Standard deviation of the age of paralarvae in the chamber
“pO2_mean”: Mean partial pressure of oxygen (pO2; in kPa) in the chamber
“pO2_stdev”: Standard deviation of partial pressure of oxygen (pO2; in kPa) in the chamber
“Temp_mean”: Mean temperature (deg. Celcius) in the chamber during experiment
“Temp_stdev”: Standard deviation of temperature (deg. Celsius) in the chamber during experiment
“pH_mean”: Mean pH in the chamber during experiment
“pH_stdev”: Standard deviation of pH in the chamber during experiment
ceph_trial_videos.tar.gz (3.78 GB)
GZIP (.gz)
Video files for all photobehavior experiments. Experiments were conducted in larvae of squid ('Doryteuthis opalescens') and octopus ('Octopus bimaculatus'). For a detailed description of experiments, please see Dataset Metadata Page https://www.bco-dmo.org/dataset/835968.
Briefly, larvae were placed in the chamber, and after 3 minutes in darkness, exposed to 9, 10-second light stimuli of decreasing irradiance followed by 3 minutes after each in darkness. The trial ends with a 2-minute period in darkness. This was completed for 4 different oxygen levels per species [Normoxia ("Ctrl"), V50, V10, and Low for squid, and Normoxia, V90, V50, and V10 for octopus]. Oxygen and temperature for each trial is found in VisualBehavior_ExperimentalTrials.txt. Files are named for the experiment type (Beh_), date (format YYMMDD), species and trial (e.g., Squid8, or Obimac1), and oxygen level. So for example, Beh_190419_Squid18_Ctrl_VID_conv.avi is the file for the Squid18 trial, tested in normoxia, on 4-19-2019. "Squid" refers to 'Doryteuthis opalescens' and "Obimac" refers to the octopus 'Octopus bimaculatus'. All videos are recorded under IR light, with the exception of the light stimulus, which was at 525 nm.
ceph_trial_raw_analysis_files.tar.gz (2.27 GB)
GZIP (.gz)
This zip file contains are raw output files in Excel .xlsx format from analyzed videos of photobehavior for larvae of both Doryteuthis opalescens and Octopus bimaculatus using the Ethovision XT (v15) software. Experiments were conducted to test the photobehavior to 9 different irradiance stimuli. Videos begin with a 3-minute period of darkness, followed by a 10-s light stimulus and a 3-minute period of darkness repeated for each stimuli (x9). The trials end with a 2-minute period of darkness, for a total of 30 minutes. Files include raw data from every video frame. Experiments were conducted for 4-different oxygen levels for each species.
Files are split up by species, trial, and oxygen exposure. Oxygen exposures are normoxia (Ctrl), V90, V50, V10, or Low (more details in metadata form). The file names indicate the data, for example: "Raw data-Squid24_V50_New16.xlsx" indicates that this is Squid (D. opalescens) trial 24, measuring the V50 oxygen level. "New16" refers to a more recent analysis, and the number of individuals tracked in each trial. These files also show other metrics calculated, in addition to the vertical position (analyzed here in the main dataset). For the octopus trials, the file naming is the same: "Raw data-Obimac5_Ctrl_New6.xslx" indicates this is Octopus trial 5 (Obimac5), for the normoxia oxygen level (Ctrl), with 6 individuals tested (_New6_).
The datafiles are arranged with tabs for each individual larva that was tracked (e.g., Subject01, Subject02, etc.). Each tab is arranged in the exact same format. Files have 33 lines of header data, including the analysis date for the file. The main dataset has 42 columns, immediately below the column label is the unit of measurement (where applicable).
* Trial Time: Raw video time in seconds
Recording time: Time from 0 the file started the analysis in seconds
* X Center: X position of the tracked object in mm
* Y Center: Y position of the tracked object in mm
* Area: Area of the tracked object in mm^2
* Areachange: Change in area of the tracked object in mm^2
* Elongation: NA not useable for this analysis
* Distance moved: The distance the target moved since the previous frame in mm
* Velocity: The velocity of the target (in mm/s)
* S1, S2, S3, S4, S5: Total count of individuals tracked in 5 even zones of the chamber. (S1 is the top and S5 is the bottom of the chamber).
