http://lod.bco-dmo.org/id/dataset/786485
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
2020-01-08
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Photosystem II (PSII) photochemical efficiency (Yield PSII) recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) on corals from the species Orbicella faveolata, transplanted from Varadero and Rosario reefs, Colombia, May 2017
2020-01-08
publication
2020-01-08
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-03-04
publication
https://doi.org/10.1575/1912/bco-dmo.786485.1
Mónica Medina
Pennsylvania State University
principalInvestigator
Roberto Iglesias-Prieto
Pennsylvania State 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: Medina, M., Iglesias-Prieto, R. (2020) Photosystem II (PSII) photochemical efficiency (Yield PSII) recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) on corals from the species Orbicella faveolata, transplanted from Varadero and Rosario reefs, Colombia, May 2017. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-01-08 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.786485.1 [access date]
PSII coral transplants Dataset Description: <p>These are primary data of the PSII photochemical efficiency (Yield PSII) recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) in&nbsp;a reciprocal transplant experiment and on random colonies. The data reported&nbsp;here were obtained from coral fragments used in a transplant experiment.</p>
<p>The Varadero Reef is located south-west of the Cartagena Bay&nbsp;close to the southern strait that connects the Bay to the Caribbean Sea in Colombia (10°18’23.3”N, 75°35’08.0”W). The Bay is a receiving estuary from the Magdalena River through the Canal del Dique, a man-made channel whose construction and operation dates back almost a century. Three study sites with contrasting light regimes were considered in order to evaluate the role of the light-environment perturbation associated with the Dique channel freshwater plume on the photosynthetic performance of corals from Varadero: 1) Varadero reef at 3.5m depth close to the Dique channel mouth (10°18’23.3”N, 75°35’08.0”W), 2) Rosario reef at 12m depth as clear-control site 21 km southwest from Varadero (10°11'12.1"N, 75°44'43.0"W), and 3) Cartagena Bay at 3m depth, the closest site to the Dique channel mouth and most turbid among the three sites (10°18'5.80"N, 75°34'37.10"W).</p>
<p>These data were used in the manuscript “Degradation of the underwater light environment: physiological and ecological consequences for reef corals” submitted to the Journal Nature Communications Biology. [under review. 2019-12-28]</p> Methods and Sampling: <p>The Photosystem II (PSII) photochemical efficiency (Yield PSII) was recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) on corals from the species Orbicella faveolata.</p>
<p>Measurements were recorded on corals used in a reciprocal transplant experiment and on random colonies.&nbsp;Data from three study sites are reported: Varadero at 3.5m depth (10°18’23.3”N, 75°35’08.0”W); Rosario at 12m depth (10°11'12.1"N, 75°44'43.0"W); and Cartagena Bay at 3m depth (10°18'5.80"N, 75°34'37.10"W).&nbsp;Varadero and Rosario were both source and destination sites; Cartagena Bay was only a destination site.&nbsp;</p>
<p>The maximum quantum yield of PSII (Fv/Fm) was recorded at dusk and the effective quantum yield of PSII (ΔF/Fm’) at local noon during peak of sunlight exposure. Measurements were performed with a submergible Pulse Amplitud Modulated fluorometer (diving-PAM, Walz, Germany) on fragments used in a reciprocal transplant experiment and on colonies randomly distributed at similar depths compared to the transplant experiment. Three study sites with contrasting exposure to the Dique channel freshwater plume were considered: 1) Varadero reef at 3.5m depth close to the Dique channel mouth (10°18’23.3”N, 75°35’08.0”W), 2) Rosario reef at 12m depth as clear-control site located 21 km southwest of Varadero (10°11'12.1"N, 75°44'43.0"W), and 3) Cartagena Bay at 3m depth, the closest site to the Dique channel mouth (10°18'5.80"N, 75°34'37.10"W).</p>
<p>The software WinControl-3 was used to operate and download the data from the diving-PAM.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1642311 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1642311
completed
Mónica Medina
Pennsylvania State University
814-321-5684
326 Mueller
University Park
PA
16802
USA
momedinamunoz@gmail.com
pointOfContact
Roberto Iglesias-Prieto
Pennsylvania State University
814-777-0438
325 Mueller Lab
University Park
PA
16802
USA
rzi3@psu.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Date
Time
Type
Frag
Tag_color
Source_site
Destination_site
F
Fm_prime
Yield_PSII
Depth
ISO_DateTime_UTC
diving-PAM, Walz, Germany
theme
None, User defined
date
time of day
sample description
sample identification
site
Fv to Fm ratio
depth
ISO_DateTime_UTC
featureType
BCO-DMO Standard Parameters
Fluorometer
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.
