http://lod.bco-dmo.org/id/dataset/555463
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
2015-04-07
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Videos of polychaetes burrowing and swimming in La Jolla, CA during 2011 (Burrowing polychaete mechanics project)
2015-04-07
publication
2015-04-07
revision
BCO-DMO Linked Data URI
2015-04-07
creation
http://lod.bco-dmo.org/id/dataset/555463
Gregory Rouse
University of California-San Diego Scripps
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: Rouse, G. (2015) Videos of polychaetes burrowing and swimming in La Jolla, CA during 2011 (Burrowing polychaete mechanics project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2015-04-07) Version Date 2015-04-07 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/555463 [access date]
Videos of polychaetes burrowing and swimming. Dataset Description: <p>Supplemental online videos for publications on biomechanics of burrowing by polychaete annelids.</p> Methods and Sampling: <p><strong>Dorgan, K.M., C.J. Law, and G.W. Rouse. 2013. Meandering worms: Mechanics of undulatory burrowing in muds. <em>Proceedings of the Royal Society B </em>280: 20122948<em>.</em></strong></p>
<p>Specimens were collected by hand and sorted or sieved from sediments and preserved for DNA and morphology analysis.&nbsp;Armandia brevis (Moore, 1906) and Thoracophelia mucronata (Treadwell, 1914) were collected from Mission Bay, San Diego, California on June 9, 2011 and La Jolla Shores Beach, California on May 4, 2012, respectively.</p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_burrowing_in_gelatin_fragments_Rouse.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_burrowing_in_gelatin_fragments_Rouse.mp4</a></p>
<p>This video shows <em>Armandia brevis</em> burrowing in gelatin fragments. See the paper "Meandering worms: mechanics of undulatory burrowing in muds" by Dorgan et al, published in Proceedings of the Royal Society B</p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_swimming_Rouse.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_swimming_Rouse.mp4</a></p>
<p>This video shows <em>Armandia brevis </em>swimming. See the paper "Meandering worms: mechanics of undulatory burrowing in muds" by Dorgan et al, published in Proceedings of the Royal Society B</p>
<p>&nbsp;</p>
<p><strong>Law C, Dorgan KM, Rouse GW. 2014. Relating divergence in musculature within Opheliidae (Annelida) with different burrowing behaviors. J Morphol 275: 548-571.</strong></p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Law_etal2013.mov" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Law_etal2013.mov</a></p>
<p>To observe the movements of the septum and injector organ corresponding with the peristaltic wave, live <em>Thoracophelia mucronata</em> were placed in tunnels in a thin layer of seawater gelatin between a microscope slide and cover slip. Tunnels were created by allow- ing the gelatin to set around straight pieces of fishing line, which were then pulled out of the set gelatin. Small worms with diameter close to that of the fishing line were positioned with the anterior at the entry of the tunnel and encouraged to move. Videos were recorded using a Canon T3i camera attached to a Leica DMR microscope with polarizing filters. Crossed polarizers were used to view muscle fibers, which are birefringent.</p>
<p>&nbsp;</p>
<p><strong>Francoeur, A.A., K.M. Dorgan. 2014. Burrowing behavior in mud and sand of morphologically divergent polychaete species (Annelida: Orbiniidae). <em>Biological Bulletin </em>226: 131-145.</strong></p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Francouer&amp;Dorgan104.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Francouer&amp;Dorgan104.mp4</a></p>
<p>Videos of the orbiniid polychaetes, <em>Leitoscoloplos pugettensis, Naineris dendritica,</em> and <em>Orbinia johnsoni,</em> burrowing in gelatin, a clear analog for muddy sediments, and glass beads and cryolite, analogs for sandy sediments. All three species extend burrows by fracture in gelatin. <em>L. pugettensis,</em> naturally found in muddy sediments, exhibits periodic twisting in gelatin, whereas twisting in sand analogs is more erratic. <em>N. dendritica,</em> naturally found in sands, has a wider anterior that shows periodic fluctuations in width. For all three species, substantially more grain movement can be seen in glass beads than in cryolite. Additionally, <em>O. johnsoni,</em> naturally found on sandy beaches, exhibits frequent periodic body expansions, visible as anterior movement of dark internal mass, in cryolite that rarely occur in glass beads and were not observed in gelatin.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1029160 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1029160
completed
Gregory Rouse
University of California-San Diego Scripps
858-534-7973
9500 Gilman Drive Mail Code: 0202
La Jolla
CA
92093
USA
grouse@ucsd.edu
pointOfContact
asNeeded
Dataset Version: 2015-04-07
Unknown
species
reference_paper
activity
video_link
camera
microscope
theme
None, User defined
species scientific name (binomial)
reference_paper
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
Camera
Microscope - Optical
instrument
BCO-DMO Standard Instruments
Rouse_2011
service
Deployment Activity
nearshore La Jolla, CA
place
Locations
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.
