http://lod.bco-dmo.org/id/dataset/897682
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2023-06-15
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Inlet particle speeds from 5 high-speed video frames at 3 temperature treatments from Oikopleura dioica particle tracking experiments conducted in December 2015
2023-06-15
publication
2023-06-15
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2023-06-30
publication
https://doi.org/10.26008/1912/bco-dmo.897682.1
Brad J. Gemmell
University of South Florida
principalInvestigator
Kelly Rakow Sutherland
University of Oregon
principalInvestigator
Keats R. Conley
University of Oregon
principalInvestigator
Terra C. Hiebert
University of Oregon
principalInvestigator
George von Dassow
University of Oregon
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Gemmell, B. J., Sutherland, K. R., Conley, K. R., Hiebert, T. C., von Dassow, G. (2023) Inlet particle speeds from 5 high-speed video frames at 3 temperature treatments from Oikopleura dioica particle tracking experiments conducted in December 2015. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-06-15 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.897682.1 [access date]
Inlet particle speeds in Oikopleura dioica at 3 temperature treatments Dataset Description: <p>The primary data file for this dataset, "897682_particle_speed.csv", contains the raw data. The supplemental file, "897682_particle_speed_averages_and_maximums.csv", contains the maximum speed and average speed for each video, as well as the population mean maximum speeds. The videos are attached as Supplemental Files (there is one .zip folder for each temperature treatment).</p> Methods and Sampling: <p>All experimental animals were obtained from the appendicularian culture facility at the Sars Centre for Marine Molecular Biology in Bergen, Norway in December 2015. <em>Oikopleura dioica</em> were filmed individually following Gemmell et al. (2014). Images were recorded using an Edgertronic high-speed camera (1280 × 1024-pixel resolution, 500 frames per second) with brightfield illumination from a fiber optic light source, or a Photron FastCam Mini Ux100 (1280x1024, 125-1000 frames per second) with darkfield illumination from a tilting mirror base. The filming vessel was positioned on a manually adjustable stage between the light source and the camera. A long working-distance microscope objective (4x or 40x) was mounted to an adjustable-height optics clamp positioned between the filming vessel and the camera. Videos were converted to image stacks in QuickTime Pro. Day 1 animals were filmed in a 50-milliliter glass cuvette in treatments comprising 3 temperatures: 5° Celsius, 15° Celsius, and 25° Celsius.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851537 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851537
completed
Brad J. Gemmell
University of South Florida
813-974-1228
Department of Integrative Biology 4202 E. Fowler Ave
Tampa
FL
33620
USA
bgemmell@usf.edu
pointOfContact
Kelly Rakow Sutherland
University of Oregon
541-913-6560
5289 University of Oregon
Eugene
OR
97403-5219
USA
ksuth@uoregon.edu
pointOfContact
Keats R. Conley
University of Oregon
keatsconley@gmail.com
pointOfContact
Terra C. Hiebert
University of Oregon
5289 University of Oregon
Eugene
OR
97403-5219
USA
terrah@uoregon.edu
pointOfContact
George von Dassow
University of Oregon
Eugene
OR
USA
dassow@uoregon.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Temperature
Video
Frame
Time
X
Y
Distance
Speed
Edgertronic high-speed camera
Photron FastCam Mini Ux100
theme
None, User defined
treatment
file_name
time_elapsed
xpos
ypos
length
speed
featureType
BCO-DMO Standard Parameters
Camera
Camera
instrument
BCO-DMO Standard Instruments
otherRestrictions
otherRestrictions
Access Constraints: none. Use Constraints: Please follow guidelines at: http://www.bco-dmo.org/terms-use Distribution liability: Under no circumstances shall BCO-DMO be liable for any direct, incidental, special, consequential, indirect, or punitive damages that result from the use of, or the inability to use, the materials in this data submission. If you are dissatisfied with any materials in this data submission your sole and exclusive remedy is to discontinue use.
Collaborative Research: Comparative feeding by gelatinous grazers on microbial prey
https://osprey.bco-dmo.org/project/751083
Collaborative Research: Comparative feeding by gelatinous grazers on microbial prey
<p><em>NSF Award Abstract:</em><br />
The oceans are dominated by microscopic plants and animals (microorganisms) that are at the base of the food web and drive energy and carbon cycles on global scales. Soft jellylike animals called gelatinous grazers specialize in feeding on microorganisms using nets made out of mucus. Gelatinous grazers are abundant in the ocean and have high feeding rates on microorganisms so could have a very strong influence on the abundance and diversity of microorganisms and could change how oceanic food webs are currently understood. However, gelatinous grazers are very fragile and patchy in their distributions so it has been difficult to determine the magnitude and dynamics of these important predator-prey relationships on a meaningful scale using traditional approaches, thus they have typically been disregarded in food web studies. Learning more about the predator-prey relationship between gelatinous grazers and microorganisms will improve understanding of the structure, mechanics, and dynamics of the ocean's food web, which is a critical economic and ecosystem resource on Earth. This project is determining grazing rates by gelatinous animals on microbes to inform food web models. The project also trains students to communicate, disseminate, and interpret scientific findings. These broader impacts goals will be attained through partnerships at the University of Oregon (Applied Scientific Communication) and Portland State University (Advanced Technical Writing), training of 1 PhD student, 2 undergraduates, and 4 science communication interns, and development of a week-long workshop and establish student mentorship relationships towards production of communication products.</p>
<p>The project integrates laboratory and oceanographic approaches to address several specific aspects of the predator-prey relationship between gelatinous grazers and ocean microorganisms. Five distinct types of gelatinous grazers, each with different feeding morphologies and life history, will be studied in an oceanographic setting with an abundant and diverse natural microbial population. These target organisms include pelagic tunicates (salps, appendicularians, doliolods and pyrosomes) and thecosome pteropods. The approach quantifies: 1) grazing rates in the natural ocean environment, 2) particle selectivity with a focus on size and shape and, 3) the morphological and hydrodynamic properties of feeding that underlie the measured grazing rates and particle selection. The project uses a variety of techniques including sampling via SCUBA diving, laboratory experiments, high speed/high resolution videography, flow cytometry, and DNA sequencing techniques.</p>
Gelatinous Grazer Feeding
largerWorkCitation
project
eng; USA
oceans
2015-12-05
2015-12-10
North Pacific Subtropical Gyre, at a field site 3 nautical miles offshore of Kona, Hawai’i (19.710746 N, 22.75 W) & Sars Centre for Marine Molecular Biology in Bergen, Norway
0
BCO-DMO catalogue of parameters from Inlet particle speeds from 5 high-speed video frames at 3 temperature treatments from Oikopleura dioica particle tracking experiments conducted in December 2015
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
http://lod.bco-dmo.org/id/dataset-parameter/897758.rdf
Name: Temperature
Units: degrees Celsius
Description: <p>Temperature treatment</p>
http://lod.bco-dmo.org/id/dataset-parameter/897759.rdf
Name: Video
Units: unitless
Description: <p>Video identifier. This number is the last 5 digits of the .mov file names. The .mov files are provided in the attached .zip folders as Supplemental Files. The number following the dash represents the population of particles and the letter denotes each of 5 particles measured in that population. For example, "75974-1A" is the identifier for population 1, particle A in the .mov file ending in 75974, which is in the 5C.zip folder (5C contains movies from the 5 degrees C temperature treatment.)</p>
http://lod.bco-dmo.org/id/dataset-parameter/897760.rdf
Name: Frame
Units: unitless
Description: <p>Video frame number</p>
http://lod.bco-dmo.org/id/dataset-parameter/897761.rdf
Name: Time
Units: seconds
Description: <p>Time between frames</p>
http://lod.bco-dmo.org/id/dataset-parameter/897762.rdf
Name: X
Units: millimeters (mm)
Description: <p>Particle x position</p>
http://lod.bco-dmo.org/id/dataset-parameter/897763.rdf
Name: Y
Units: millimeters (mm)
Description: <p>Particle y position</p>
http://lod.bco-dmo.org/id/dataset-parameter/897764.rdf
Name: Distance
Units: millimeters (mm)
Description: <p>Particle distance traveled (calculated)</p>
http://lod.bco-dmo.org/id/dataset-parameter/897765.rdf
Name: Speed
Units: millimeters per second (mm/s)
Description: <p>Particle speed (calculated)</p>
GB/NERC/BODC > British Oceanographic Data Centre, Natural Environment Research Council, United Kingdom
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
129830
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/0d788ae6-2502-44d4-af0b-dd0a603f9511/content
download
https://doi.org/10.26008/1912/bco-dmo.897682.1
download
onLine
dataset
<p>All experimental animals were obtained from the appendicularian culture facility at the Sars Centre for Marine Molecular Biology in Bergen, Norway in December 2015. <em>Oikopleura dioica</em> were filmed individually following Gemmell et al. (2014). Images were recorded using an Edgertronic high-speed camera (1280 × 1024-pixel resolution, 500 frames per second) with brightfield illumination from a fiber optic light source, or a Photron FastCam Mini Ux100 (1280x1024, 125-1000 frames per second) with darkfield illumination from a tilting mirror base. The filming vessel was positioned on a manually adjustable stage between the light source and the camera. A long working-distance microscope objective (4x or 40x) was mounted to an adjustable-height optics clamp positioned between the filming vessel and the camera. Videos were converted to image stacks in QuickTime Pro. Day 1 animals were filmed in a 50-milliliter glass cuvette in treatments comprising 3 temperatures: 5° Celsius, 15° Celsius, and 25° Celsius.</p>
Specified by the Principal Investigator(s)
<p><strong>Data Processing:</strong><br />
Particle tracking to estimate inlet flow speeds were measured in ImageJ. Flow speeds were determined by manual particle tracking, with distance over time obtained from the first and last of 10 frames. An average and maximum of 5 particle speeds were recorded for all individuals.</p>
<p><strong>BCO-DMO Processing:</strong><br />
- separated the original data file into two resources: one with the averages and maximums (summary statistics)&nbsp;and one with the raw data;<br />
- renamed fields for both resources to comply with BCO-DMO naming conventions;<br />
<span style="font-size:13px">- bundled the videos into 3 .zip files (see Supplemental Files).</span></p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
Edgertronic high-speed camera
Edgertronic high-speed camera
PI Supplied Instrument Name: Edgertronic high-speed camera Instrument Name: Camera Instrument Short Name:camera Instrument Description: All types of photographic equipment including stills, video, film and digital systems. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/311/
Photron FastCam Mini Ux100
Photron FastCam Mini Ux100
PI Supplied Instrument Name: Photron FastCam Mini Ux100 Instrument Name: Camera Instrument Short Name:camera Instrument Description: All types of photographic equipment including stills, video, film and digital systems. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/311/