* In Zone: Which of the 5 zones (from above) the individual currently being tracked is in
* Distance to point (Arena(Center/Center-point): Distance of the target to the center of the chamber in mm
* Heading: Heading of the object in degrees (values >90 indicate heading to the left of the Y axis, < 90 indicates to the right of the Y axis, positive values are above X axis, negative values are below X axis)
* Heading to point: Heading of the object (as above) to the center of the chamber in degrees
* Acceleration: Acceleration in mm^2/s
* Heading to point 2: Heading of the object (as above) to the center surface of the chamber in degrees
* Distance to point (Surface /Center-point): Distance of the target to the surface of the chamber in mm
* The remaining columns represent the stimulus categories in their order of experiment (e.g., DkCtrl1, Light9, Dark9, Light8, Dark8, etc.). These values are binary: 1 indicates that stimulus is on/present, 0 indicates absence of the stimulus. For example, during the Light9 stimulus, there would be a 1 for that video frame; all other stimuli would show 0.
** DkCtrl1 is the 3-minute period of darkness before the experiment starts
** Light 9 - Light 1: the 9, 10-second stimuli
** Dark 9-Dark 1: the 9, 3-minute dark period immediately after the light stimulus
** DkCtrl2 is the 2-minute period of darkness after the experiment ends
** Extra is the stimulus category for extra video that was recorded, but not part of the experiment
Octopus files are set up exactly the same, except they will have S1-S5 followed by a Bottom column. This shows the number of individuals on the bottom of the chamber.
This dataset gives the results of photobehavior experiments under different oxygen conditions in larvae of the market squid (Doryteuthis opalescens) and two-spot octopus (Octopus bimaculatus). Photobehavior experiments were conducted to determine whether the impairment of visual physiology observed in marine invertebrate larvae (McCormick et al., 2019) is subsequently affecting visual behavior in marine larvae.
Briefly, animals were placed in a 20cmx4cmx5cm clear plexiglass chamber filled with seawater to 16cm inside a light-tight box with an overhead light stimulus. After animals were placed in the chamber, the oxygen and temperature were measured, and then a 15-minute dark adaptation period was started. The experiment consisted of a series of a 10-s light stimulus followed by 3-minute dark period; this was repeated at 9 different irradiance levels (1= lowest, 9= highest; 0.062-2.45 mol photons/m^2/s) and at 4 different oxygen levels. Oxygen levels were selected based on the 3 visual metrics that were calculated to quantify the effects of reduced pO2 on retinal function (McCormick et al., 2019). V90, V50, and V10 were calculated for each individual larva as the oxygen where there was 90%, 50%, and 10% retinal function remaining, in respect to retinal responses in normoxia (surface-ocean oxygen levels). For squid, oxygen levels were 1) Normoxia (21.1 kPa); 2) V50 (12.9 kPa); 3) V10 (6.6 kPa); and 4) Low (4.2 kPa). For octopus, oxygen levels were 1) Normoxia (21.3 kPa); 2) V90 (10.7 kPa); 3) V50 (7.4 kPa); and 4) V10 (5.8 kPa). All experiments were video recorded and analyzed using Noldus EthoVision XT software (version 15).
Oxygen and temperature were measured using a Microx4 (PreSens) oxygen meter and a Pst-7 oxygen optode probe.
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NeuroGEARS. (n.d.). Bonsai. Retrieved March 18, 2021, from https://bonsai-rx.org/
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Noldus Information Technology (n.d.). EthoVision XT - video tracking software (Version 15). Retrieved March 18, 2021, from https://www.noldus.com/ethovision-xt/
Software
PreSens Measurement Studio 2. (n.d.). Retrieved March 18, 2021, from https://www.presens.de/products/detail/presens-measurement-studio-2
Software
R Core Team (2017). R: A language and environment for statistical computing. R v3.3.3. R Foundation for Statistical Computing, Vienna, Austria. URL https://www.R-project.org/
Software
RStudio Team (2019). RStudio: Integrated Development for R. RStudio, Inc., Boston, MA. URL http://www.rstudio.com/.
McCormick, L., Levin, L., Oesch, N. (2021) Photobehavior for octopus (‘Octopus bimaculatus’) and squid (‘Doryteuthis opalescens’) paralarvae during exposure to 9 light irradiance levels and 4 oxygen conditions in trials conducted in April of 2019. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-03-16 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.835968.1 [access date]
If you wish to use this dataset, it is highly recommended that you contact the original principal investigators (PI). Should the relevant PI be unavailable, please contact BCO-DMO (info@bco-dmo.org) for additional guidance. For general guidance please see the BCO-DMO Terms of Use document.