http://lod.bco-dmo.org/id/dataset/658213
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
2016-09-02
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Locations and depths of sites used in coral disease mapping from the Caribbean in 2012 (Contagious coral diseases project)
2016-09-02
publication
2016-09-02
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-05-13
publication
https://doi.org/10.1575/1912/bco-dmo.658213.1
Robert van Woesik
Florida Institute of Technology
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: van Woesik, R. (2016) Locations and depths of sites used in coral disease mapping from the Caribbean in 2012 (Contagious coral diseases project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2016-09-02 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.658213.1 [access date]
Locations and depths of sites where samples were taken. Dataset Description: <p>This dataset contains site information including latitude, longitude, depth, and survey date.</p>
<p>Coral disease transmission experiments were completed for dark-spot syndrome on Sidereastrea siderea&nbsp;and yellow-band disease on Orbicella faveolata, as described in Randall et al. 2016.&nbsp;Following experimentation, microbial communities were extracted from tissue samples to determine whether any&nbsp;potential pathogen may have transmitted from healthy to exposed corals. Microbial communities on healthy corals&nbsp;were compared with diseased corals to identify any potential pathogens.</p>
<p>Experimental diseased and healthy corals were sampled and their microbial communities were analyzed using 454 Illumina pyrosequencing&nbsp;of the amplified 16S rRNA gene on the V1-V3&nbsp;hypervariable region.</p> Methods and Sampling: <p>[Adapted from: Randall et al. 2014 Ecology 95(7) 1981-1994]&nbsp;&nbsp; &nbsp;</p>
<p>&nbsp;&nbsp; &nbsp;To assess the prevalence of coral diseases at each location, a survey area (1-10 km<span style="font-size:10.8333px">^2</span> depending on the region’s geographic features) of hard-bottom habitat was visually defined using <a href="http://earth.google.com/">Google Earth</a>. The survey area was divided into 100 by 100 meter cells (using Google Earth Path 1.4.4). Within each location, twenty-five 100 by 100 meter cells were randomly selected as sites. These sites were defined as the primary sampling units. A single 10 by 10 meter<sup> </sup>quadrat was haphazardly placed within each site, for field-data collection. To maintain consistency across locations and to minimize potential effects of coral-assemblage differences, three criteria had to be met for a site to be surveyed: (1) the depth averaged between 5 and 10 meters, (2) the substrate was hard bottom, and (3) corals were present. If any one of these criteria was not met at a given site, it was rejected and the next randomly generated site was selected. In total, twenty-five, 10 by 10 meter quadrats were sampled at each location, for a total of 50 quadrats across two frequent-anomaly locations and 50 quadrats across two reference locations, for a total survey area of 10,000 m<span style="font-size:10.8333px">^2</span>.&nbsp;</p>
<p>All four locations were surveyed between 2 July and 1 September 2012. At each site, divers surveyed each 100 m^2<sup>&nbsp;</sup>quadrat by systematically laying ten contiguous 1 x 10 m belt transects onto the reef substrate. Each coral colony with a disease sign was identified <em>in situ </em>and the species and disease signs were recorded. Four disease signs were identified: (1) white sign was defined as a bright, white band or patch of recent mortality adjacent to healthy-appearing tissue (i.e., the tissue bordered a well-defined edge of exposed skeleton not yet colonized by algae or other biofouling organisms) (<em>sensu</em> Bythell et al. 2004) , (2) dark spot was defined as tissue with purple, brown or black lesions, forming spots of irregular shapes (<em>sensu</em> Goreau et al. 1998), (3) black band was defined as a black band over the coral tissue exposing white skeleton with different stages of biofouling (<em>sensu</em> Richardson 2004), and (4) yellow sign was defined as a yellow discoloration of tissue forming a band or blotches (<em>sensu</em> Santavy et al. 1999). White signs and black bands were associated with recent tissue loss; yellow signs and dark spots were usually, but not always, associated with recent tissue loss. Notably, very few yellow bands were observed that followed the classical description (Reeves 1994). Instead, most coral colonies presented a patchy, non-uniform yellowing of the tissue; therefore the condition was termed ‘yellow sign.’ Additionally, any area of recently exposed white skeleton, which was not clearly caused by predation or a competitive interaction, was recorded as a white sign, including white plagues, white bands and white pox. The white-sign diseases were not differentiated because of similar- or identical-appearing signs, unknown etiologies for several diseases, and the possibility that the diseases were caused by the same pathogens (Bythell et al. 2004, Ainsworth et al. 2007). Coral colonies were occasionally recorded with two or more signs of disease, when those signs appeared to be spatially independent.</p>
<p><em>Disease mapping:</em></p>
<p>Four 100 m<span style="font-size:10.8333px">^2</span> quadrats per location were mapped in their entirety, for a total of eight 100 m<span style="font-size:10.8333px">^2</span> quadrats per temperature-stress level. Approximately 50 digital images were captured from each video-transect file using Free Video to JPG Converter v. 5.0.58 build 324. The digital images were stitched together using Adobe Photoshop&nbsp;CS5 v. 12.0, and ten 1–m by 10–m image mosaics were created for each 10 m by 10 m site. Each photo-mosaic was printed and, with the aid of the digital images and videos, the following data were measured and recorded for every coral colony within each site: (1) species, (2) spatial coordinates, (3) maximum diameter, (4) perpendicular diameter, (5) an estimate of percent partial mortality (0, &lt;5, 25, 50, 75, or &gt;95 %), and (6) ‘health’ status. Corals were identified as either healthy, or as having white signs, dark spots, black bands, yellow signs, or unknown signs of disease (as described above). Bleached or pale colonies also were recorded, and when multiple disease signs were present on an individual colony, both signs were recorded. Data from each site that was mapped are found in individual excel files in the folder called <em>Disease mapping site data files</em>.&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1219804 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1219804
completed
Robert van Woesik
Florida Institute of Technology
321-674-7475
150 West University Blvd
Melbourne
FL
32901-6975
USA
rvw@fit.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
site_location
site_number
depth_max
lat
lon
survey_date
theme
None, User defined
site
depth_max
latitude
longitude
date
featureType
BCO-DMO Standard Parameters
vanWoesik_2012
service
Deployment Activity
Caribbean nearshore: Mahahual, Mexico; Tuxpan, Mexico; Robet van; St. John; Wonderland Reef, Florida
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.
Are coral diseases contagious?
https://osprey.bco-dmo.org/project/562563
Are coral diseases contagious?
<p>Diseases are one of the greatest threats to corals in the Caribbean. Yet, very little is known about marine diseases in general and coral diseases in particular. Although some pathogens have been acknowledged, identifying coral pathogens has proven difficult and evasive. Presently, coral diseases are assumed to be both infectious and contagious, suggesting that infection is caused by pathogens being passed from colony to colony through a vector. However, few studies have tested this assumption. Spatial epidemiology, or disease mapping, can provide insight into whether diseases cluster and follow a contagious-disease model. In this study we will take a two tiered approach. First, we will use a hierarchical sampling design to test whether coral diseases follow a contagious-disease model over two spatial scales in the Caribbean. We will also undertake this study in locations with and without a recent history of frequent thermal stress to test the alternate hypothesis that coral diseases are not infectious and contagious but are instead the result of compromised coral hosts that have undergone thermal stress. Second, we will undertake transmission experiments to examine whether coral diseases are indeed transmissible.</p>