RAPID: Coral robustness: lessons from an "improbable" reef
https://osprey.bco-dmo.org/project/717028
RAPID: Coral robustness: lessons from an "improbable" reef
<p><em>NSF Award Abstract:</em><br />
Coral reefs provide invaluable services to coastal communities, but coral populations worldwide are in a state of unprecedented decline. Studying resilient reefs is of primary importance for coral conservation and restoration efforts. A unique natural experiment in coral resilience to stress has been playing out in Cartagena Bay, Colombia since the Spanish conquistadors diverted the Magadalena River into the Bay in 1582. Varadero Reef at the southern mouth of the Bay has survived centuries of environmental insults and changing conditions with up to 80% coral cover. This reef provides an ideal system to test biological robustness theory. Given that Varadero is a highly perturbed system, we hypothesize that while likely more robust to perturbation than nearby pristine reefs, it will be less physiologically efficient. Some of the large star coral colonies (Orbicella faveolata) at this site have existed since before the construction of the Canal del Dique. These coral specimens contain invaluable information regarding the conditions of the Magdalena River wathershed and its construction in the XIV century. Changes in turbidity of the plume associated with the urban industrial and agricultural development of Colombia can be documented as variations in calcification rates and changes in the microstructure of the skeleton. The Colombian government has announced the approval for the construction of a shipping channel that will go right over this reef, with the goal to start dredging as early as Fall 2016 or early 2017. The RAPID funding mechanism would enable immediate collection of data and information of why this reef has survived centuries of environmental stress that can shed light on what genotype combinations of coral and its microbial constituents will fare better in similar conditions at other reef locations around the world. Coral reef conservation biology will benefit from this study by generating data for the development of stress diagnostic tools to identify resilient corals. This project will help broaden participation in science by training a diverse cohort of students to work effectively in the global arena while fostering productive collaborations with several Colombian researchers and educational institutions. Students will also gain cultural empathy and sensitivity through direct engagement with the members of society who are most directly impacted by coral reef degradation (e.g. fishermen). Student researchers from Penn State University will work alongside their Colombian counterparts to develop a series of bilingual blog posts to record the cultural and scientific aspects of this project's research expeditions. The blog postings will be submitted for wide dissemination to the Smithsonian's Ocean Portal where Penn State students have published in the past. An educational coral kit developed by the Medina Lab and extensively tested in schools in the US has been translated into Spanish and will be used in local schools in Cartagena and vicinities. All expedition data and metadata will be incorporated into the Global Coral Microbiome Project's interactive web portal, a responsive outreach tool allows researchers, students and/or teachers to access a wealth of information about every coral colony we sample and to virtually explore coral reefs around the world from any internet-enabled device.</p>
<p>This research will generate information to understand functional traits related to symbioses stability under different perturbation regimes. Comparative analyses of microbiome modifications generated during the reciprocal transplantation will allow us to document possible differential responses of the holobionts to acute and chronic stressors relative to corals not exposed to significant levels of perturbation. The development of local bio-optical models of coral calcification and the characterization of the coral holobiont will permit the distinction between the effects in calcification attributed to local turbidity from those that can be ;attributed to differences in host genotype and/or microbial community composition and function. The information recorded in coral skeletons can be used to reconstruct the rates of agricultural, industrial and urban development of Colombia through the last 5 centuries as changes in the turbidity of the effluent of the Magdalena River.</p>
Varadero Reef
largerWorkCitation
project
eng; USA
biota
oceans
-75.7453
-75.577
10.1867
10.3065
2017-05-20
2017-05-27
Caribbean Sea (10°18’10”N, 75°34’ 55”W)
0
BCO-DMO catalogue of parameters from Photosystem II (PSII) photochemical efficiency (Yield PSII) recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) on corals from the species Orbicella faveolata, transplanted from Varadero and Rosario reefs, Colombia, May 2017
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/786497.rdf
Name: Date
Units: unitless
Description: <p>sampling date</p>
http://lod.bco-dmo.org/id/dataset-parameter/786498.rdf
Name: Time
Units: unitless
Description: <p>sampling time</p>
http://lod.bco-dmo.org/id/dataset-parameter/786499.rdf
Name: Type
Units: unitless
Description: <p>type of measurement: ?F/Fm' (effective photochemical efficiency of Photosystem II measured at noon); Fv/Fm (maximum potochemical efficiency of Photosystem II measured at dusk)</p>
http://lod.bco-dmo.org/id/dataset-parameter/786500.rdf
Name: Frag
Units: unitless
Description: <p>coral fragment identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/786501.rdf
Name: Tag_color
Units: unitless
Description: <p>color of fragment tag</p>
http://lod.bco-dmo.org/id/dataset-parameter/786502.rdf
Name: Source_site
Units: unitless
Description: <p>location of coral source</p>
http://lod.bco-dmo.org/id/dataset-parameter/786503.rdf
Name: Destination_site
Units: unitless
Description: <p>location of coral destination</p>
http://lod.bco-dmo.org/id/dataset-parameter/786504.rdf
Name: F
Units: unitless
Description: <p>minimal Chl a fluorescence yield</p>
http://lod.bco-dmo.org/id/dataset-parameter/786505.rdf
Name: Fm_prime
Units: unitless
Description: <p>maximal Chl a fluorescence yield (= Fm when measured at dusk and Fm' when measured at noon)</p>
http://lod.bco-dmo.org/id/dataset-parameter/786506.rdf
Name: Yield_PSII
Units: unitless
Description: <p>maximum or effective photochemical efficiency of Photosystem II when measurement takes place at dusk (Fv/Fm) or at noon (?F/Fm') respectively</p>
http://lod.bco-dmo.org/id/dataset-parameter/786507.rdf
Name: Depth
Units: meters
Description: <p>sampling depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/786619.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>date and time formatted is ISO: yyyy-mm-ddTHH:MM:SSZ</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
12889
https://darchive.mblwhoilibrary.org/bitstream/1912/25473/1/dataset-786485_reciprocal-transplant-expt-psii-transplanted-corals__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.786485.1
download
onLine
dataset
<p>The Photosystem II (PSII) photochemical efficiency (Yield PSII) was recorded at noon (ΔF/Fm') and at dusk (Fv/Fm) on corals from the species Orbicella faveolata.</p>
<p>Measurements were recorded on corals used in a reciprocal transplant experiment and on random colonies.&nbsp;Data from three study sites are reported: Varadero at 3.5m depth (10°18’23.3”N, 75°35’08.0”W); Rosario at 12m depth (10°11'12.1"N, 75°44'43.0"W); and Cartagena Bay at 3m depth (10°18'5.80"N, 75°34'37.10"W).&nbsp;Varadero and Rosario were both source and destination sites; Cartagena Bay was only a destination site.&nbsp;</p>
<p>The maximum quantum yield of PSII (Fv/Fm) was recorded at dusk and the effective quantum yield of PSII (ΔF/Fm’) at local noon during peak of sunlight exposure. Measurements were performed with a submergible Pulse Amplitud Modulated fluorometer (diving-PAM, Walz, Germany) on fragments used in a reciprocal transplant experiment and on colonies randomly distributed at similar depths compared to the transplant experiment. Three study sites with contrasting exposure to the Dique channel freshwater plume were considered: 1) Varadero reef at 3.5m depth close to the Dique channel mouth (10°18’23.3”N, 75°35’08.0”W), 2) Rosario reef at 12m depth as clear-control site located 21 km southwest of Varadero (10°11'12.1"N, 75°44'43.0"W), and 3) Cartagena Bay at 3m depth, the closest site to the Dique channel mouth (10°18'5.80"N, 75°34'37.10"W).</p>
<p>The software WinControl-3 was used to operate and download the data from the diving-PAM.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- reformatted date from m/d/yy&nbsp; to yyyy-mm-dd<br />
- added ISO_DateTime_UTC column<br />
- changed delta symbol (Δ) to text 'delta'</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
diving-PAM, Walz, Germany
diving-PAM, Walz, Germany
PI Supplied Instrument Name: diving-PAM, Walz, Germany PI Supplied Instrument Description:An underwater Pulse Amplitude Modulated fluorometer (diving-PAM, Walz, Germany) was used to measure the PSII photochemical efficiency. Instrument Name: Fluorometer Instrument Short Name:Fluorometer Instrument Description: A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/113/