http://lod.bco-dmo.org/id/dataset/821071
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
2020-08-17
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Surveys of inhabitants on the intertidal and subtidal oyster reef in Apalachicola Bay and Ocholckonee Bay, FL, 2013-2019
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.821071.1
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) Surveys of inhabitants on the intertidal and subtidal oyster reef in Apalachicola Bay and Ocholckonee Bay, FL, 2013-2019. 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.821071.1 [access date]
Survey totals Dataset Description: <p>Surveys of inhabitants on the intertidal and subtidal oyster reef in Apalachicola Bay and Ocholckonee Bay, Florida, 2013-2019. This data includes the total numbers of adults, spat, live oysters, new and old gapers, and whether mussels,&nbsp;barnacles crabs, or gastropods were present.</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>Surveys 2019- Sites were selected from previously sampled reefs. Subtidal surveys were conducted by divers on SCUBA. A buoy was dropped at the sites. The divers attached a 10m transect to the buoy and surveyed the area in the four cardinal directions (North, South, East and West). We characterized the substrate 0.5m on each side of the transect as mud, sand or shell hash, as well as quantified the amount of oyster shells and counted the number of Oyster Drills (Stramonita haemastoma). If there were oysters or shells at meter 5 or meter 10 along the transect then everything in a 0.25m2 quadrat was collected and processed at the lab. We only sampled the intertidal sites in December 2019. We laid a transect across the crest of the reef and then divided the length of the transect by 7 to get a consistent sampling interval. At each sampling interval we recorded the width of the sampling side and then placed a 0.0625m2 quadrat at the midpoint of the sampling width and collected all the contents to be brought back to the lab and processed.</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
distance
harvest_date
reef_name
reef
transect
quadrat
latitude
longitude
process_date
days_til_process
processed
wt_samp_kg
total_adults
total_spat
total_live
total_newg
total_oldg
muss_present
barn_present
transect_stone_crab_burrows
transect_blue_crab
transect_drills
transect_conch
transect_gastropod
visibility_m
notes
pred_notes
lat_long_notes
data_notes
Seabird SBE 19plus V2
YSI Pro 2030
theme
None, User defined
station_desc
region
date_local
station
transect
sample identification
latitude
longitude
time_elapsed
sample description
weight
count
flag
No BCO-DMO term
comments
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird SBE SEACAT 19plus
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
-85.18346
-84.33371
29.64192
29.9668
2013-01-10
2019-12-17
Sub-tropic estuarine waters, subtidal and intertidal in Apalachicola Bay and Ocholckonee Bay
0
BCO-DMO catalogue of parameters from Surveys of inhabitants on the intertidal and subtidal oyster reef in Apalachicola Bay and Ocholckonee Bay, FL, 2013-2019
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/825431.rdf
Name: reef_type
Units: unitless
Description: <p>whether reef is subtidal or intertidal</p>
http://lod.bco-dmo.org/id/dataset-parameter/825432.rdf
Name: estuary
Units: unitless
Description: <p>name of the estuary: Apalachicola or Ocholckonee</p>
http://lod.bco-dmo.org/id/dataset-parameter/825433.rdf
Name: region
Units: unitless
Description: <p>region: east/west/Ochlockonee</p>
http://lod.bco-dmo.org/id/dataset-parameter/825434.rdf
Name: distance
Units: unitless
Description: <p>distance from the river: zone 1 or 2 or 3. 1 is the closest and 3 is the furthest from freshwater input</p>
http://lod.bco-dmo.org/id/dataset-parameter/825435.rdf
Name: harvest_date
Units: unitless
Description: <p>date sample was collected; formatted as yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/825436.rdf
Name: reef_name
Units: unitless
Description: <p>name of reef</p>
http://lod.bco-dmo.org/id/dataset-parameter/825437.rdf
Name: reef
Units: unitless
Description: <p>reef identifier within reef_name categories</p>
http://lod.bco-dmo.org/id/dataset-parameter/825438.rdf
Name: transect
Units: unitless
Description: <p>transect identifier: high/low for intertidal; C1/C2/S1/S2 for old reef sampling; N/E/S/W for 2015 sampling; 0/130/240 for 2016 sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/825439.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 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/825440.rdf
Name: latitude
Units: decimal degrees
Description: <p>latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/825441.rdf
Name: longitude
Units: decimal degrees
Description: <p>longitude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/825442.rdf
Name: process_date
Units: unitless
Description: <p>date sample was processed; formatted as yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/825443.rdf
Name: days_til_process
Units: days
Description: <p>days between collection and processing</p>
http://lod.bco-dmo.org/id/dataset-parameter/825444.rdf
Name: processed
Units: unitless
Description: <p>whether the collected sample was processed or not (yes/no)</p>
http://lod.bco-dmo.org/id/dataset-parameter/825445.rdf
Name: wt_samp_kg
Units: kilograms
Description: <p>sample weight</p>
http://lod.bco-dmo.org/id/dataset-parameter/825446.rdf
Name: total_adults
Units: oysters
Description: <p>total number of adults. Oysters 25mm or greater</p>
http://lod.bco-dmo.org/id/dataset-parameter/825447.rdf
Name: total_spat
Units: oysters
Description: <p>total number of spat. Oysters less than 25mm</p>
http://lod.bco-dmo.org/id/dataset-parameter/825448.rdf
Name: total_live
Units: oysters
Description: <p>total number of live oysters</p>
http://lod.bco-dmo.org/id/dataset-parameter/825449.rdf
Name: total_newg
Units: oysters
Description: <p>total number of new gapers</p>
