http://lod.bco-dmo.org/id/dataset/882097
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
2022-10-10
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys project)
2023-01-24
publication
2023-01-24
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2023-05-24
publication
https://doi.org/10.26008/1912/bco-dmo.882097.1
Mary Alice Coffroth
State University of New York at Buffalo
principalInvestigator
Margaret W. Miller
NOAA Southeast Fisheries Science Center
principalInvestigator
David Sheets
Canisius College
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: Coffroth, M. A., Miller, M. W., Sheets, D. (2023) Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-01-24 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.882097.1 [access date]
Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits Dataset Description: Methods and Sampling: <p><strong>Sampling and Analytical Methodology:&nbsp;</strong></p>
<p>Egg-sperm bundles were collected from adult colonies of <em>O. faveolata </em>following the techniques described by Miller (2014).&nbsp; Larvae were reared at a shore-based lab and settled onto terracotta tiles<em>.</em>&nbsp; Once the larvae had metamorphosed and attached to the tiles, they were outplanted onto the reef by attachment vertically to a PVC rack approximately 0.2 m above the substrate to allow uptake of algal symbionts. Tiles with recruits were sampled one to three months after outplanting, recruits removed from the tile and preserved individually in 95% ethanol for subsequent molecular analysis. DNA extraction followed Coffroth et al. (1992).&nbsp; &nbsp;&nbsp;Cp-23S genotypes of the algal symbionts within the genus <em>Breviolum</em> were characterized following the protocol of Santos et al. (2003).</p>
<p>&nbsp;</p>
<p><strong>Locations in the Florida Keys with Abbreviations</strong></p>
<ul>
<li>Alligator (AR)</li>
<li>Coral Garden (CG)</li>
<li>Cheeca Rocks (CR)</li>
<li>East Turtle (ET)</li>
<li>Grecian Rocks (GR)</li>
<li>Looe Key (LK)</li>
<li>Sand Island (SI)</li>
<li>Tennessee (TR)</li>
</ul>
<p>&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0926822 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0926822
completed
Mary Alice Coffroth
State University of New York at Buffalo
716-645-4871
Department of Geology 126 Cooke Hall
Buffalo
NY
14260
USA
Coffroth@buffalo.edu
pointOfContact
Margaret W. Miller
NOAA Southeast Fisheries Science Center
SECORE International, Inc.
Miami
Florida
33145
USA
margaret.w.miller@noaa.gov
pointOfContact
David Sheets
Canisius College
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sample_ID
Year
Spawn_site
Latitude_Spawn_site_decimal_degrees
Longitude_Spawn_site_decimal_degrees
Depth_m_Spawn_site
Outplant_Site
Latitude_outplant_site_decimal_degrees
Longitude_outplant_site_decimal_degrees
Depth_m_outplant site
CP_type
theme
None, User defined
sample identification
year
site
latitude
longitude
depth
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
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.
Ontogenic change in Cnidarian-algal symbioses: A genomic and ecologic perspective
https://osprey.bco-dmo.org/project/472478
Ontogenic change in Cnidarian-algal symbioses: A genomic and ecologic perspective
<p>PROJECT SUMMARY:<br />
The symbiosis between corals (Cnidaria:Hexacorallia:Scleractinia) and photosynthetic dinoflagellate symbionts (Alveolata: Dinophycea: Symbiodinium) provides the foundation and structure of the coral reef ecosystem, as well as significant contributions to global carbon and biogeochemical cycles. Given the importance of this symbiosis to the coral-algal holobiont and the reef ecosystem, understanding the mechanisms governing the establishment and long term maintenance of this symbiosis is essential. The overall aim of this project is to identify the mechanisms and selective processes that lead to the final assemblage of symbionts harbored by adult hosts. This question will be approached from two perspectives, ecologic and genomic, with the specific aims of determining (1) if different Symbiodinium strains differentially affect fitness of corals as the adult settles into a mature symbiosis (2) if competition among symbionts or environmental conditions contribute to the final host-symbiont pairing and (3) how host/symbiont transcriptomes varying as the symbiont community within a host is winnowed to the final assemblage found in the adult host. Traits that directly affect coral fitness (i.e. growth, survivorship, energy production) will be measured under different environmental conditions over the ontogeny of coral recruits that are experimentally infected with different types of Symbiodinium. Concurrently, high throughput gene expression profiling will be used to follow changes in gene expression between host and symbiont. Together, these data will be used to validate or falsify the hypotheses that the final symbiont assemblage found in the adult host is determined by (a) host selection (b) competition among symbionts and/or (c) environmental condition.</p>
<p>This study pools the expertise of two labs that have focused on these aspects of the symbiosis. The Coffroth lab pioneered the studies on early ontogeny of the symbiosis and symbiont diversity and will continue to take the lead in the ecological studies. The Medina lab is at the forefront in the development and utilization of genomic technology to study transcriptomic changes during the establishment and breakdown of the symbiosis. Furthermore, the Medina lab has the coral microarrays to be used in this study and in 2009 will also have oligo arrays for two Symbiodinium species based on 454 EST data. Although several groups have initial studies of the host transcriptome, none have combined an approach that examines the host and the symbiont in a single experiment. This will be a powerful approach as it will allow the investigators to track complementary changes in gene expression between host and symbiont and relate those to turnover in the symbiont community as the final symbiont complement is established.</p>
<p>The data resulting form the study will bridge an important gap in our understanding of the establishment and maintenance of coral-Symbiodinium symbiosis. Understanding the mechanism(s) regulating the establishment of the symbiosis will broaden our knowledge and help to predict the response of this symbiosis to future climate conditions. As in the past, the genomic tools (arrays, ESTs) will be made readily available to researchers via array distribution at cost, microarray analysis training, or sequence data, providing valuable resources to continue exploring these systems.</p>
<p>In conjunction the Aquarium of Niagara, Coffroth will develop educational and outreach programs to train and disseminate information on coral reefs to local area teachers and the general public. The Medina lab will continue to produce science and environment podcasts in multiple languages (English, Spanish and Hmong) with undergraduate students at UC Merced and will continue to collaborate with the California Academy of Sciences (CAS) in their coral reef outreach efforts. Additionally, this work will result in the training and mentoring of a postdoctoral fellow, at least one graduate student and at least 2 undergraduates. Through this project these students will have the opportunity to participate in research in both a lab and field setting, learning a range of ecological, molecular and algal culturing techniques. The extensive culture collection housed at the University at Buffalo is an important resource that is available to researchers worldwide which the proposed funding will help to maintain. Our EST annotations are publicly available through our EST database (<a href="http://montastraea.psu.edu/SymBioSys/" target="_blank">http://montastraea.psu.edu/SymBioSys/</a>).</p>
SymBioSys
largerWorkCitation
project
eng; USA
oceans
-81.4094
-80.2833
24.5449
25.1167
2009-01-01
2011-12-31
Florida Keys, Bahamas, Panama, Mexico
0
BCO-DMO catalogue of parameters from Breviolum symbiont CP23S genotypes in Orbicella faveolata recruits from 2009-2011 (SymBioSys 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/891069.rdf
Name: Sample_ID
Units: unitless
Description: <p>Identification of Orbicella faveolata recruit sampled</p>
http://lod.bco-dmo.org/id/dataset-parameter/891070.rdf
Name: Year
Units: unitless
Description: <p>Year in which sample was collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/891071.rdf
Name: Spawn_site
Units: unitless
Description: <p>Reef where egg-sperm bundles were collected from O. faveolata adult colonies; site of parental colonies. AR = Alligator; CG = Coral Garden; CR = Cheeca Rocks; ET = East Turtle; GR = Grecian Rocks; LK = Looe Key; SI = Sand Island; TR = Tennessee.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891072.rdf
Name: Latitude_Spawn_site_decimal_degrees
Units: decimal degrees
Description: <p>Latitude of reef where adult samples were taken in decimal degrees. A positive value indicates North.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891073.rdf
Name: Longitude_Spawn_site_decimal_degrees
Units: decimal degrees
Description: <p>Longitude of reef where adult samples were taken. A negative value indicates West.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891074.rdf
Name: Depth_m_Spawn_site
Units: meters (m)
Description: <p>Depth where adult colonies were located.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891075.rdf
Name: Outplant_Site
Units: unitless
Description: <p>Reef where newly settled recruits were outplanted. AR = Alligator; CG = Coral Garden; CR = Cheeca Rocks; ET = East Turtle; GR = Grecian Rocks; LK = Looe Key; SI = Sand Island; TR = Tennessee.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891076.rdf
Name: Latitude_outplant_site_decimal_degrees
Units: decimal degrees
Description: <p>Latitude of reef where samples were taken in decimal degrees. A positive value indicates North.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891077.rdf
Name: Longitude_outplant_site_decimal_degrees
Units: decimal degrees
Description: <p>Longitude of reef where samples were taken. A negative value indicates West.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891078.rdf
Name: Depth_m_outplant site
Units: meters (m)
Description: <p>Depth where newly settled recruits were outplanted.</p>
http://lod.bco-dmo.org/id/dataset-parameter/891079.rdf
Name: CP_type
Units: unitless
Description: <p>Fragment size of the hypervariable region of domain V of chloroplast large subunit rDNA (cp23S) allele</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
17513
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/e1eec5c8-2e6c-42af-91ca-b7b8054a72bd/content
download
https://doi.org/10.26008/1912/bco-dmo.882097.1
download
onLine
dataset
<p><strong>Sampling and Analytical Methodology:&nbsp;</strong></p>
<p>Egg-sperm bundles were collected from adult colonies of <em>O. faveolata </em>following the techniques described by Miller (2014).&nbsp; Larvae were reared at a shore-based lab and settled onto terracotta tiles<em>.</em>&nbsp; Once the larvae had metamorphosed and attached to the tiles, they were outplanted onto the reef by attachment vertically to a PVC rack approximately 0.2 m above the substrate to allow uptake of algal symbionts. Tiles with recruits were sampled one to three months after outplanting, recruits removed from the tile and preserved individually in 95% ethanol for subsequent molecular analysis. DNA extraction followed Coffroth et al. (1992).&nbsp; &nbsp;&nbsp;Cp-23S genotypes of the algal symbionts within the genus <em>Breviolum</em> were characterized following the protocol of Santos et al. (2003).</p>
<p>&nbsp;</p>
<p><strong>Locations in the Florida Keys with Abbreviations</strong></p>
<ul>
<li>Alligator (AR)</li>
<li>Coral Garden (CG)</li>
<li>Cheeca Rocks (CR)</li>
<li>East Turtle (ET)</li>
<li>Grecian Rocks (GR)</li>
<li>Looe Key (LK)</li>
<li>Sand Island (SI)</li>
<li>Tennessee (TR)</li>
</ul>
<p>&nbsp;</p>
Specified by the Principal Investigator(s)
<p><strong>Processing notes from researcher:</strong></p>
<ul>
<li>NA indicates "No Amp - did not amplify after multiple attempts"</li>
</ul>
<p><strong>BCO-DMO Processing Notes:&nbsp;</strong></p>
<ul>
<li>Special characters and spaces replaced by underscores ("_") in parameter names</li>
<li>Longitude and latitude are split into separate columns and converted to decimal degrees</li>
<li>Longitude and latitude values rounded to the 6th place</li>
</ul>
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