http://lod.bco-dmo.org/id/dataset/847032
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
2021-03-30
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Megafaunal presence recorded from AUV Sentry phototransects conducted at sites across the Costa Rica margin from R/V Atlantis cruises AT37-13, AT42-03 in 2017 and 2018
2021-05-03
publication
2021-05-03
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-05-07
publication
https://doi.org/10.26008/1912/bco-dmo.847032.1
Erik E. Cordes
Temple University
principalInvestigator
Lisa A. Levin
University of California-San Diego Scripps
principalInvestigator
Victoria J. Orphan
California Institute of Technology
principalInvestigator
Christopher Neil Roman
University of California-San Diego Scripps
principalInvestigator
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: Cordes, E. E., Orphan, V. J., Rouse, G., Levin, L. A., Roman, C. (2021) Megafaunal presence recorded from AUV Sentry phototransects conducted at sites across the Costa Rica margin from R/V Atlantis cruises AT37-13, AT42-03 in 2017 and 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-05-03 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.847032.1 [access date]
Megafaunal presence recorded from AUV Sentry phototransects conducted at sites across the Costa Rica margin from R/V Atlantis cruises AT37-13, AT42-03 in 2017 and 2018. Dataset Description: Methods and Sampling: <p><strong>Location:&nbsp;</strong> Pacific coast of Costa Rica<br />
<br />
<strong>Sampling and analytical procedures:</strong><br />
<br />
AUV <em>Sentry </em>was deployed on two R/V <em>Atlantis</em> cruises in May-June 2017 and October-November 2018 off the Pacific coast of Costa Rica to capture seafloor images of predetermined transects along with their associated coordinates and environmental conditions. Visual assessment of each photo was undertaken, and biogenic habitat forming species presence was recorded, as well as carbonate rock presence for sessile species attachment.<br />
<br />
Photos were processed visually at Temple University, PA, USA. The "proc" format of the photos&nbsp;were analyzed "color corrected and smoothed color TIFF photos" (see https://ndsf.whoi.edu/sentry/using-sentry/data-products/).<br />
<br />
<strong>Instruments:</strong><br />
The AUV houses several sensors, including a Seapoint optical backscatter sensor for turbidity, an Anderaa optode 4330 dissolved oxygen sensor, and a Seabird SBE49 CTD probe for salinity, temperature and depth monitoring. Finally, a NOAA PMEL oxidation-reduction potential (ORP) probe was attached to the AUV as a proxy measure for methane seepage</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1635219 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1635219
completed
Erik E. Cordes
Temple University
215-204-8876
Temple University Biology-Life Sciences 315
Philadelphia
PA
19122
USA
ecordes@temple.edu
pointOfContact
Lisa A. Levin
University of California-San Diego Scripps
858-534-3579
9500 Gilman Drive Mail Code: 0218
La Jolla
CA
92093-0218
USA
llevin@ucsd.edu
pointOfContact
Victoria J. Orphan
California Institute of Technology
626-395-1786
109A North Mudd MC 100-23
Pasadena
CA
91125
USA
vorphan@caltech.edu
pointOfContact
Christopher Neil Roman
University of California-San Diego Scripps
508-274-0232
215 South Ferry Road
Narragansett
RI
02879
USA
croman2@uri.edu
pointOfContact
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: 1
Unknown
Photo_Filename
Cruise
Year
Date
ISO_DateTime_UTC
Dive
dive_image_number
Site
Depth
Altitude
Oxygen_Concentration
dORP_to_dt
Latitude
Longitude
Salinity
Temperature
Carbonate_Rock
Tubeworm
Mussel
Serpulid
Clam
Bacterial_Mat
Coral
Kiwa_puravida
theme
None, User defined
file_name
Cruise identfier
year
date_utc
ISO_DateTime_UTC
dive_id
sample description
site
depth
altitude
dissolved Oxygen
Oxidation_Reduction_Potential
latitude
longitude
salinity
water temperature at measurement depth
featureType
BCO-DMO Standard Parameters
AUV Sentry
instrument
BCO-DMO Standard Instruments
AT37-13
AT42-03
service
Deployment Activity
Pacific margin of Costa Rica
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: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea
https://osprey.bco-dmo.org/project/648472
Collaborative research: Quantifying the biological, chemical, and physical linkages between chemosynthetic communities and the surrounding deep sea
<p><em>NSF abstract:</em><br />
