http://lod.bco-dmo.org/id/dataset/821783
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
2020-08-25
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Oysters size and presence or absence of disease at intertidal and subtidal reefs in Apalachicola Bay and Ocholckonee Bays, FL, July-August 2016
2020-07-29
publication
2020-07-29
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2020-10-05
publication
https://doi.org/10.26008/1912/bco-dmo.821783.1
David L. Kimbro
Northeastern University
principalInvestigator
Christopher D. Stallings
University of South Florida
principalInvestigator
J. Wilson White
Oregon 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: Kimbro, D. L., Stallings, C. D., White, J. W. (2020) Oysters size and presence or absence of disease at intertidal and subtidal reefs in Apalachicola Bay and Ocholckonee Bays, FL, July-August 2016. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-07-29 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.821783.1 [access date]
Survey disease status and sizes Dataset Description: <p>Oysters size and presence or absence of disease from surveys at intertidal and subtidal reefs in Apalachicola Bay and Ocholckonee Bays, Florida,&nbsp;July-August 2016</p> Methods and Sampling: <p>Site Selection- From Hanley et. al 2019, this was a multi-step process that first involved using ArcGIS to partition the bay’s oyster reefs (commercial and non-commercial) into six zones. Zone assignment was based on the reef’s relative distance by water from the river input (near, mid, far) as well as a reef’s east-west orientation to the river (East Apalachicola and West Apalachicola). Next, we randomly selected three reefs out of all possible reefs (including the experimental reefs) within each zone.</p>
<p>Surveys- Methods for surveys done from 2013-2016 were taken from Hanley et al. 2019.</p>
<p>Surveys 2013-2016: On each reef subtidal reef, we obtained spatially balanced samples by extending four 20 m transects at 90 degree angles from the boat. Along each transect, we overlaid a 0.25 m2&nbsp;weighted quadrat at the 5, 10, 15, and 20 m marks. For each quadrat, we collected the entire contents of the quadrat into a uniquely labeled mesh bag, transported the bag to the surface, and placed the bag on ice to be processed at the lab. For intertidal reefs, we sampled 2 quadrats per reef, ‘low’ (located at the low water level) and ‘high’ (2 m above the low transect) quadrats centered along a 20 m transect on each reef.</p>
<p>Lab Processing of samples collected during the survey:&nbsp;In the laboratory, we processed each quadrat sample to obtain the total mass (g), the size of the first 100 oysters encountered (not all samples contained 100 oysters), the density of all juvenile oysters (length &lt; 25 mm), the density of all adult oysters (length &gt; 25 mm), and the density of recently deceased oysters (valves intact and absence of sessile invertebrates within the internal shell cavity).&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1917015 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1917015
completed
David L. Kimbro
Northeastern University
617-373-2059
430 Nahant Rd.
Nahant
MA
01908
U.S.A.
d.kimbro@northeastern.edu
pointOfContact
Christopher D. Stallings
University of South Florida
727-553-3371
College of Marine Science 140 7th Avenue South
St Petersburg
FL
33701
US
stallings@usf.edu
pointOfContact
J. Wilson White
Oregon State University
will.white@oregonstate.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
reef_type
estuary
region
month_harvest
year_harvest
distance
reef
reef_name
Lat
Long
transect
quadrat
diseased
species
status
size_mm
YSI Pro 2030
theme
None, User defined
station_desc
region
month of year
year
station
latitude
longitude
transect
sample identification
flag
taxon_code
No BCO-DMO term
length
featureType
BCO-DMO Standard Parameters
Water Quality Multiprobe
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.
