http://lod.bco-dmo.org/id/dataset/669348
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
2016-12-08
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Water and oxygen metabolism flux data from two tidal creeks on Plum Island, Massachusetts during 2012.
2016-12-08
publication
2016-12-08
revision
BCO-DMO Linked Data URI
2016-12-08
creation
http://lod.bco-dmo.org/id/dataset/669348
Rachel H. R. Stanley
Wellesley College
principalInvestigator
Amanda Spivak
Woods Hole Oceanographic Institution
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: Stanley, R. H. R., Spivak, A. (2016) Water and oxygen metabolism flux data from two tidal creeks on Plum Island, Massachusetts during 2012. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2016-12-08 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/669348 [access date]
Data on two tidal creeks, water fluxes, and oxygen metabolism flux. Dataset Description: <p>Two tidal creeks O2, S, T, water fluxes, and O2 metabolism flux.</p> Methods and Sampling: <p>Water quality measurements are made using two YSI 6-series water quality&nbsp;data logging&nbsp;sonde. maintained by the TIDE project at PIE-LTER. YSI Sonde sensors consist of Clark-type potentiometric Oxygen probe, a conductivity/temperature probe (thermistor) .</p>
<p>Data has been screened for obviously wrong data, including a period in the fertilized creek (Sweeney Right)&nbsp; during which the oxygen probe was buried by mud from a collapsed creek bank. Other than this period, conductivity readings did not indicate any blockages that might affect data quality. Oxygen saturation state (the measured variable using this type of sensor, not concentration) had a linear, time-dependent drift that was similar in each creek based on comparison with high precision handheld sondes (YSI ProDO). Oxygen saturation states were detrended, and then resulting saturation states converted to&nbsp;molal&nbsp;concentration using the oxygen solubility function of Garcia and Gordon 1992 (doi:&nbsp;<a href="http://onlinelibrary.wiley.com/doi/10.4319/lo.1992.37.6.1307/abstract" target="_blank">10.4319/lo.1992.37.6.1307</a> and 1993 erratum).</p>
<p>Typical sensor/data problems are:</p>
<ul>
<li>For oxygen: Poor/inaccurate conductivity measurements will affect the dissolved oxygen accuracy, tears, nicks, or other wear on the oxygen selective membrane used on the Clark-type electrode.</li>
<li>For conductivity: Conductivity cell can have detrital material stuck in it, shorting out cell, resulting in lower than expected conductivity.</li>
<li>For depth: Depth strain gage pressure sensor may come out of the water at low tides resulting in many "zero" depth readings or sometimes negative values.</li>
</ul>
<p>YSI Dissolved oxygen % saturation reporting can vary depending upon how the&nbsp; oxygen is calibrated.</p>
<p>For this data Oxygen percent saturation values is reported as DO%YSI at 1 ATM&nbsp;pressure&nbsp;relative to water-saturated air&nbsp;calibration,&nbsp;and&nbsp;additionally as DO%recalc, after detrending. Resulting metabolic fluxes are calculated from resulting oxygen concentrations relative to&nbsp;the saturation concentration at local atmospheric pressure (which in this case varies by less than 2% and can be neglected relative to much larger errors in advective and air-water transfer&nbsp; rates.</p>
<p>Water depth is logged in each creek using a HOBO U20 titanium water depth loggers rated to 30 ft, and combined with 2011 creek&nbsp; geometry transects by Will Kearney (Sergio&nbsp;Fagherazzi's&nbsp;group at BU) in order to calculate&nbsp;cross-sectional areas as well as surface areas through which air-water gas exchange occurs, and tidal exchange of creek water between timesteps.&nbsp; Windspeed&nbsp; from the cited additional database (the Marshview meteorology tower) is scaled to u10 using the wind profile power law approximation. Wind and estimated current velocities are used with a&nbsp;windspeed&nbsp;parameterization to calculate the air-water&nbsp;exchange&nbsp;coefficient of oxygen (kO2) after scaling the Schmidt number of oxygen of temperature and salinity.&nbsp;</p>
<p>Average values used to calculate metabolic fluxes are reported for the mean time period between the timestep at which they are reported and the timestep 10 minutes prior.&nbsp;</p>
<p>The reported values of kO2 are based on the parameterizations of:</p>
<ul>
<li>kO2_1 Borges et al. 2004 with both wind and currents (doi: <a href="http://link.springer.com/article/10.1007/BF02907647" target="_blank">10.1007/BF02907647</a>)</li>
<li>kO2_2Borges et al. 2004 without wind</li>
<li>kO2_3 Nidzieko et al. 2014 with both wind and currents (doi:&nbsp;<a href="http://link.springer.com/article/10.1007/s12237-013-9765-2" target="_blank">10.1007/s12237-013-9765-2</a>)</li>
<li>kO2_4 Nidzieko et al. 2014 without wind</li>
</ul>
<p>Net ecosystem metabolism rates (oxygen&nbsp;production&nbsp;minus community respiration in mmol O2&nbsp; m^-n min^-1) are reported as volumetric, areal, and per unit creek length rates using only kO2_1. Per unit length is likely the most appropriate approach&nbsp; to compare between timepoints in this case as the&nbsp; volume and surface area change rapidly over tidal cycles. Please see Kearns et al. 2016&nbsp; (Nature Comm. ) for additional method details.</p>
<p><strong>References:</strong></p>
<p>Kearns et al. 2016, doi:&nbsp;<a href="http://www.nature.com/articles/ncomms12881" target="_blank">10.1038/ncomms12881</a></p>