If life were to disappear from the deep sea, would we notice? We only have a cursory understanding of this vast region and the connectivity among its communities and the rest of the oceans, and yet the ecosystems of the deep sea have been implicated in the larger function of the global marine ecosystems. We now rely on the deep ocean for food, energy, novel drugs and materials, and for its role in the global cycling of carbon, as well as for supporting services such as habitat creation, nutrient replenishment for shallow waters, and the maintenance of biodiversity. Cold seeps, active areas of the seafloor where methane and other chemicals are released, are key features along the continental margins worldwide. To characterize how methane seep communities interact with the surrounding ecosystems and vice versa, we will study methane seeps off the Pacific coast of Costa Rica in 2017 and 2018. It is the sphere of influence around the seep, both along the seafloor and up into the water column, that we seek to better understand. We will map the structure and the chemistry surrounding these habitats using a novel 3-dimensional framework, combining typical transects with vertical characterizations of the water column just above the seafloor. This will include measurements of methane flux into the water column and changes in the overlying carbonate chemistry and oxygen levels that are critical to our understanding of the effect of warming, oxygen loss and ocean acidification in this region. Within this framework, we will collect seep organisms in sediments and on rocks (including all sizes from microbes to large animals), and transplant some of these from within the area of seep influence to the background deep sea, and vice-versa. Together, these studies will help us to measure the size of the seep sphere of influence, and also demonstrate the role of these seeps within the deep sea and the greater, global, marine ecosystem. We will share this information with a group of teachers during a series of workshops in the San Diego area, at an exhibit at the Birch Aquarium, and through the work of an artist who has worked extensively with marine organisms in extreme environments.</p>
<p>Chemosynthetic ecosystems are inextricably linked to the broader world-ocean biome and global biogeochemical cycles in ways that we are just beginning to understand. This research will identify the form, extent, and nature of the physical, chemical, and biological linkages between methane seeps and the surrounding deep-sea ecosystem. The proposed research builds critical understanding of the structural and functional processes that underpin the ecosystem services provided by chemosynthetic ecosystems. We target a critical continental margin, Costa Rica, where methane fates and dynamics loom large and play out in an setting that reflects many oceanographic stressors. We will use quantitative sampling and manipulative studies within a 3-dimensional oceanographic framework. We will ask what are the shapes of the diversity and density functions for organisms of different size classes and trophic position over the transition from the seep habitat through the ecotone to the background deep sea? Further, we will ask how do depth, dissolved oxygen concentrations, pH and carbonate ion availability, relative rates of fluid flux, and substrate (biogenic, authigenic carbonate, sediments) alter these linkages and interactions with the surrounding deep sea? Evidence for distinct transitional communities and biotic patterns in density and alpha and beta diversity will be quantified and placed in a global biogeographic context. All of these investigations will occur across biological size spectra: for microorganisms (archaea, bacteria, microeukaryotes), the macrofauna, and the megafauna that form biogenic habitats. Our research results will be interpreted in the context of potential effects of global ocean change in the equatorial Pacific to determine how the linkages with the surrounding deep sea will be altered as anthropogenic impacts proceed in the future. </p>
<p><strong>Related publications:</strong><br />
Levin, L.A., V.J. Orphan, G.W. Rouse, W. Ussler, A. E. Rathburn, G. S. Cook, S. Goffredi, E. Perez, A. Waren, B. Grupe, G. Chadwick, B. Strickrott. (2012). A hydrothermal seep on the Costa Rica margin: Middle ground in a continuum of reducing ecosystems. <em>Proc. Royal Soc. B.</em> 279: 2580-88 doi: <a href="http://dx.doi.org/10.1098/rspb.2012.0205" target="_blank">10.1098/rspb.2012.0205</a></p>