Functional diversity of infaunal burrowers: Towards a mechanistic understanding of animal-sediment interactions
https://osprey.bco-dmo.org/project/555064
Functional diversity of infaunal burrowers: Towards a mechanistic understanding of animal-sediment interactions
<p><em>Description from NSF award abstract:</em><br />
Benthic communities comprise diverse and abundant organisms with important ecological and biogeochemical roles. They convert organic carbon into biomass that is transferred to higher trophic levels, regenerate nutrients, and determine the fate of pollutants and organic carbon buried in sediments. In many coastal environments, anthropogenic stresses, including eutrophication and resulting hypoxia, trawling and disturbance from fisheries, and pollutants have negative and often dramatic affects on species diversity. Assessing the ecological and biogeochemical impacts of changes in species diversity is nearly impossible, however, without understanding the functional roles of the species. In sedimentary environments, determining functionality is especially important for organisms closely associated sediments, such as infaunal deposit feeders that ingest sediments while living in and moving through them.</p>
<p>Burrowing behaviors and morphologies have been examined for individual species, but decades have passed since even broad burrowing behaviors were compared across diverse taxa. Moreover, such comparisons largely ignored the mechanical response of sediments, an omission similar to studying swimming without considering fluid mechanics. Since that time, there have been several major advances in the physics of animal-sediment interactions. Muddy sediments are elastic solids through which burrows are extended by fracture. In contrast, sands are granular materials whose mechanics are governed by gravitational forces acting on individual grains, rather than by adhesion and cohesion of the mucopolymeric matrix dominating mud mechanics. Use of gelatin as a clear analog for muds has enabled visualization of burrowing and analyses of forces and kinematics. This research will combine structural and anatomical studies and kinematic analyses of burrowing in gelatin and sand analogs with mechanical testing and numerical modeling of real sediments. Linkages would be made among anatomies, morphologies, and behaviors to burrowing function in sands versus muds. Polychaetous annelids, a diverse and abundant component of benthic communities, will be the focal taxon.</p>
<p>Functional groupings of burrowing infauna have been based on morphologies and trophic roles but advances in sediment mechanics suggest that similar morphologies may have different functions in sands versus muds (e.g., expansible structures extend cracks in muds but are anchors in sands). In addition, seemingly different morphologies may have analogous functions (e.g., the pharynx of Nereis virens and the muscular anterior of the cirratulid Cirriformia moorei both exert dorso-ventral stress to extend burrows by fracture). Linking functions to morphologies and behaviors of burrowers is important in understanding functional roles of infauna and resulting functional diversity of benthic communities. The diversity of burrowing mechanisms revealed in this study will enable generalizations about burrowing mechanics in different environments. Important characteristics of burrowing locomotion will be identified as those shared by diverse burrowers. How the different physical constraints of sand and mud specify burrowing mechanics and affect morphologies and behaviors of burrowers will be contrasted for closely related taxa from different environments.</p>
Burrowing polychaete mechanics
largerWorkCitation
project
eng; USA
oceans
nearshore La Jolla, CA
2015-04-07
California
0
BCO-DMO catalogue of parameters from Videos of polychaetes burrowing and swimming in La Jolla, CA during 2011 (Burrowing polychaete mechanics 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/555474.rdf
Name: species
Units: unitless
Description: <p>taxonomic genus and species name</p>
http://lod.bco-dmo.org/id/dataset-parameter/555475.rdf
Name: reference_paper
Units: unitless
Description: <p>citation</p>
http://lod.bco-dmo.org/id/dataset-parameter/555476.rdf
Name: activity
Units: unitless
Description: <p>activity of polychaetes in video</p>
http://lod.bco-dmo.org/id/dataset-parameter/555477.rdf
Name: video_link
Units: unitless
Description: <p>link to the video</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
863
https://datadocs.bco-dmo.org/file/LAAGpL8FPPXRBo/polych_videos.csv
