http://lod.bco-dmo.org/id/dataset/709337
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
2017-07-19
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Particle tracking from the appendicularian Oikopleura dioica feeding behavior experiments conducted in 2016 at the Sars Centre for Marine Molecular Biology in Bergen, Norway (Mucus net filter feeders project)
2017-07-19
publication
2017-07-19
revision
BCO-DMO Linked Data URI
2017-07-19
creation
http://lod.bco-dmo.org/id/dataset/709337
Kelly Rakow Sutherland
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: Sutherland, K. R. (2017) Particle tracking from the appendicularian Oikopleura dioica feeding behavior experiments conducted in 2016 at the Sars Centre for Marine Molecular Biology in Bergen, Norway (Mucus net filter feeders project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2017-07-19 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/709337 [access date]
Oikopleura dioica feeding behavior particle tracking Dataset Description: <p>This dataset&nbsp;contains data related to feeding behavior of the appendicularian&nbsp;<em>Oikopleura&nbsp;<em>d</em>ioica</em>. &nbsp;The data include fluid direction and particle orientation of beads suspended in fluid filtered by<em>&nbsp;O.&nbsp;<em>d</em>ioica. &nbsp;</em>The experiments took place in 2016 at the&nbsp;Sars Centre for Marine Molecular Biology in Bergen, Norway.</p>
<p>These data will be published in:<br />
Conley KR, Sutherland KR (In Revision) Particle shape impacts export and fate in the ocean through interactions with a globally abundant appendicularian,&nbsp;<em>Oikopleura&nbsp;dioica</em>.&nbsp;PLOS&nbsp;ONE,&nbsp;Fig.&nbsp;6&nbsp;</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 on May 16, 2016. Immature day-6 <em>Oikopleura <em>d</em>ioica</em> were filmed individually using a Sony 4K FDR-AX100 (HD resolution, 120 fps) mounted to a Nikon Eclipse E400 with a 10x objective using a Martin Microscope M99 Camcorder Adapter. Animals were filmed in a glass embryo dish filtering a suspension of 10 mm-diameter spheres and ellipsoids of similar width (L=22 +- 2.4 mm and W=7.8 +- 1.1 mm; <em>n</em>=5; mean +- SD).</p>
<p>For measurements of ellipsoidal particle orientation, the image stack was registered using the StackReg plugin with an Affine transform to account for the inflation and deflation of the feeding mesh. Images were then inverted and frames for trajectory analysis were color-coded in one of six channels using the Stack-to-Hyperstack tool. Stacks were Z-projected and the composite image was used to show trajectories. Measurements of ellipsoidal particle orientation were made using the straight line angle tool in ImageJ (41) and converted to be relative to the fluid flow.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1537201 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1537201
completed
Kelly Rakow Sutherland
University of Oregon
541-913-6560
5289 University of Oregon
Eugene
OR
97403-5219
USA
ksuth@uoregon.edu
pointOfContact
asNeeded
Unknown
Location
Video
Frame
Time_elapsed
Bead
Point_ID
Rod_angle_0
Fluid_direction
Rod_angle_fluid
Sony 4K FDR-AX100
theme
None, User defined
sample description
time_elapsed
individual
angle
featureType
BCO-DMO Standard Parameters
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.
Selective feeding by mucous-net filter feeders on the ocean's smallest organisms
https://osprey.bco-dmo.org/project/653245
Selective feeding by mucous-net filter feeders on the ocean's smallest organisms
<p>NSF abstract:</p>
<p>The surface of the ocean is dominated by microscopic plants and animals called picoplankton, which are at the base of the marine food web. Jelly-like animals called appendicularians specialize in feeding on these miniature organisms by filtering large quantities of water using nets made out of mucus. In the past, it was thought that appendicularians eat anything that passes through the mucous net, but new work shows that feeding may be selective. The most abundant group of microorganisms in the ocean, called SAR 11, seems to evade the appendicularian, while similar-sized photosynthetic microbes are captured. In this study, a series of lab and field experiments will be conducted in Oregon, USA, and Villefranche-sur-mer, France, to uncover the mechanisms for selectivity. The research will test the effect of particle shape (e.g. spherical vs. ellipsoidal), adhesion properties of particles to mucous meshes, and the role of hydrodynamics. It will focus on the cosmopolitan appendicularian Oikopleura dioica, an important grazer of picoplankton. Results will be important for understanding the role of mucous-net filter feeders in shaping the structure of the ocean's microbial community as well as biogeochemical cycling. </p>
<p>Picoplankton occur at densities of up to a million per mL and numerically dominate the upper ocean prey field. Since appendicularians influence pico- and nano-particle flux through their high filtration rates and the production of mucous aggregates, selective grazing will have important ramifications for microbial loop dynamics and vertical flux. Therefore, this work will provide insights into the mechanisms governing bacterioplankton community structure in the upper ocean and increase understanding of microbial-metazoan food web interactions in both neritic and oceanic ecosystems. The specific goals of the project are to a) determine the role of flow morphology in regulating particle capture within the houses of free-swimming appendicularians using micro-Particle Image Velocimetry, b) determine the effect of particle shape on retention efficiencies by appendicularians, and compare this effect between synthetic and biological particles, and c) quantify particle adhesion to the mucous filtration apparatus in order to determine if picoplankton cell surface properties influence retention efficiencies by mucous-net filter-feeders.</p>
Mucus net filter feeders
largerWorkCitation
project
eng; USA
oceans
2017-07-19
Oregon, USA; Bergen, Norway
0
BCO-DMO catalogue of parameters from Particle tracking from the appendicularian Oikopleura dioica feeding behavior experiments conducted in 2016 at the Sars Centre for Marine Molecular Biology in Bergen, Norway (Mucus net filter feeders 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
http://lod.bco-dmo.org/id/dataset-parameter/709350.rdf
Name: Location
Units: unitless
Description: <p>Location in animal; fluid or food collecting mesh</p>
http://lod.bco-dmo.org/id/dataset-parameter/709351.rdf
Name: Video
Units: unitless
Description: <p>Video identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/709352.rdf
Name: Frame
Units: unitless
Description: <p>Video frame number or range</p>
http://lod.bco-dmo.org/id/dataset-parameter/709353.rdf
Name: Time_elapsed
Units: seconds
Description: <p>Time of measurement based on frame rate of 120 frames per second</p>
http://lod.bco-dmo.org/id/dataset-parameter/709354.rdf
Name: Bead
Units: unitless
Description: <p>Bead identifier; Beads are spherical and rod-shaped particles used in the feeding experiments</p>
http://lod.bco-dmo.org/id/dataset-parameter/709355.rdf
Name: Point_ID
Units: unitless
Description: <p>Rod (ellipsoid-shaped particle) angle identifier; multiple measurements per bead</p>
http://lod.bco-dmo.org/id/dataset-parameter/709356.rdf
Name: Rod_angle_0
Units: degrees
Description: <p>Rod (ellipsoid-shaped particle) angle relative to zero degrees; horizontal</p>
http://lod.bco-dmo.org/id/dataset-parameter/709357.rdf
Name: Fluid_direction
Units: degrees
Description: <p>Direction of fluid relative to zero degrees; horizontal</p>
http://lod.bco-dmo.org/id/dataset-parameter/709358.rdf
Name: Rod_angle_fluid
Units: degrees
Description: <p>Rod angle relative to fluid angle</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
10599
https://datadocs.bco-dmo.org/file/B11vALAFDQEzk2/ellipsoid_orientation.csv
ellipsoid_orientation.csv
Primary data file for dataset ID 709337
download
https://osprey.bco-dmo.org/dataset/709337/data/download
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 on May 16, 2016. Immature day-6 <em>Oikopleura <em>d</em>ioica</em> were filmed individually using a Sony 4K FDR-AX100 (HD resolution, 120 fps) mounted to a Nikon Eclipse E400 with a 10x objective using a Martin Microscope M99 Camcorder Adapter. Animals were filmed in a glass embryo dish filtering a suspension of 10 mm-diameter spheres and ellipsoids of similar width (L=22 +- 2.4 mm and W=7.8 +- 1.1 mm; <em>n</em>=5; mean +- SD).</p>
<p>For measurements of ellipsoidal particle orientation, the image stack was registered using the StackReg plugin with an Affine transform to account for the inflation and deflation of the feeding mesh. Images were then inverted and frames for trajectory analysis were color-coded in one of six channels using the Stack-to-Hyperstack tool. Stacks were Z-projected and the composite image was used to show trajectories. Measurements of ellipsoidal particle orientation were made using the straight line angle tool in ImageJ (41) and converted to be relative to the fluid flow.</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
Sony 4K FDR-AX100
Sony 4K FDR-AX100
PI Supplied Instrument Name: Sony 4K FDR-AX100 PI Supplied Instrument Description:Sony 4K FDR-AX100 (HD resolution, 120 fps) mounted to a Nikon Eclipse E400 with a 10x objective using a Martin Microscope M99 Camcorder Adapter. 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/