<p>Sahling, H., Masson, D. G., Ranero, C. R., Hühnerbach, V., Weinrebe, W., Klaucke, I., & Suess, E. (2008). Fluid seepage at the continental margin offshore Costa Rica and southern Nicaragua. <em>Geochemistry, Geophysics, Geosystems</em> 9: doi: <a href="http://dx.doi.org/10.1029/2008GC001978" target="_blank">10.1029/2008GC001978</a></p>
Costa Rica Seeps
largerWorkCitation
project
eng; USA
oceans
Pacific margin of Costa Rica
-85.1879
-84.2085
8.78231
9.12506
2017-05-24
2018-11-04
Costa Rica Pacific Margin
0
BCO-DMO catalogue of parameters from Megafaunal presence recorded from AUV Sentry phototransects conducted at sites across the Costa Rica margin from R/V Atlantis cruises AT37-13, AT42-03 in 2017 and 2018
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/850163.rdf
Name: Photo_Filename
Units: unitless
Description: <p>Identifying # of photo</p>
http://lod.bco-dmo.org/id/dataset-parameter/850164.rdf
Name: Cruise
Units: unitless
Description: <p>Cruise code #</p>
http://lod.bco-dmo.org/id/dataset-parameter/850165.rdf
Name: Year
Units: unitless
Description: <p>Year of cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/850166.rdf
Name: Date
Units: unitless
Description: <p>Date of cruise in ISO 8601 format yyyy-mm-dd.</p>
http://lod.bco-dmo.org/id/dataset-parameter/850167.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Timestamp when the image was taken down to the microsecond in ISO8601 format yyyy-mm-ddTHH:MM:SS.ffffff.</p>
http://lod.bco-dmo.org/id/dataset-parameter/850168.rdf
Name: Dive
Units: unitless
Description: <p>AUV Sentry dive code #</p>
http://lod.bco-dmo.org/id/dataset-parameter/850169.rdf
Name: dive_image_number
Units: unitless
Description: <p>Sequential image number from the start of the dive starting with image 0.</p>
http://lod.bco-dmo.org/id/dataset-parameter/850170.rdf
Name: Site
Units: unitless
Description: <p>AUV Sentry dive site</p>
http://lod.bco-dmo.org/id/dataset-parameter/850171.rdf
Name: Depth
Units: meters
Description: <p>Water depth of AUV</p>
http://lod.bco-dmo.org/id/dataset-parameter/850172.rdf
Name: Altitude
Units: meters
Description: <p>Distance of AUV above sediment</p>
http://lod.bco-dmo.org/id/dataset-parameter/850173.rdf
Name: Oxygen_Concentration
Units: micromoles/kg
Description: <p>Oxygen concentration of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/850174.rdf
Name: dORP_to_dt
Units: dimensionless
Description: <p>Oxidative-reductive potential (change in millivolts per second).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850175.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude of sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/850176.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude of sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/850177.rdf
Name: Salinity
Units: Practical Salinity Units (PSU)
Description: <p>Salinity of water column</p>
http://lod.bco-dmo.org/id/dataset-parameter/850178.rdf
Name: Temperature
Units: degrees Celsius
Description: <p>Temperature of water column</p>
http://lod.bco-dmo.org/id/dataset-parameter/850179.rdf
Name: Carbonate_Rock
Units: unitless
Description: <p>Presence of carbonate rock in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850180.rdf
Name: Tubeworm
Units: unitless
Description: <p>Presence of tubeworms in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850181.rdf
Name: Mussel
Units: unitless
Description: <p>Presence of mussels in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850182.rdf
Name: Serpulid
Units: unitless
Description: <p>Presence of serpulids in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850183.rdf
Name: Clam
Units: unitless
Description: <p>Presence of clams in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850184.rdf
Name: Bacterial_Mat
Units: unitless
Description: <p>Presence of bacterial mats in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850185.rdf
Name: Coral
Units: unitless
Description: <p>Presence of corals in photos. present (1), absent (0).</p>
http://lod.bco-dmo.org/id/dataset-parameter/850186.rdf
Name: Kiwa_puravida
Units: unitless
Description: <p>Presence of Kiwa puravida in photos. present (1), absent (0).</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
40243500
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/7b2ba747-6eed-5e0f-b3fb-6910f3824792/content
download
https://doi.org/10.26008/1912/bco-dmo.847032.1
download
onLine
dataset
<p><strong>Location:&nbsp;</strong> Pacific coast of Costa Rica<br />
<br />
<strong>Sampling and analytical procedures:</strong><br />
<br />
