http://lod.bco-dmo.org/id/dataset/813210
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
2020-05-28
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Results of the quantification of symbiont cell numbers from 400 Acropora hyacinthus colonies subjected to experimental bleaching in the summer of 2018 in Palau.
2020-06-23
publication
2020-06-23
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-07-08
publication
https://doi.org/10.26008/1912/bco-dmo.813210.1
Stephen R. Palumbi
Stanford University
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: Palumbi, S. (2020) Results of the quantification of symbiont cell numbers from 400 Acropora hyacinthus colonies subjected to experimental bleaching in the summer of 2018 in Palau. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-06-23 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.813210.1 [access date]
Methods and Sampling: <p>These samples were collected according to the protocol published by Krediet et al. 2015: Article Rapid, Precise, and Accurate Counts of Symbiodinium Cells Using the Guava Flow Cytometer, and a Comparison to Other Methods</p>
<p>The samples that were analyzed for this study are 400 colonies of Acropora hyacinthus. Nubbins from each colony were experimentally bleached at temperatures of 34, 34.5 and 35 degrees Celsius as well as two control treatments (30 deg. C). These nubbins were then airbrushed and the resulting tissue slurry was preserved in RNAlater. Tissue dissociation and preparation for analysis on the Guava EasyCyte flow cytometer followed the protocol by Krediet et al. 2015.</p>
<p>Procedures followed Krediet et al. 2015 (above), with the exception that protein concentration was not measured.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1736736 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1736736
completed
Stephen R. Palumbi
Stanford University
831-655-6214
Hopkins Marine Station 120 Ocean View Blvd
Pacific Grove
CA
93950
USA
spalumbi@stanford.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Sample
Treatment
Temperature
Sample_ID
ALLEVENTS_Conc
SYMBIODINIUM_Conc
Number_of_Events
Cell_Count
Total_Volume
Acquisition_Time
Negative_Total_Count
Negative_Events
Negative_Sym_Conc
Negative_Cells
Negative_Total_Vol
Negative_Acquisition_Time
Guava easyCyte HT 2-laser flow cytometer (Millipore)
theme
None, User defined
sample identification
treatment
temperature of sample or a generic measurement (not in-situ water temp)
cell_concentration
count
volume
time_elapsed
featureType
BCO-DMO Standard Parameters
Flow Cytometer
instrument
BCO-DMO Standard Instruments
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.
Predicting the global location of heat tolerant corals: Palau patch reefs as a general model
https://osprey.bco-dmo.org/project/764077
Predicting the global location of heat tolerant corals: Palau patch reefs as a general model
<p><em>NSF Award Abstract:</em><br />
When coral reefs heat up just a few degrees above normal summer temperatures, a reaction called coral bleaching can occur in which single celled plants living inside coral cells are expelled. The coral turns from its normal tan color to bleached white, and because it is deprived of the normal food supply from its plant partner, most of these corals die. Yet, some corals naturally can survive high temperatures that cause others in the same species to bleach. Identifying where these heat tolerant corals are common would provide a general tool for protecting and restoring heat tolerant reefs. The investigators will conduct experiments on 30 patch reefs in Palau of very different sizes in two lagoons, record local temperatures for 400 corals, and test coral heat tolerance using a newly designed coral stress tank. Because large patch reefs generally heat up during daytime low tides, The investigators hypothesize that they are commonly home to heat resistant corals. They will also move heat tolerant corals to cooler locations to test the stability of heat resistance among corals. The stress tank technologies can be widely used in remote settings, and will provide a set of generalizable, practical tools for communities and managers to find and protect heat tolerant corals in reefs around the world. The work will advance undergraduate STEM education in California and Palau. A partnership with the Palau Community College will facilitate the engagement of Pacific Island communities and students. Students will receive interdisciplinary training in field research, genomics and bioinformatics and learn practical skills that will enable them to collect and interpret stress tank and temperature data. Broader outreach efforts will include the production and dissemination of a series of microdocumentaries and blog posts designed to bring the concept of a world-wide search for heat tolerant corals to a global audience.</p>
<p>Previous coral reef research has demonstrated that periodic high water temperatures can induce high heat tolerance in reef building corals through a combination of acclimation and selection at many genetic loci. Key questions include whether these kinds of heat tolerant habitats are common or rare, and whether their locations can be predicted by identifying coral reefs where daily temperature spikes regularly occur at low tide. This project will examine heat tolerance of 400 corals in the Acropora hyacinthus species complex across 30 patch reefs in Palau that experience variable temperature and flow profiles. This study will utilize a variety of methods to characterize spatial and temporal patterns of heat tolerance including: (1) the development of low-cost, portable heat stress tanks to quickly and affordably assess in situ conditions, (2) genomic assays of physiological condition to identify the genes and gene expression mechanisms that are responsible for heat tolerance, (3) high resolution temperature mapping to trace the role of temperature variation in producing stable, high temperature tolerance in reef building corals, and (4) reciprocal transplant experiments to evaluate whether heat resistant corals retain heat resistance when moved to cooler locations. This research will expand the geographic map of habitats with known heat tolerance, and expedite the ability to locate coral populations that may be most resistant to future ocean warming.</p>
Heat Tolerant Corals
largerWorkCitation
project
eng; USA
oceans
134.21919
134.66061
7.20388
7.92908
2018-07-01
2018-08-31
Palau
0
BCO-DMO catalogue of parameters from Results of the quantification of symbiont cell numbers from 400 Acropora hyacinthus colonies subjected to experimental bleaching in the summer of 2018 in Palau.
