http://lod.bco-dmo.org/id/dataset/739221
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
2018-06-25
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Data package from a drifting in situ chamber (DISC) including larval tracking images and environmental data from deployments in Southwater Caye, Belize between June and August of 2016
2018-06-25
publication
2018-06-25
revision
BCO-DMO Linked Data URI
2018-06-25
creation
http://lod.bco-dmo.org/id/dataset/739221
Claire B. Paris-Limouzy
University of Miami Rosenstiel School of Marine and Atmospheric Science
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: Paris-Limouzy, C. B. (2018) Data package from a drifting in situ chamber (DISC) including larval tracking images and environmental data from deployments in Southwater Caye, Belize between June and August of 2016. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2018-06-25 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/739221 [access date]
Dataset Description: <p>Data package files (179 deployment&nbsp;folders):<br />
Only deployments where larvae&nbsp;can be tracked are included in these files.&nbsp; Not all&nbsp;deployments could be successfully analyzed because the larva was either not visible&nbsp;or did not survive the deployment.&nbsp; If you have issues downloading these compressed tar files, please contact info@bco-dmo.org.</p>
<p><a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part1.tar.gz">DISC_deployments_part1.tar.gz</a>&nbsp;(26GB)&nbsp;&nbsp;discA&nbsp;deployments 45 to 137<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part2.tar.gz">DISC_deployments_part2.tar.gz</a>&nbsp;(29GB)&nbsp;&nbsp;discA&nbsp;deployments 141 to 181<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part3.tar.gz">DISC_deployments_part3.tar.gz</a>&nbsp;(24GB)&nbsp;&nbsp;discA&nbsp;deployments 183 to 258<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part4.tar.gz">DISC_deployments_part4.tar.gz</a>&nbsp;(28GB)&nbsp;&nbsp;discA&nbsp;deployments 268 to 362<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part5.tar.gz">DISC_deployments_part5.tar.gz</a>&nbsp;(33GB)&nbsp;&nbsp;discB&nbsp;deployments 46 to 147<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part6.tar.gz">DISC_deployments_part6.tar.gz</a>&nbsp;-(31GB)&nbsp;discB deployments 149 to 212<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part7.tar.gz">DISC_deployments_part7.tar.gz</a>&nbsp;- (29GB) discB deployments 214 to 286<br />
<a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/DISC/DISC_deployments_part8.tar.gz">DISC_deployments_part8.tar.gz</a>&nbsp;- (27GB)&nbsp;discB deployments 288 to 363</p>
<p>Data package structure:</p>
<p>Each folder corresponds to the deployment of a single larva. In other words, each set of data in a deployment folder corresponds to the environment of the larva that was deployed at that time. The data from a single folder were synchronized to match the time stamp of the larval images.&nbsp;</p>
<p>Please refer to the file&nbsp;<a href="http://datadocs.bco-dmo.org/docs/Elacatinus_Dispersal_II/data_docs/DISC_files_README.txt">DISC_files_README.txt</a>&nbsp;(also available as Microsoft Office format&nbsp;<a href="http://datadocs.bco-dmo.org/docs/Elacatinus_Dispersal_II/data_docs/DISC_files_README.docx" target="_blank">DISC_files_README.docx</a>) for documentation of the files within the data package structure.</p>
<p>Related Datasets (data collection during same DISC deployments):<br />
* DISC: Temperature and Light&nbsp;<a href="https://www.bco-dmo.org/dataset/739220" target="_blank">https://www.bco-dmo.org/dataset/739220</a><br />
* DISC: Depth, Temperature, and Salinity&nbsp;<a href="https://www.bco-dmo.org/dataset/739541" target="_blank">https://www.bco-dmo.org/dataset/739541</a><br />
* DISC: Deployment, environmental, and larval behavior information&nbsp;&nbsp;<a href="https://www.bco-dmo.org/dataset/739595" target="_blank">https://www.bco-dmo.org/dataset/739595</a>&nbsp;</p> Methods and Sampling: <p>The DISC is a free-floating, cylindrical behavioral observation chamber composed of clear acrylic and is used to monitor the behavior of marine larvae in situ. During each trial, an individual fish larva is placed inside of the central arena (20 cm diameter, 10 cm height) which is transparent to odor, light, and sound. The bottom of the arena is made of clear plexiglass, while the top is made of a fine mesh, and the walls are made of a black opaque film. Larvae can swim freely inside of the arena, and their behavior is recorded using a camera system which is supplemented by information on the rotation of the DISC and by records of the environment (temperature, light intensity, salinity, GPS).</p>