AUV <em>Sentry </em>was deployed on two R/V <em>Atlantis</em> cruises in May-June 2017 and October-November 2018 off the Pacific coast of Costa Rica to capture seafloor images of predetermined transects along with their associated coordinates and environmental conditions. Visual assessment of each photo was undertaken, and biogenic habitat forming species presence was recorded, as well as carbonate rock presence for sessile species attachment.<br />
<br />
Photos were processed visually at Temple University, PA, USA. The "proc" format of the photos&nbsp;were analyzed "color corrected and smoothed color TIFF photos" (see https://ndsf.whoi.edu/sentry/using-sentry/data-products/).<br />
<br />
<strong>Instruments:</strong><br />
The AUV houses several sensors, including a Seapoint optical backscatter sensor for turbidity, an Anderaa optode 4330 dissolved oxygen sensor, and a Seabird SBE49 CTD probe for salinity, temperature and depth monitoring. Finally, a NOAA PMEL oxidation-reduction potential (ORP) probe was attached to the AUV as a proxy measure for methane seepage</p>
Specified by the Principal Investigator(s)
BCO-DMO Data Manager Processing Notes:
* All sheets from "Excel file BCO-DMO data submission- Sentry presence absence.xlsx" imported into the BCO-DMO data system and combined into one table. Each sheet was one dive of data.
* Date column had variable format so made all ISO8601 format yyyy-mm-dd
* ISO_DateTime_UTC and dive_image_number columns added from information in the sentry image name.
* Column names renamed to match BCO-DMO naming conventions (spaces and slashes changed to underscores, units removed from column name). Unit information is available in the parameter section of the metadata.
* Issue in sheet 432 of the original excel file starting at row 9861 to the end of the sheet. The issue seems to be the "f" of the filename (the .tif part) seems to be missing and it instead is in the Depth (m) column so the values for depth look like "f 990.56222744119". The imagenames were corrected to end in .tif instead of .ti and removed the "f " preceding the depths.
* In sheet 502 row 7789 of the original excel file, (row for image sentry.20181021.104425422155.7861.tif) there was an issue where the latitude value was "7 8.9307818665541". The "7 " was removed in this dataset.
* Depth and Altitude columns rounded to two decimal places.
* Latitude and longitude rounded to 5 decimal places.
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
PI Supplied Instrument Name: Instrument Name: AUV Sentry Instrument Short Name:AUV Sentry Instrument Description: The autonomous underwater vehicle (AUV) Sentry is a fully autonomous underwater vehicle capable of exploring the ocean down to 6,000 meters (19,685 feet) depth. Sentry builds on the success of its predecessor the ABE, with improved speed, range, and maneuverability.
Sentry's hydrodynamic shape also allows faster ascents and descents. Sentry carries a superior science sensor suite and an increased science payload enabling it to be used for both mid-water and near-seabed oceanographic investigations. Sentry produces bathymetric, sidescan, subbottom, and magnetic maps of the seafloor and is capable of taking digital bottom photographs in a variety of deep-sea terrains such as mid-ocean ridges, deep-sea vents, and cold seeps at ocean margins. Sentry is uniquely able to operate in extreme terrain, including volcano caldera and scarps. Sentry's navigation system uses a doppler velocity log and inertial navigation system, aided by acoustic navigation systems (USBL or LBL). The USBL system also provides acoustic communications, which can be used to obtain the vehicle state and sensor status as well as to retask the vehicle while on the bottom. In addition its standard sensors, Sentry has carried a variety of science-supplied sensors, including the Nakamura redox potential probe, ACFR 3-D imaging system, and the Tethys in-situ mass spectrometer.
Sentry can be used to locate and quantify hydrothermal fluxes. Sentry is also capable of a much wider range of oceanographic applications due to its superior sensing suite, increased speed and endurance, improved navigation, and acoustic communications. Sentry can be used as a stand alone vehicle or in tandem with Alvin or an ROV to increase the efficiency of deep-submergence investigations.
More information is available from the operator site at URL: https://ndsf.whoi.edu/sentry/
Cruise: AT37-13
AT37-13
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT37-13
Erik E. Cordes
Temple University
Cruise: AT42-03
AT42-03
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT42-03
Erik E. Cordes
Temple University
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel