http://lod.bco-dmo.org/id/dataset/3718
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
2012-09-12
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Accession numbers for Labyrinthulomycetes detected in sea fans collected in the Florida Keys and Puerto Rico from 2006-2010 (Climate_CoralDisease project)
2012-09-12
publication
2012-09-12
revision
BCO-DMO Linked Data URI
2012-09-12
creation
http://lod.bco-dmo.org/id/dataset/3718
Drew Harvell
Cornell University
principalInvestigator
Laura Mydlarz
University of Texas at Arlington
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: Harvell, D., Mydlarz, L. (2012) Accession numbers for Labyrinthulomycetes detected in sea fans collected in the Florida Keys and Puerto Rico from 2006-2010 (Climate_CoralDisease project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 12 Sept 2012) Version Date 2012-09-12 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3718 [access date]
Accession numbers for Labyrinthulomycetes detected in sea fans Dataset Description: <p>Accession numbers to NCBI's GenBank are provided for <i>Labyrinthulomycetes</i> detected in sea fans collected in Florida and Puerto Rico. <b><br />
<br />
References:</b><br />
Burge CA, Douglas N, Conti-Jerpe I, Weil E, Roberts S, Friedman CS &amp; CD Harvell. In press (May 2012) Friend or foe: the association of Labyrinthulomycetes with the Caribbean sea fan, <i>Gorgonia ventalina</i>. Dis Aquat Org.</p> Methods and Sampling: <p><b>Sampling and Analytical Methodology:</b><br />
Healthy and diseased sea fans were collected from Florida and Puerto Rico. <i> Labyrinthulomycetes</i> cells were isolated from a diseased sea fan from Florida; DNA extracted, amplified, cloned, sequenced, and deposited with accession # JQ248602. Fragments of healthy and diseased sea fans were extracted, amplified, cloned and sequenced under accession numbers JQ248603 (Florida), JQ248604 (Florida), JQ248605 (Puerto Rico), and JQ248606 (Puerto Rico).</p>
<p>Labyrinthulomycota small-subunit ribosomal DNA (SSU rRNA) specific primers, Laby-A and Laby-Y, were used (Stokes et al., 2002). Those containing bands of the expected (~ 430 bp) size were purified using the QIAquick PCR kit (Qiagen,) and sent to the Cornell University Life Sciences Core Laboratories for direct sequencing on an Applied Biosystems Automated 3730 DNA Analyzer. Although direct sequencing of all of the PCR products showed unambiguous DNA chromatographs throughout, the homogeneity of samples was additionally confirmed by cloning the PCR products into the TOPO-TA vector, using the TOPO TA cloning kit (Invitrogen) for sequencing of 2 to 5 clones of each isolate.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0849776 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0849776
completed
Drew Harvell
Cornell University
607-254-4274
373 Pine Tree Road E321 Corson Hall
Ithaca
NY
14853
United States
cdh5@cornell.edu
pointOfContact
Laura Mydlarz
University of Texas at Arlington
817-272-0397
501 S. Nedderman Dr. 337 Life Sciences Building
Arlington
TX
76013
United States
mydlarz@uta.edu
pointOfContact
asNeeded
Dataset Version: 12 Sept 2012
Unknown
site
lat
lon
sequence_name
accession_number
Automated DNA Sequencer
theme
None, User defined
site
latitude
longitude
No BCO-DMO term
accession number
featureType
BCO-DMO Standard Parameters
Automated DNA Sequencer
instrument
BCO-DMO Standard Instruments
Coral_Dive_HM
service
Deployment Activity
Florida Keys and Puerto Rico
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.
Influence of Temperature and Acidification on the Dynamics of Coral Co-Infection and Resistance
https://osprey.bco-dmo.org/project/2232
Influence of Temperature and Acidification on the Dynamics of Coral Co-Infection and Resistance
<p>This award is funded under the American Recovery and Reinvestment Act of 2009 (Public Law 111-5).</p>
<p>Coral reef ecosystems are highly endangered by recent increases in temperature and by projected increases in ocean acidification. Although temperature has been identified as a driver of some coral disease outbreaks, nothing is known about direct effects of acidification on host immunity and pathogen virulence, or the potential for synergism with temperature. Natural coral populations often suffer from simultaneous infection by multiple pathogens that can also influence host immune responses, but co-infection dynamics have not been investigated in invertebrate systems lacking classical adaptive immunity. Changing climate will very likely influence the outcome of single and co-infection.</p>
<p>This project will investigate the influence of environmental stress on co-infection dynamics of the sea fan coral, <i>Gorgonia ventalina</i>, with a fungal pathogen, <i>Aspergillus sydowii</i> and a protist parasite, SPX. The goal is to identify the mechanisms through which multiple infections, temperature and acidification modify host resistance, leading to changes in within- and among-colony rates of disease spread.</p>
<p>The objectives of this project are to:<br />
(1) Identify incidence and co-infection frequency of <i>Aspergillus sydowii</i> and SPX. Detailed field surveys of the two diseases will test the hypothesis that co-infection is significant, provide valuable information about drivers of aspergillosis, and will help to characterize an emerging new sea fan disease.<br />