<p>A reference context was first defined. This was the ecological context in which we imagined a larva would be exposed to the most information. For this set of experiments, larvae were deployed in the DISC to a depth of 18 meters, within a kilometer from the reef, and during the ebb tide.&nbsp;The depth was chosen to reduce light scattering / intensity and based on observations of the vertical distribution of similar goby species. The distance was chosen to expose the larvae to higher sound levels and more concentrated chemosensory stimulants.&nbsp;The ebb tide was chosen to create a link between flow direction and chemosensory information, as we suspected that the ebb current would come from the direction of the reef.</p>
<p>To test the importance of the different environmental variables, three additional ecological contexts were defined by varying one of the defining features of the reference context at a time. That is, one group (shallow context) of larvae was deployed at 9 meters, within a kilometer from the reef, and during the ebb tide. One group (far context) was deployed at 18 meters, further than a kilometer from the reef, and during the ebb tide. The final group (flood context) was deployed at 18 meters, within a kilometer from the reef, and during the flood tide. For group-level analysis, significantly-directional individuals in a common ecological context were pooled. They were then assessed for significant consistency in their mean angles using a second-order Rayleigh’s test. Additionally, the precision of orientation (rho-value) was compared between ecological contexts, as was the mean larval turning angle (i.e., the angle produced by three successive points on a larva’s trajectory). Finally, the percentage of orienting individuals in each context was compared using a logistic model. In addition to looking at differences in circular statistics among contexts, we also assessed whether there was evidence of several common orientation hypotheses, both within and across contexts. Specifically, we looked for evidence of a sun compass, orientation with the current direction, orientation with the wind direction, and orientation variation with temperature and light.</p>
<p><a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/Paris_DISC2016.001.jpeg"><img src="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/Paris_DISC2016.001.jpeg" /></a><br />
Figure 1. Drifting In Situ Chamber (DISC).</p>
<p>A. Schematic of DISC components. A thin kite-line (A1) tethers the DISC to a surface float equipped with a GPS and to a subsurface float that decouples the movement of the DISC in the water mass in which it is embedded from potential stokes drift. The clear acrylic DISC frame holds a behavioral arena (A2, 20.32 cm diameter, 10 cm height) - transparent to sound, light, and chemical cues – where individual larvae are deployed. A video camera (A3), placed 35 cm under the chamber, records the larval movement continuously during each 15-minute trial, which includes 5 minutes of acclimation time and 10 minutes of observation time. Environmental sensors (A4) attached to the DISC’s frame record light levels, temperature, salinity, depth, earth’s magnetic field strength, 3-D acceleration, and compass heading. The compass serves to track the DISC’s rotation and is used to translate the movement of the larva from the chamber’s frame of reference to a cardinal frame of reference. A drogue (A5) is attached to the DISC’s bottom frame, keeping the DISC locked in the instantaneous current at the depth of the instrument. For deep deployments, the DISC was initially deployed to 9 m and lowered to 18 m with a dive reel placed above the DISC’s tethering bridles. To optimize the number of observations, two DISCs were deployed simultaneously.</p>
<p>B. Example of image collected by the DISC’s camera; the location of the larva is indicated by the black circle. A series of these images are used to manually track the location of the larva inside the chamber throughout the deployment.</p>
<p>C. Deployment of the DISC at 18 m offshore the Belize Barrier Reef.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1459156 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1459156
onGoing
Claire B. Paris-Limouzy
University of Miami Rosenstiel School of Marine and Atmospheric Science
305-421-4219
University of Miami Rosenstiel School of Marine and Atmospheric Science, Division of Marine Physics 4600 Rickenbacker Causeway
Miami
FL
33149-1098
USA
cparis@rsmas.miami.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
DISC_Deployments_Belize
service
Deployment Activity
Southwater Caye, Belize
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.