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/813531.rdf
Name: Sample
Units: dimensionless
Description: <p>Colony Number</p>
http://lod.bco-dmo.org/id/dataset-parameter/813532.rdf
Name: Treatment
Units: unitless
Description: <p>Treatment (C1 and C2 are control), all others are heat stress</p>
http://lod.bco-dmo.org/id/dataset-parameter/813533.rdf
Name: Temperature
Units: degrees Celsius
Description: <p>Specific Temperature treatment</p>
http://lod.bco-dmo.org/id/dataset-parameter/813534.rdf
Name: Sample_ID
Units: dimensionless
Description: <p>Unique sample ID (technical replicates have the same SampleID)</p>
http://lod.bco-dmo.org/id/dataset-parameter/813535.rdf
Name: ALLEVENTS_Conc
Units: cells/ml
Description: <p>Concentration (cells/ml) of events above gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813536.rdf
Name: SYMBIODINIUM_Conc
Units: cells/ml
Description: <p>Concentration (cells/ml) of events above gating threshold that are also above the symbiodinium gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813537.rdf
Name: Number_of_Events
Units: unitless
Description: <p>Number of events counted (max 5000)</p>
http://lod.bco-dmo.org/id/dataset-parameter/813538.rdf
Name: Cell_Count
Units: cells/ul
Description: <p>Concentration (cells/ul) of events above gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813539.rdf
Name: Total_Volume
Units: microliters
Description: <p>Total volume of sample measured in microliters</p>
http://lod.bco-dmo.org/id/dataset-parameter/813540.rdf
Name: Acquisition_Time
Units: seconds
Description: <p>Total acquisition time on instrument in seconds</p>
http://lod.bco-dmo.org/id/dataset-parameter/813541.rdf
Name: Negative_Total_Count
Units: various
Description: <p>Number of events above gating threshold in negative control</p>
http://lod.bco-dmo.org/id/dataset-parameter/813542.rdf
Name: Negative_Events
Units: cells/ml
Description: <p>Concentration of cells (cells/ml) in negative control above gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813543.rdf
Name: Negative_Sym_Conc
Units: various
Description: <p>Concentration of symbiont cells in negative control above gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813544.rdf
Name: Negative_Cells
Units: cell/ul
Description: <p>Concentration of cells (cells/ul) in negative control above gating threshold</p>
http://lod.bco-dmo.org/id/dataset-parameter/813545.rdf
Name: Negative_Total_Vol
Units: microliters
Description: <p>Total volume of negative control measured in microliters</p>
http://lod.bco-dmo.org/id/dataset-parameter/813546.rdf
Name: Negative_Acquisition_Time
Units: seconds
Description: <p>Total acquisistion time on instrument for negative control in seconds</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
461306
https://darchive.mblwhoilibrary.org/bitstream/1912/25944/1/dataset-813210_flow-cytometry-results__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.813210.1
download
onLine
dataset
<p>These samples were collected according to the protocol published by Krediet et al. 2015: Article Rapid, Precise, and Accurate Counts of Symbiodinium Cells Using the Guava Flow Cytometer, and a Comparison to Other Methods</p>
<p>The samples that were analyzed for this study are 400 colonies of Acropora hyacinthus. Nubbins from each colony were experimentally bleached at temperatures of 34, 34.5 and 35 degrees Celsius as well as two control treatments (30 deg. C). These nubbins were then airbrushed and the resulting tissue slurry was preserved in RNAlater. Tissue dissociation and preparation for analysis on the Guava EasyCyte flow cytometer followed the protocol by Krediet et al. 2015.</p>
<p>Procedures followed Krediet et al. 2015 (above), with the exception that protein concentration was not measured.</p>
Specified by the Principal Investigator(s)
<p>All data were processed with the software accompanying the Guava easyCyte flow cytometer.</p>
<p>BCO-DMO Data Manager Processing Notes:<br />
* added a conventional header with dataset name, PI name, version date<br />
* modified parameter names to conform with BCO-DMO naming conventions<br />
* Renamed column headers and set types<br />
* rounded decimal numbers to precision of 2<br />
* blank values in this dataset are displayed as "nd" for "no data." nd is the default missing data identifier in the BCO-DMO system.</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
Guava easyCyte HT 2-laser flow cytometer (Millipore)
Guava easyCyte HT 2-laser flow cytometer (Millipore)
PI Supplied Instrument Name: Guava easyCyte HT 2-laser flow cytometer (Millipore) Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument Description: Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/