polych_videos.csv
Primary data file for dataset ID 555463
download
https://osprey.bco-dmo.org/dataset/555463/data/download
download
onLine
dataset
<p><strong>Dorgan, K.M., C.J. Law, and G.W. Rouse. 2013. Meandering worms: Mechanics of undulatory burrowing in muds. <em>Proceedings of the Royal Society B </em>280: 20122948<em>.</em></strong></p>
<p>Specimens were collected by hand and sorted or sieved from sediments and preserved for DNA and morphology analysis.&nbsp;Armandia brevis (Moore, 1906) and Thoracophelia mucronata (Treadwell, 1914) were collected from Mission Bay, San Diego, California on June 9, 2011 and La Jolla Shores Beach, California on May 4, 2012, respectively.</p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_burrowing_in_gelatin_fragments_Rouse.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_burrowing_in_gelatin_fragments_Rouse.mp4</a></p>
<p>This video shows <em>Armandia brevis</em> burrowing in gelatin fragments. See the paper "Meandering worms: mechanics of undulatory burrowing in muds" by Dorgan et al, published in Proceedings of the Royal Society B</p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_swimming_Rouse.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Armandia_brevis_swimming_Rouse.mp4</a></p>
<p>This video shows <em>Armandia brevis </em>swimming. See the paper "Meandering worms: mechanics of undulatory burrowing in muds" by Dorgan et al, published in Proceedings of the Royal Society B</p>
<p>&nbsp;</p>
<p><strong>Law C, Dorgan KM, Rouse GW. 2014. Relating divergence in musculature within Opheliidae (Annelida) with different burrowing behaviors. J Morphol 275: 548-571.</strong></p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Law_etal2013.mov" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Law_etal2013.mov</a></p>
<p>To observe the movements of the septum and injector organ corresponding with the peristaltic wave, live <em>Thoracophelia mucronata</em> were placed in tunnels in a thin layer of seawater gelatin between a microscope slide and cover slip. Tunnels were created by allow- ing the gelatin to set around straight pieces of fishing line, which were then pulled out of the set gelatin. Small worms with diameter close to that of the fishing line were positioned with the anterior at the entry of the tunnel and encouraged to move. Videos were recorded using a Canon T3i camera attached to a Leica DMR microscope with polarizing filters. Crossed polarizers were used to view muscle fibers, which are birefringent.</p>
<p>&nbsp;</p>
<p><strong>Francoeur, A.A., K.M. Dorgan. 2014. Burrowing behavior in mud and sand of morphologically divergent polychaete species (Annelida: Orbiniidae). <em>Biological Bulletin </em>226: 131-145.</strong></p>
<p><a href="http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Francouer&amp;Dorgan104.mp4" target="_blank">http://dmoserv3.bco-dmo.org/data/rouse/polychaete_videos/Francouer&amp;Dorgan104.mp4</a></p>
<p>Videos of the orbiniid polychaetes, <em>Leitoscoloplos pugettensis, Naineris dendritica,</em> and <em>Orbinia johnsoni,</em> burrowing in gelatin, a clear analog for muddy sediments, and glass beads and cryolite, analogs for sandy sediments. All three species extend burrows by fracture in gelatin. <em>L. pugettensis,</em> naturally found in muddy sediments, exhibits periodic twisting in gelatin, whereas twisting in sand analogs is more erratic. <em>N. dendritica,</em> naturally found in sands, has a wider anterior that shows periodic fluctuations in width. For all three species, substantially more grain movement can be seen in glass beads than in cryolite. Additionally, <em>O. johnsoni,</em> naturally found on sandy beaches, exhibits frequent periodic body expansions, visible as anterior movement of dark internal mass, in cryolite that rarely occur in glass beads and were not observed in gelatin.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong></p>
<p>- added conventional header with dataset name, PI name, version date<br />
- renamed parameters to BCO-DMO standard<br />
&nbsp;</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
camera
camera
PI Supplied Instrument Name: camera PI Supplied Instrument Description:Canon T3i camera attached to microscope 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/
microscope
microscope
PI Supplied Instrument Name: microscope PI Supplied Instrument Description:Leica DMR microscope Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/
Deployment: Rouse_2011
Rouse_2011
SIO_Rouse
laboratory
Rouse_2011
Gregory Rouse
University of California-San Diego Scripps
SIO_Rouse
laboratory