Collaborative Research: The Role of Larval Orientation Behavior in Determining Population Connectivity
https://osprey.bco-dmo.org/project/651265
Collaborative Research: The Role of Larval Orientation Behavior in Determining Population Connectivity
<p><em>Description from NSF award abstract:</em><br />
Understanding how far young fish move away from their parents is a major goal of marine ecology because this dispersal can make connections between distinct populations and thus influence population size and dynamics. Understanding the drivers of population dynamics is, in turn, essential for effective fisheries management. Marine ecologists have used two different approaches to understand how fish populations are connected: genetic methods that measure connectivity and oceanographic models that predict connectivity. There is, however, a mismatch between the predictions of oceanographic models and the observations of genetic methods. It is thought that this mismatch is caused by the behavior of the young, or larval, fish. The objective of this research is to study the orientation capabilities of larval fish in the wild throughout development and under a variety of environmental conditions to see if the gap between observations and predictions of population connectivity can be resolved. The project will have broader impacts in three key areas: integration of research and teaching by training young scientists at multiple levels; broadening participation of undergraduates from underrepresented groups; and wide dissemination of results through development of a website with information and resources in English and Spanish.</p>
<p>The overall objective of the research is to investigate the role of larval orientation behavior throughout ontogeny in determining population connectivity. This will be done using the neon goby, Elacatinus lori, as a model system in Belize. The choice of study system is motivated by the fact that direct genetic methods have already been used to describe the complete dispersal kernel for this species, and these observations indicate that dispersal is less extensive than predicted by a high-resolution biophysical model; E. lori can be reared in the lab from hatching to settlement providing a reliable source of larvae of all ages for proposed experiments; and a new, proven behavioral observation platform, the Drifting In Situ Chamber (DISC), allows measurements of larval orientation behavior in open water. The project has three specific objectives: to understand ontogenetic changes in larval orientation capabilities by correlating larval orientation behavior with developmental sensory anatomy; to analyze variation in the precision of larval orientation in different environmental contexts through ontogeny; and to test alternative hypotheses for the goal of larval orientation behavior, i.e., to determine where larvae are heading as they develop.</p>
Elacatinus Dispersal II
largerWorkCitation
project
eng; USA
oceans
Southwater Caye, Belize
-88.0817
-88.06593
16.78007
16.83897
2016-06-03
2016-08-16
Belizean Barrier Reef System
0
BCO-DMO catalogue of parameters from Data package from a drifting in situ chamber (DISC) including larval tracking images and environmental data from deployments in Southwater Caye, Belize between June and August of 2016
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
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
https://osprey.bco-dmo.org/dataset/739221/data/download
download
onLine
dataset
<p>The DISC is a free-floating, cylindrical behavioral observation chamber composed of clear acrylic and is used to monitor the behavior of marine larvae in situ. During each trial, an individual fish larva is placed inside of the central arena (20 cm diameter, 10 cm height) which is transparent to odor, light, and sound. The bottom of the arena is made of clear plexiglass, while the top is made of a fine mesh, and the walls are made of a black opaque film. Larvae can swim freely inside of the arena, and their behavior is recorded using a camera system which is supplemented by information on the rotation of the DISC and by records of the environment (temperature, light intensity, salinity, GPS).</p>
<p>A reference context was first defined. This was the ecological context in which we imagined a larva would be exposed to the most information. For this set of experiments, larvae were deployed in the DISC to a depth of 18 meters, within a kilometer from the reef, and during the ebb tide.&nbsp;The depth was chosen to reduce light scattering / intensity and based on observations of the vertical distribution of similar goby species. The distance was chosen to expose the larvae to higher sound levels and more concentrated chemosensory stimulants.&nbsp;The ebb tide was chosen to create a link between flow direction and chemosensory information, as we suspected that the ebb current would come from the direction of the reef.</p>