(2) Investigate how co-infection influences sea fan susceptibility, resistance, and within host disease dynamics. Through manipulative lab inoculation experiments we will test the hypothesis that single infections increase susceptibility to a second pathogen.<br />
(3) Examine the effects of temperature increase and ocean acidification on pathogen virulence, on underlying host resistance, and on the dynamics of single and co-infections.</p>
<p>The hypotheses that acidification will increase pathogen virulence and host susceptibility will be tested in a temperature and pH controlled experimental system. This system will also allow the potential synergistic effects of temperature and acidification on host immunity and co-infection dynamics to be explored. The primary intellectual merit of the proposed work will be a greater understanding of how changing climate mediates co-infection and immunity in a non-model invertebrate. While fungal pathogens are primarily opportunistic, labyrinthulid protozoans are recognized as primary pathogens in shellfish. Even in shellfish, little is known about co-infections involving labyrinthulids, and these protists are entirely unstudied in corals.</p>
<p><b>Publications associated with this project:</b><br />
Burge CA, Douglas N, Conti-Jerpe I, Weil E, Roberts S, Friedman CS & CD Harvell. (May 2012) Friend or foe: the association of<i> Labyrinthulomycetes</i> with the Caribbean sea fan,<i> Gorgonia ventalina</i>. Dis Aquat Org. 101:1-12. doi: <a href="http://dx.doi.org/10.3354/dao02487" target="_blank">10.3354/dao02487</a></p>
<p>Burge CA, Mouchka, ME, Harvell, CD & S Roberts. (In review) Immune response of the Caribbean sea fan, <i>Gorgonia ventalina</i> exposed to an <i>Aplanochytrium</i> parasite as revealed by transcriptome sequencing.</p>
Climate_CoralDisease
largerWorkCitation
project
eng; USA
oceans
Florida Keys and Puerto Rico
2012-09-12
Florida Keys & Puerto Rico
0
BCO-DMO catalogue of parameters from Accession numbers for Labyrinthulomycetes detected in sea fans collected in the Florida Keys and Puerto Rico from 2006-2010 (Climate_CoralDisease 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/29557.rdf
Name: site
Units: text
Description: <p>Name of the reef where the sample was collected.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29558.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude of the collection site. North = positive.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29559.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude of the collection site. West = negative.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29560.rdf
Name: sequence_name
Units: text
Description: <p>Name of the sequence/sample.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29561.rdf
Name: accession_number
Units: unitless
Description: <p>Assigned accession number and link to GenBank.</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
844
https://datadocs.bco-dmo.org/file/M77Xq4Xi3oj3E/sea_fan_parasite_seq.csv
sea_fan_parasite_seq.csv
Primary data file for dataset ID 3718
download
https://osprey.bco-dmo.org/dataset/3718/data/download
download
onLine
dataset
<p><b>Sampling and Analytical Methodology:</b><br />
Healthy and diseased sea fans were collected from Florida and Puerto Rico. <i> Labyrinthulomycetes</i> cells were isolated from a diseased sea fan from Florida; DNA extracted, amplified, cloned, sequenced, and deposited with accession # JQ248602. Fragments of healthy and diseased sea fans were extracted, amplified, cloned and sequenced under accession numbers JQ248603 (Florida), JQ248604 (Florida), JQ248605 (Puerto Rico), and JQ248606 (Puerto Rico).</p>
<p>Labyrinthulomycota small-subunit ribosomal DNA (SSU rRNA) specific primers, Laby-A and Laby-Y, were used (Stokes et al., 2002). Those containing bands of the expected (~ 430 bp) size were purified using the QIAquick PCR kit (Qiagen,) and sent to the Cornell University Life Sciences Core Laboratories for direct sequencing on an Applied Biosystems Automated 3730 DNA Analyzer. Although direct sequencing of all of the PCR products showed unambiguous DNA chromatographs throughout, the homogeneity of samples was additionally confirmed by cloning the PCR products into the TOPO-TA vector, using the TOPO TA cloning kit (Invitrogen) for sequencing of 2 to 5 clones of each isolate.</p>
Specified by the Principal Investigator(s)
<p>The BLAST algorithm (Altschul et al.1990) was used to compare resulting sequences (overlapping 398 nt from Florida samples and 292 nt from Puerto Rico samples) with those deposited in the National Center for Biotechnology Information (NCBI) GenBank database, and alignments were made using the EMBL-EBI Clustal W tool (Larkin et al. 2007, Goujan et al. 2010). Representative sequences from the cultured microorganism and sea fan isolates were submitted to GenBank.</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
Automated DNA Sequencer
Automated DNA Sequencer
PI Supplied Instrument Name: Automated DNA Sequencer PI Supplied Instrument Description:Direct sequencing was performed at the Cornell University Life Sciences Core Laboratories on an Applied Biosystems Automated 3730 DNA Analyzer Instrument Name: Automated DNA Sequencer Instrument Short Name:Automated Sequencer Instrument Description: A DNA sequencer is an instrument that determines the order of deoxynucleotides in deoxyribonucleic acid sequences.
Deployment: Coral_Dive_HM
Coral_Dive_HM
shoreside PR_Keys_Reef
dock
Coral_Dive_HM
Drew Harvell
Cornell University
shoreside PR_Keys_Reef
dock