Collaborative Research: RAPID: Quantifying mechanisms by which Hurricane Michael facilitates a stable-state reversal on oyster reefs
https://osprey.bco-dmo.org/project/816537
Collaborative Research: RAPID: Quantifying mechanisms by which Hurricane Michael facilitates a stable-state reversal on oyster reefs
<p>NSF Award Abstract:</p>
<p>Ecosystems can exhibit "tipping points" whereby an environmental disturbance pushes an ecosystem into an altered state from which it does not recover, even when the environment normalizes. This may have happened to valuable oyster reefs in Northwest Florida in 2012, when drought and low river flow allowed predators of oysters to flourish and consume nearly all the oysters. Despite subsequent years of normal rainfall and river flow, oysters have not recovered, suggesting the ecosystem may have crossed a tipping point. However, the timing and magnitude of the disturbance from Hurricane Michael (2018) may have pushed the ecosystem back towards its original, healthy state. In this project, investigators make field observations to gauge how predators and oysters are responding to Hurricane Michael and conduct lab experiments to test how predators and oysters respond to hurricane rainfall conditions. Additionally, they use mathematical models to predict whether effects observed in the field and lab could lead to a shift back past the tipping point. This is a rare opportunity to study how oyster ecosystems can shift back from altered to healthy states. However, a rapid response is essential before seasonal changes in the weather and bay obscure hurricane impacts. This research has several broader impacts. First, it will expand the ecological theory of tipping points. Second, it can support the management of the Apalachicola Bay oyster fishery, such as insight into the likely success of restoration efforts. The team coordinates with the Apalachicola National Estuarine Research Reserve to this end. Finally, research outputs are incorporated into ongoing public education and training efforts.</p>
<p>
Ecosystems can rapidly shift from their original, high-value state to a new, degraded one. Such shifts have been observed in many ecosystems, but it is sometimes difficult to identify the mechanisms that mediate the shift beyond a "tipping point" and - to a greater extent - those that could mediate a shift back to the original state. Improving our understanding and predictive capability of tipping points depends on identifying the mechanisms that underlie bi-directional system shifts. In 2012, the oyster reefs of Apalachicola Bay, FL abruptly shifted into an oyster-less state when prolonged drought and low river flow allowed marine oyster predators to flourish. Despite subsequent years of normal rainfall and flow, there has not been a return shift, suggesting this ecosystem may have entered an alternate stable state. The hypothesis of this work is that in 2018 Hurricane Michael provided a sufficient disturbance to shift the system back into the attracting basin for its original state (prior observations support this prediction). This project couples field observations and lab experiments with population modeling to test whether and how Hurricane Michael initiated a reversal shift. A rapid response is essential before seasonal variability in this ecosystem obscures hurricane effects. The proposal's intellectual merit is based on its ability to address a central goal in ecology: identifying and predicting ecosystem tipping points. Combining empirical observations and models is a promising approach to advance this goal, but has not been widely applied in the field, mainly because researchers are not in place at the time of a shift. Hurricane Michael provides a unique opportunity to address this knowledge gap.</p>
<p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p>
Oyster Reef Reversal
largerWorkCitation
project
eng; USA
biota
oceans
-85.18216
-84.33401
29.6718
29.97037
2016-07-01
2016-08-31
Sub-tropic estuarine waters, subtidal and intertidal in Apalachicola Bay and Ocholckonee Bay
0
BCO-DMO catalogue of parameters from Oysters size and presence or absence of disease at intertidal and subtidal reefs in Apalachicola Bay and Ocholckonee Bays, FL, July-August 2016
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/825506.rdf
Name: reef_type
Units: unitless
Description: <p>subtidal or intertidal reef</p>
http://lod.bco-dmo.org/id/dataset-parameter/825507.rdf
Name: estuary
Units: unitless
Description: <p>name of the estuary: Apalachicola or Ocholckonee</p>
http://lod.bco-dmo.org/id/dataset-parameter/825508.rdf
Name: region
Units: unitless
Description: <p>east; west; or ochlockonee</p>
http://lod.bco-dmo.org/id/dataset-parameter/825509.rdf
Name: month_harvest
Units: unitless
Description: <p>month of harvest; 1 to 12</p>
http://lod.bco-dmo.org/id/dataset-parameter/825510.rdf
Name: year_harvest
Units: unitless