<p>To test the importance of the different environmental variables, three additional ecological contexts were defined by varying one of the defining features of the reference context at a time. That is, one group (shallow context) of larvae was deployed at 9 meters, within a kilometer from the reef, and during the ebb tide. One group (far context) was deployed at 18 meters, further than a kilometer from the reef, and during the ebb tide. The final group (flood context) was deployed at 18 meters, within a kilometer from the reef, and during the flood tide. For group-level analysis, significantly-directional individuals in a common ecological context were pooled. They were then assessed for significant consistency in their mean angles using a second-order Rayleigh’s test. Additionally, the precision of orientation (rho-value) was compared between ecological contexts, as was the mean larval turning angle (i.e., the angle produced by three successive points on a larva’s trajectory). Finally, the percentage of orienting individuals in each context was compared using a logistic model. In addition to looking at differences in circular statistics among contexts, we also assessed whether there was evidence of several common orientation hypotheses, both within and across contexts. Specifically, we looked for evidence of a sun compass, orientation with the current direction, orientation with the wind direction, and orientation variation with temperature and light.</p>
<p><a href="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/Paris_DISC2016.001.jpeg"><img src="https://datadocs.bco-dmo.org/docs/305/Elacatinus_Dispersal_II/data_docs/Paris_DISC2016.001.jpeg" /></a><br />
Figure 1. Drifting In Situ Chamber (DISC).</p>
<p>A. Schematic of DISC components. A thin kite-line (A1) tethers the DISC to a surface float equipped with a GPS and to a subsurface float that decouples the movement of the DISC in the water mass in which it is embedded from potential stokes drift. The clear acrylic DISC frame holds a behavioral arena (A2, 20.32 cm diameter, 10 cm height) - transparent to sound, light, and chemical cues – where individual larvae are deployed. A video camera (A3), placed 35 cm under the chamber, records the larval movement continuously during each 15-minute trial, which includes 5 minutes of acclimation time and 10 minutes of observation time. Environmental sensors (A4) attached to the DISC’s frame record light levels, temperature, salinity, depth, earth’s magnetic field strength, 3-D acceleration, and compass heading. The compass serves to track the DISC’s rotation and is used to translate the movement of the larva from the chamber’s frame of reference to a cardinal frame of reference. A drogue (A5) is attached to the DISC’s bottom frame, keeping the DISC locked in the instantaneous current at the depth of the instrument. For deep deployments, the DISC was initially deployed to 9 m and lowered to 18 m with a dive reel placed above the DISC’s tethering bridles. To optimize the number of observations, two DISCs were deployed simultaneously.</p>
<p>B. Example of image collected by the DISC’s camera; the location of the larva is indicated by the black circle. A series of these images are used to manually track the location of the larva inside the chamber throughout the deployment.</p>
<p>C. Deployment of the DISC at 18 m offshore the Belize Barrier Reef.</p>
Specified by the Principal Investigator(s)
<p>Using a custom software, trends in orientation behavior were examined at both the individual-level and group-level. For individuals, the position of the larva was recorded in each image captured during the experiment. A Rayleigh’s test was used to assess whether recorded positions of the larva were significantly oriented in a certain direction (Circular package in R, Lund and Agostinelli 2011). The individual’s mean orientation angle and rho-value (a measure of variance in a circular distribution) were calculated for trials in which the larva was indeed significantly directional. Using a compass to record the rotation of the DISC throughout the deployment allowed for assessment of the data in a cardinal frame of reference rather than the camera’s frame of reference, and all trials where orientation was more precise before this correction (with a 5% tolerance) were discarded as artifactual behavior in response to the DISC.</p>
<p>All processing was done with the “discr” package in R (see <a href="https://github.com/jiho/discr">https://github.com/jiho/discr</a>).&nbsp; The exact version of discr used to create the data package version served here can be downloaded as a zip file (<a href="http://datadocs.bco-dmo.org/docs/Elacatinus_Dispersal_II/data_docs/DISC_software_tag_v1.zip">DISC_software_tag_v1.zip</a>)&nbsp; and was released as tag "v1" at BCO-DMO's github&nbsp;for curatorial purposes (see <a href="https://github.com/BCODMO/DISC/releases/tag/v1">https://github.com/BCODMO/DISC/releases/tag/v1</a>).&nbsp;</p>
<p>BCO-DMO data manager processing notes:<br />
* converted documentation of files within data structure from a Microsoft Word (.docx) format to non-proprietary rich text format (DISC_files_README.rtf).&nbsp; .rtf&nbsp;format can be used with Microsoft Word or other word processing software.<br />
* Packaged data into two .zip files, one per deployment (A|B)&nbsp;<br />
* Forked submitter's code repository&nbsp;https://github.com/beatrixparis/DISC to BCO-DMO's github account for curatorial purposes and tagged it to associate with this data version.&nbsp; See&nbsp;<a href="https://github.com/BCODMO/DISC/releases/tag/v1">https://github.com/BCODMO/DISC/releases/tag/v1</a>.&nbsp;&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
Deployment: DISC_Deployments_Belize
DISC_Deployments_Belize
Belize_reefs
shoreside
DISC_Deployments_Belize
Claire B. Paris-Limouzy
University of Miami Rosenstiel School of Marine and Atmospheric Science
Belize_reefs
shoreside