<p>The research will take place in the Caribbean, at four locations: (1) Mahahual, Mexico (latitude 18"42’N, longitude 87"42’W) and (2) Tuxpan, Mexico (latitude 21"01’N, longitude 97"11'W), (3) Bocas del Toro, Panama (latitude 9"12’N, longitude 82"09’W) and (4) St. John, United States Virgin Islands (USVI) (latitude 18"18’N, longitude 64"45’W).</p>
<p><strong>Intellectual merit</strong></p>
<p>There is a certain urgency to identify coral diseases, predict their prevalence, and determine whether they are infectious and contagious or non-communicable. By understanding the etiology of coral diseases, we can determine whether human intervention will help reduce their prevalence. Without understanding these processes, we will merely continue to measure disease, continue to look for pathogens that may not exist, and watch coral populations continue to deteriorate. Although microbes play a role in disease infection, many coral diseases might not be transmissible. Therefore, we may need to incorporate environmental threshold parameters, which may be more likely the underlying mechanisms driving coral-disease dynamics. The results will have important implications for modeling diseases and predicting contemporary and future coral disease outbreaks. </p>
<p><strong>Broader Impact</strong></p>
<p>The underlying assumption of most disease models is contagion, which is the transmission of pathogens from infected to susceptible hosts. This study will examine this basic assumption. If it turns out that coral diseases are a consequence of a two-step process, and the corals that are tolerant to temperature stress are also resistant to diseases, then making predictions based on temperature trends will be transformational, especially in rapidly warming, yet heterogeneous, oceans. The study will train students in the field of spatial epidemiology of coral diseases.</p>
Contagious coral diseases?
largerWorkCitation
project
eng; USA
oceans
Caribbean nearshore: Mahahual, Mexico; Tuxpan, Mexico; Robet van; St. John; Wonderland Reef, Florida
-97.284329
-64.6601
9.23201
21.54751
2012-07-03
2012-09-01
Caribbean
0
BCO-DMO catalogue of parameters from Locations and depths of sites used in coral disease mapping from the Caribbean in 2012 (Contagious coral diseases 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/658269.rdf
Name: site_location
Units: unitless
Description: <p>Location where samples were taken.</p>
http://lod.bco-dmo.org/id/dataset-parameter/658270.rdf
Name: site_number
Units: unitless
Description: <p>Site ID number.</p>
http://lod.bco-dmo.org/id/dataset-parameter/658271.rdf
Name: depth_max
Units: meters
Description: <p>Maximum depth of site where samples were taken.</p>
http://lod.bco-dmo.org/id/dataset-parameter/658272.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/658273.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/658274.rdf
Name: survey_date
Units: unitless
Description: <p>Date of survey; mm/dd/yy</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
4966
https://darchive.mblwhoilibrary.org/bitstream/1912/24129/1/dataset-658213_coral-disease-mapping-and-site-information__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.658213.1
download
onLine
dataset
<p>[Adapted from: Randall et al. 2014 Ecology 95(7) 1981-1994]&nbsp;&nbsp; &nbsp;</p>
<p>&nbsp;&nbsp; &nbsp;To assess the prevalence of coral diseases at each location, a survey area (1-10 km<span style="font-size:10.8333px">^2</span> depending on the region’s geographic features) of hard-bottom habitat was visually defined using <a href="http://earth.google.com/">Google Earth</a>. The survey area was divided into 100 by 100 meter cells (using Google Earth Path 1.4.4). Within each location, twenty-five 100 by 100 meter cells were randomly selected as sites. These sites were defined as the primary sampling units. A single 10 by 10 meter<sup> </sup>quadrat was haphazardly placed within each site, for field-data collection. To maintain consistency across locations and to minimize potential effects of coral-assemblage differences, three criteria had to be met for a site to be surveyed: (1) the depth averaged between 5 and 10 meters, (2) the substrate was hard bottom, and (3) corals were present. If any one of these criteria was not met at a given site, it was rejected and the next randomly generated site was selected. In total, twenty-five, 10 by 10 meter quadrats were sampled at each location, for a total of 50 quadrats across two frequent-anomaly locations and 50 quadrats across two reference locations, for a total survey area of 10,000 m<span style="font-size:10.8333px">^2</span>.&nbsp;</p>