Description: <p>year of harvest; yyyy</p>
http://lod.bco-dmo.org/id/dataset-parameter/825511.rdf
Name: distance
Units: unitless
Description: <p>from the river: 1; 2; or 3. 1 is the closest and 3 is the furthest</p>
http://lod.bco-dmo.org/id/dataset-parameter/825512.rdf
Name: reef
Units: unitless
Description: <p>number of reef within reef.name categories</p>
http://lod.bco-dmo.org/id/dataset-parameter/825513.rdf
Name: reef_name
Units: unitless
Description: <p>name of reef</p>
http://lod.bco-dmo.org/id/dataset-parameter/825514.rdf
Name: Lat
Units: decimal degrees
Description: <p>latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/825515.rdf
Name: Long
Units: decimal degrees
Description: <p>longitude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/825516.rdf
Name: transect
Units: unitless
Description: <p>high/low for intertidal; C1/C2/S1/S2 for old reef sampling; N/E/S/W for more recent old sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/825517.rdf
Name: quadrat
Units: unitless
Description: <p>meter mark of the quadrat; refers to the location along a 20 meter transect at which point the Quadrat was deployed and the sample was taken. Usually the quadrats were deployed at 5 meter; 10 meter; 15 meter; and 20 meter marks on the transect tape.</p>
http://lod.bco-dmo.org/id/dataset-parameter/825518.rdf
Name: diseased
Units: unitless
Description: <p>disease status of the oysters measured in the associated transect/quadrat (yes/no)</p>
http://lod.bco-dmo.org/id/dataset-parameter/825519.rdf
Name: species
Units: unitless
Description: <p>species code for organisms found in quadrat; see Species Code supplemental data</p>
http://lod.bco-dmo.org/id/dataset-parameter/825520.rdf
Name: status
Units: unitless
Description: <p>status of the oyster; live or no data</p>
http://lod.bco-dmo.org/id/dataset-parameter/825521.rdf
Name: size_mm
Units: millimeters
Description: <p>size of oyster</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
53460
https://darchive.mblwhoilibrary.org/bitstream/1912/26279/1/dataset-821783_survey-disease-oysters__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.821783.1
download
onLine
dataset
<p>Site Selection- From Hanley et. al 2019, this was a multi-step process that first involved using ArcGIS to partition the bay’s oyster reefs (commercial and non-commercial) into six zones. Zone assignment was based on the reef’s relative distance by water from the river input (near, mid, far) as well as a reef’s east-west orientation to the river (East Apalachicola and West Apalachicola). Next, we randomly selected three reefs out of all possible reefs (including the experimental reefs) within each zone.</p>
<p>Surveys- Methods for surveys done from 2013-2016 were taken from Hanley et al. 2019.</p>
<p>Surveys 2013-2016: On each reef subtidal reef, we obtained spatially balanced samples by extending four 20 m transects at 90 degree angles from the boat. Along each transect, we overlaid a 0.25 m2&nbsp;weighted quadrat at the 5, 10, 15, and 20 m marks. For each quadrat, we collected the entire contents of the quadrat into a uniquely labeled mesh bag, transported the bag to the surface, and placed the bag on ice to be processed at the lab. For intertidal reefs, we sampled 2 quadrats per reef, ‘low’ (located at the low water level) and ‘high’ (2 m above the low transect) quadrats centered along a 20 m transect on each reef.</p>
<p>Lab Processing of samples collected during the survey:&nbsp;In the laboratory, we processed each quadrat sample to obtain the total mass (g), the size of the first 100 oysters encountered (not all samples contained 100 oysters), the density of all juvenile oysters (length &lt; 25 mm), the density of all adult oysters (length &gt; 25 mm), and the density of recently deceased oysters (valves intact and absence of sessile invertebrates within the internal shell cavity).&nbsp;</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><br />
- data submitted in Excel file "Apalachicola_Data_2013-2019_ABP_4.xlsx" sheet "Survey.Disease.Oysters" extracted to csv<br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- replaced missing data 'NA', 'na', 'Na', 'nA'&nbsp; with 'nd'<br />
- replaced 'y' and 'n' with 'yes' and 'no' to be consistent within dataset<br />
- joined this table with sheet "Reef Location" table in order to include lat/lon info<br />
- re-ordered columns<br />
- sorted rows by&nbsp;{reef_type}{estuary}{region}{distance}{reef}{reef_name}{transect}{quadrat}</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
YSI Pro 2030
YSI Pro 2030
PI Supplied Instrument Name: YSI Pro 2030 PI Supplied Instrument Description:Used to measure dissolved oxygen, temperature, salinity and pH. Instrument Name: Water Quality Multiprobe Instrument Short Name:Water Quality Multiprobe Instrument Description: An instrument which measures multiple water quality parameters based on the sensor configuration.