Dataset: Water flow data from oyster reciprocal transplant experiment

Name: Water flow data from oyster reciprocal transplant experiment conducted at two sites in an estuary in NE Florida between July 2019 and April 2020
Published: 2022-10-16
Keywords: environmental gradients, hydrodynamics, resource supply, biota, oceans

View Data: Data not available yet

Cite This Dataset

Spatial Extent: N:29.77002 E:-81.2144 S:29.62923 W:-81.2641

Temporal Extent: 2019-08-19 - 2020-04-02

Project:

Collaborative research: Quantifying the influence of nonconsumptive predator effects on prey population dynamics (Predatory NCEs and Scale)

Principal Investigator:

David L. Kimbro (Northeastern University)

Co-Principal Investigator:

J. Wilson White (Oregon State University, OSU)

BCO-DMO Data Manager:

Dana Stuart Gerlach (Woods Hole Oceanographic Institution, WHOI BCO-DMO)

Version:

Version Date:

2022-10-16

Restricted:

Validated:

Current State:

Preliminary and in progress

Water flow data from oyster reciprocal transplant experiment conducted at two sites in an estuary in NE Florida between July 2019 and April 2020

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Methods & Sampling

A reciprocal transplant experiment was conducted at two sites in an estuary in NE Florida, USA that encompassed different environmental (salinity, aerial exposure) and biotic (predators) stressors. Juvenile oysters were reciprocally transplanted within and between the two locations within the Guana Tolomato Matanzas National Estuarine Research Reserve (GTMNERR)--the Butler site at 29.77002 N, -81.2641 W, and the Pellicer site at 29.62923 N, -81.2144 W. At each location, the home and away oyster ‘demes’ were randomly assigned between a predator exclosure and a control treatment.

To obtain site-specific information of water flow, a Nortek current profiler (Aquadopp Profiler 2MHz) was placed in a PVC stand and deployed in the water in front of the oyster reefs during the monthly oyster checks. The instrument was set with a blanking distance of 0.2m. The bin sizes were set 0.1m and 15 cells. The instrument recorded every minute except for two days (9/2/2018 and 9/4/2018) when the sampling interval was set to 30 seconds. The data was offloaded using AquaPro V1.37.08 and then converted to a Profile CSV. The .csv was uploaded into R and reorganized (see Processing Description).

Data Processing Description

Data processing
The data was offloaded using AquaPro V1.37.08 and then converted to a Profile CSV. The .csv file was uploaded into R and reorganized using the R code titled "Flowmeter_Processing.R", which is accessible from the Supplemental Files section below, along with the data files used for input.

Butler site Aquadopp raw data files:

RR.B0202.csv (time period: 2019-09-20 to 2019-11-12)
RR.BU01.csv (time period: 2019-12-01 to 2020-01-07)
Risk.B01.csv (time period: 2020-01-21 to 2020-01-31)
RiskB01.csv (time period: 2020-02-08 to 2020-03-04)
RR.301.csv (time period: 2020-03-06 to 2020-03-30)

Pellicer site Aquadopp raw data files:

RT.Pel01.csv (time period: 2019-08-19 to 2019-08-29)
RT.Pel03.csv (time period: 2019-10-02 to 2019-10-22)
RT.P201.csv (time period: 2019-11-06 to 2020-02-19)
RT.pel04.csv (time period: 2020-03-04 to 2020-04-02)

Both sites (Butler and Pellicer) have multiple raw data files because each logger deployment (time period) had specific processing steps that needed to be performed.

Readings that were underwater or included the surface of the water were used while the rest of the readings were not. This was done by adding 0.1 to the pressure sensor readings and then only including values less than the position of the cell. For example, if the pressure was 0.54m then the sort value would be 0.64. Cells with measured values of 0.5 and 0.6 would be included, but 0.7 would not.

Attitude sensor data (i.e. pitch, roll, and bearing) were used to correct for any motion or change in the instrument's position. Additional summary and statistics information can be found in the "rt_flow.csv" file, which includes the Date, Site, Speed (meters/second), and N (number of readings collected per deployment).

Problems/Issues
Aquadopp data was missing from:

Butler: June 2019;
Butler 3: November 2019;
Pellicer 1: January 2020 and Febuary 2020
Pellicer 3: January 2020 and February 2020;

Note: Pellicer 1 and Pellicer 3 are the same from September 2019 onward.

BCO-DMO Processing description:
- Converted dates to format (YYYY-MM-DD)
- Sorted by Site and DateTime
- Added columns for "Latitude" and "Longitude" based on geospatial bounds
- Added a conventional header with dataset name, PI names, version date

Supplemental Files

File
Flowmeter processing R script filename: Flowmeter_Processing.R (Comma Separated Values (.csv), 4.06 KB) MD5:806d00fc2990aa7e34e0404593215fc2 This Flowmeter processing script stitches together data from the AquaDopp instrument and compiles information into a long format with usable depths. Written by Adrienne Breef-Pilz (26 Oct 2022) and used for David Kimbro's reciprocal transplant experiment.
Flowmeter raw data for Butler site filename: Butler_AquaDopp_flowmeter_raw.zip (ZIP Archive (ZIP), 425.90 KB) MD5:3e2a6030ce1c4436672d27312216e063 Compressed folder of AquaDopp flowmeter raw data for the Butler site. The files are inputs to the Flowmeter_Processing_R_Script and are listed here with time periods of coverage: RR.B0202.csv (time period: 2019-09-20 to 2019-11-12) RR.BU01.csv (time period: 2019-12-01 to 2020-01-07) Risk.B01.csv (time period: 2020-01-21 to 2020-01-31) RiskB01.csv (time period: 2020-02-08 to 2020-03-04) RR.301.csv (time period: 2020-03-06 to 2020-03-30) The headings are DateTime, Battery, Heading, Pitch, Roll, Pressure, Temperature, AnalogIn1, AnalogIn2, Speed, and Direction. These last two parameters are repeated as needed for sampling.
Flowmeter raw data for Pellicer site filename: Pellicer_AquaDopp_flowmeter_raw.zip (ZIP Archive (ZIP), 465.73 KB) MD5:653beccbef204ca46b7bc3977aee2c25 Compressed folder of AquaDopp flowmeter raw data for the Pellicer site. The files are inputs to the Flowmeter_Processing_R_Script and are listed here with time periods of coverage: RT.Pel01.csv (time period: 2019-08-19 to 2019-08-29) RT.Pel03.csv (time period: 2019-10-02 to 2019-10-22) RT.P201.csv (time period: 2019-11-06 to 2020-02-19) RT.pel04.csv (time period: 2020-03-04 to 2020-04-02) The headings are DateTime, Battery, Heading, Pitch, Roll, Pressure, Temperature, AnalogIn1, AnalogIn2, Speed, and Direction. These last two parameters are repeated as needed for sampling.
Summary of water flow data from reciprocal transplant experiment filename: rt_flow.csv (Comma Separated Values (.csv), 259.51 KB) MD5:afc7d3df5bc1e571eeaa2de357546120 Water flow data from reciprocal transplant oyster experiment. Current meter summary data with date, site, speed, and number of readings collected per deployment.

More Information about this dataset

Funding Sources

Funding Source	Award Number
NSF Division of Ocean Sciences	OCE-1736943
NSF Division of Ocean Sciences	OCE-1820540

Deployments

None available yet

Instruments

Nortek Aquadopp Doppler current profiler

Supplied Name: Nortek current profiler (Aquadopp Profiler 2MHz)

Supplied Description:

To obtain site-specific information of water flow, a Nortek current profiler (Aquadopp Profiler 2MHz) was placed in a PVC stand and deployed in the water in front of the oyster reefs

Instrument Type

Generic Name: Nortek Aquadopp Doppler current profiler

Acronym: Aquadopp

Generic Description:

A family of self-contained Doppler current profilers, Nortek Aquadopp Profilers are often referred to as AquaPro instruments. They are designed for deployment on the seabed, moorings, buoys or fixed structures. They can feature a range of transducers - 400 kHz (60-90m range: 2-8m cell size), 600 kHz (30-40m range: 1-4m cell size), Z-cell 600 kHz, 1 MHz (12-25m range: 0.3-4m cell size), Z-cell 1MHz, 2 MHz (4-10m range:0.1-2m cell size) and side-looking. Each transducer has 3 beams and the instrument has a maximum of 128 cells. Current speeds up to 10 m/s may be measured at an accuracy of 1% of measured value ±0.5cm/s. The standard depth rating is 300 m with 3000 m or 600m versions available. Temperature (embedded thermistor with 0.1C accuracy and 0.01C resolution), compass (magnetometer with 2 degrees accuracy and 0.1 degree resolution providing tilt <20 degrees), tilt (liquid level with 0.2 degree accuracy and 0.1 degree resolution) and pressure (piezo resistive with accuracy of 0.5% full scale - usually 100m - and resolution of 0.005% full scale) sensors are provided as standard.

Parameters

None available yet

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Dataset: Water flow data from oyster reciprocal transplant experiment