http://lod.bco-dmo.org/id/dataset-parameter/825450.rdf
Name: total_oldg
Units: oysters
Description: <p>total number of old gapers</p>
http://lod.bco-dmo.org/id/dataset-parameter/825451.rdf
Name: muss_present
Units: unitless
Description: <p>whether mussels were present: yes/no</p>
http://lod.bco-dmo.org/id/dataset-parameter/825452.rdf
Name: barn_present
Units: unitless
Description: <p>whether barnacles were present: yes/no</p>
http://lod.bco-dmo.org/id/dataset-parameter/825453.rdf
Name: transect_stone_crab_burrows
Units: burrows
Description: <p>number of stone crabs counted along the transect; only one observation per transect (not per quadrat) so value was assigned to quadrat 5 for each transect for all subtidal reefs; and the first quadrat meter mark for low & high transects at intertidal reefs</p>
http://lod.bco-dmo.org/id/dataset-parameter/825454.rdf
Name: transect_blue_crab
Units: blue crabs
Description: <p>number of blue crabs counted along the transect; only one observation per transect (not per quadrat) so value was assigned to quadrat 5 for each transect for all subtidal reefs; and the first quadrat meter mark for low & high transects at intertidal reefs</p>
http://lod.bco-dmo.org/id/dataset-parameter/825455.rdf
Name: transect_drills
Units: oyster drills
Description: <p>number of oyster drills counted along the transect; only one observation per transect (not per quadrat) so value was assigned to quadrat 5 for each transect for all subtidal reefs; and the first quadrat meter mark for low & high transects at intertidal reefs</p>
http://lod.bco-dmo.org/id/dataset-parameter/825456.rdf
Name: transect_conch
Units: conch
Description: <p>number of conch counted along the transect; only one observation per transect (not per quadrat) so value was assigned to quadrat 5 for each transect for all subtidal reefs; and the first quadrat meter mark for low & high transects at intertidal reefs</p>
http://lod.bco-dmo.org/id/dataset-parameter/825457.rdf
Name: transect_gastropod
Units: gastropods
Description: <p>conch and drills along the transect were identified in 2016 only. So for 2016; transect_gastropod is the sum of transect_drills and transect_conch; for all other years transect_gastropod is the count of all gastropods observed on the transect (species not id'd or limited to drill and conch)</p>
http://lod.bco-dmo.org/id/dataset-parameter/825458.rdf
Name: visibility_m
Units: meters
Description: <p>distance visible along underwater transect</p>
http://lod.bco-dmo.org/id/dataset-parameter/825459.rdf
Name: notes
Units: unitless
Description: <p>notes from a previous data file</p>
http://lod.bco-dmo.org/id/dataset-parameter/825460.rdf
Name: pred_notes
Units: unitless
Description: <p>if there were oddities in the predator data; a note was made here</p>
http://lod.bco-dmo.org/id/dataset-parameter/825461.rdf
Name: lat_long_notes
Units: unitless
Description: <p>notes about discrepancies or oddities that were found in the data and a decision about which lat/long to use</p>
http://lod.bco-dmo.org/id/dataset-parameter/825462.rdf
Name: data_notes
Units: unitless
Description: <p>if there were oddities in the data; a note was made here</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
362155
https://darchive.mblwhoilibrary.org/bitstream/1912/26276/1/dataset-821071_oyster-reef-survey-totals__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.821071.1
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>Surveys 2019- Sites were selected from previously sampled reefs. Subtidal surveys were conducted by divers on SCUBA. A buoy was dropped at the sites. The divers attached a 10m transect to the buoy and surveyed the area in the four cardinal directions (North, South, East and West). We characterized the substrate 0.5m on each side of the transect as mud, sand or shell hash, as well as quantified the amount of oyster shells and counted the number of Oyster Drills (Stramonita haemastoma). If there were oysters or shells at meter 5 or meter 10 along the transect then everything in a 0.25m2 quadrat was collected and processed at the lab. We only sampled the intertidal sites in December 2019. We laid a transect across the crest of the reef and then divided the length of the transect by 7 to get a consistent sampling interval. At each sampling interval we recorded the width of the sampling side and then placed a 0.0625m2 quadrat at the midpoint of the sampling width and collected all the contents to be brought back to the lab and processed.</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.totals" 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'&nbsp; and 'not entered in origiNAl data'&nbsp;with 'nd'<br />
- changed commas in the notes columns to semicolons<br />
- joined this table with sheet "Reef Location" table in order to include lat/lon info<br />
- re-formatted 'harvest_date' and 'process_date'&nbsp;from m/d/yyyy to yyyy-mm-dd<br />
- re-ordered columns<br />
- sorted rows by&nbsp;{reef_type}{estuary}{region}{distance}{harvest_date}{reef_name}{reef}{transect}{quadrat}</p>
<p>&nbsp;</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
Seabird SBE 19plus V2
Seabird SBE 19plus V2
PI Supplied Instrument Name: Seabird SBE 19plus V2 PI Supplied Instrument Description:Used to measure conductivity, temperature, and pressure and with auxiliary sensors, measures dissolved oxygen, pH, turbidity, fluorescence, oil, PAR, nitrates, altimeter, etc. Instrument Name: CTD Sea-Bird SBE SEACAT 19plus Instrument Short Name:Sea-Bird SEACAT 19 Plus Instrument Description: Self contained self powered CTD profiler. Measures conductivity, temperature and pressure in both profiling (samples at 4 scans/sec) and moored (sample rates of once every 5 seconds to once every 9 hours) mode. Available in plastic or titanium housing with depth ranges of 600m and 7000m respectively. Minature submersible pump provides water to conductivity cell.
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.