<p>All four locations were surveyed between 2 July and 1 September 2012. At each site, divers surveyed each 100 m^2<sup>&nbsp;</sup>quadrat by systematically laying ten contiguous 1 x 10 m belt transects onto the reef substrate. Each coral colony with a disease sign was identified <em>in situ </em>and the species and disease signs were recorded. Four disease signs were identified: (1) white sign was defined as a bright, white band or patch of recent mortality adjacent to healthy-appearing tissue (i.e., the tissue bordered a well-defined edge of exposed skeleton not yet colonized by algae or other biofouling organisms) (<em>sensu</em> Bythell et al. 2004) , (2) dark spot was defined as tissue with purple, brown or black lesions, forming spots of irregular shapes (<em>sensu</em> Goreau et al. 1998), (3) black band was defined as a black band over the coral tissue exposing white skeleton with different stages of biofouling (<em>sensu</em> Richardson 2004), and (4) yellow sign was defined as a yellow discoloration of tissue forming a band or blotches (<em>sensu</em> Santavy et al. 1999). White signs and black bands were associated with recent tissue loss; yellow signs and dark spots were usually, but not always, associated with recent tissue loss. Notably, very few yellow bands were observed that followed the classical description (Reeves 1994). Instead, most coral colonies presented a patchy, non-uniform yellowing of the tissue; therefore the condition was termed ‘yellow sign.’ Additionally, any area of recently exposed white skeleton, which was not clearly caused by predation or a competitive interaction, was recorded as a white sign, including white plagues, white bands and white pox. The white-sign diseases were not differentiated because of similar- or identical-appearing signs, unknown etiologies for several diseases, and the possibility that the diseases were caused by the same pathogens (Bythell et al. 2004, Ainsworth et al. 2007). Coral colonies were occasionally recorded with two or more signs of disease, when those signs appeared to be spatially independent.</p>
<p><em>Disease mapping:</em></p>
<p>Four 100 m<span style="font-size:10.8333px">^2</span> quadrats per location were mapped in their entirety, for a total of eight 100 m<span style="font-size:10.8333px">^2</span> quadrats per temperature-stress level. Approximately 50 digital images were captured from each video-transect file using Free Video to JPG Converter v. 5.0.58 build 324. The digital images were stitched together using Adobe Photoshop&nbsp;CS5 v. 12.0, and ten 1–m by 10–m image mosaics were created for each 10 m by 10 m site. Each photo-mosaic was printed and, with the aid of the digital images and videos, the following data were measured and recorded for every coral colony within each site: (1) species, (2) spatial coordinates, (3) maximum diameter, (4) perpendicular diameter, (5) an estimate of percent partial mortality (0, &lt;5, 25, 50, 75, or &gt;95 %), and (6) ‘health’ status. Corals were identified as either healthy, or as having white signs, dark spots, black bands, yellow signs, or unknown signs of disease (as described above). Bleached or pale colonies also were recorded, and when multiple disease signs were present on an individual colony, both signs were recorded. Data from each site that was mapped are found in individual excel files in the folder called <em>Disease mapping site data files</em>.&nbsp;</p>
from Deployment: vanWoesik_2012 <p>Caribbean Region, 4 locations (5-15 m depth):</p>
<p>1) Mahahual, Mexico; 18.7 N, 87.7 W</p>
<p>2) Tuxpan, Mexico; 21.0 to 21.5 N, 97.2 W </p>
<p>3) St. John, U.S. Virgin Islands; 18.3 N, 64.7 W</p>
<p>4) Bocas del Toro, Panama; 9.3 N, 82.2 W</p>
Specified by the Principal Investigator(s)
<p>Only raw data, and data obtained from image mosaics&nbsp;are provided.</p>
<p><strong>Data Management Office Notes:</strong></p>
<p>- Commas and spaces removed. Spaces were replaced with underscores.<br />
- Reformatted column names to comply with BCO-DMO standards.</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: vanWoesik_2012
vanWoesik_2012
Caribbean_nearshore
shoreside
Caribbean_nearshore
shoreside