<p>This data is also accessible through the <a href="http://pie-lter.ecosystems.mbl.edu/content/data" target="_blank">LTER database</a>, and has been assigned a database doi: <a href="https://portal.lternet.edu/nis/mapbrowse?packageid=knb-lter-pie.415.1" target="_blank">10.6073/pasta/fe47a9461bd332fae3ac7792af21c2b0</a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1233678 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1233678
completed
Rachel H. R. Stanley
Wellesley College
(781) 283-3122
Department of Chemistry 106 Central St
Wellesley
Massachusetts
02481
United States
rachel.stanley@wellesley.edu
pointOfContact
Amanda Spivak
Woods Hole Oceanographic Institution
706-542-5709
Marine Science Rm. 164 Department of Marine Science
Athens
GA
30602
United States
aspivak@uga.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
date
time
station
creek_status
tempYSI
spCondYSI
salinityYSI
densityYSI
DO_pcnt_YSI
DOconcYSI
depthYSI
DOsat
DOrecalc_pcnt
DOrecalc
depthPGauge
CSarea
surfaceArea
DeltaV
u10
kO2_1
kO2_2
kO2_3
kO2_4
NEM_m3
NEM_m2
NEM_m
comments
Oxygen saturation sensor
HOBO U20 titanium water depth logger
YSI 6-series water quality datalogging sonde
theme
None, User defined
date
time of day
station
treatment
water temperature at measurement depth
conductivity
salinity
density
Dissolved oxygen (percent)
Dissolved_Oxygen
depth
dissolved Oxygen
No BCO-DMO term
surface_area
wind_speed
comments
featureType
BCO-DMO Standard Parameters
Oxygen Sensor
Water Depth Logger
Water Quality Multiprobe
instrument
BCO-DMO Standard Instruments
Plum_Island
service
Deployment Activity
Plumn Island, MA
place
Locations
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.
Eutrophication Effects on Sediment Metabolism and Benthic Algal-bacterial Coupling: An Application of Novel Techniques in a LTER Estuary
https://osprey.bco-dmo.org/project/529583
Eutrophication Effects on Sediment Metabolism and Benthic Algal-bacterial Coupling: An Application of Novel Techniques in a LTER Estuary
<p><em>Extracted from the NSF award abstract:</em><br />
This project will address how rates of benthic microalgal production respond to eutrophication and geomorphological changes in human-impacted tidal creeks. Excess nutrient loading increases benthic algal biomass and likely stimulates production rates but the magnitude of nutrient and geomorphological effects on rates of production is unknown. Will changes in benthic algal productivity affect algal-bacterial coupling? Furthermore, how is algal-bacterial coupling affected by geomorphological changes, which may be exacerbated by excess nutrient loading but can also occur in pristine marshes?</p>
<p>This project will take advantage of the infrastructure of the TIDE project, a long-term saltmarsh eutrophication experiment at the Plum Island Ecosystem - Long Term Ecological Research site in Northeastern Massachusetts. Specifically, the PIs will measure benthic metabolism and examine algal- bacterial coupling in fertilized and ambient nutrient tidal creeks in the first field season. The following field season, they will compare sediment metabolism and carbon dynamics on slumped tidal creek walls (i.e. areas where low marsh has collapsed into the tidal creek) to that on the bottom of tidal creeks. In both years, gross and net production will be determined using an innovative triple oxygen isotope technique and traditional dissolved oxygen and inorganic carbon flux measurements. Comparisons between these methods will be useful in informing studies of sediment metabolism. Lipid biomarkers will be used to characterize the sources of organic matter to creek sediments, and stable isotope analysis of bacterial specific biomarkers to identify the sources of organic carbon utilized by sediment bacteria. The biomarkers will reveal whether sediment bacteria use organic matter substrates, such as benthic microalgal carbon, selectively or in proportion to availability. Overall, results from the proposed study will provide important information about how sediment carbon dynamics in shallow tidal creeks respond to long term eutrophication. Furthermore, findings will enhance understanding of the role of tidal creeks in coastal biogeochemistry.</p>
Benthic_PP_at_TIDE
largerWorkCitation
project
eng; USA
oceans
Plumn Island, MA
2016-12-08
Plum Island Estuary, Rowley Massachusetts
0
BCO-DMO catalogue of parameters from Water and oxygen metabolism flux data from two tidal creeks on Plum Island, Massachusetts during 2012.
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/669374.rdf
Name: date
Units: unitless
Description: <p>Date of sampling; DD-MM-YYYY</p>
http://lod.bco-dmo.org/id/dataset-parameter/669375.rdf
Name: time
Units: unitless
Description: <p>Time of sampling (eastern standard time EST 24 hour); HH:MM</p>
http://lod.bco-dmo.org/id/dataset-parameter/669376.rdf
Name: station
Units: unitless
Description: <p>Name of sampling station</p>
http://lod.bco-dmo.org/id/dataset-parameter/669377.rdf
Name: creek_status
Units: unitless
Description: <p>Status of creek; either fertilized or reference</p>
http://lod.bco-dmo.org/id/dataset-parameter/669378.rdf
Name: tempYSI
Units: celsius
Description: <p>Temperature of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/669379.rdf
Name: spCondYSI
Units: millisiemen per centimeter
Description: <p>Specific conductivity of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/669380.rdf
Name: salinityYSI
Units: part per thousand
Description: <p>Salinity of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/669381.rdf
Name: densityYSI
Units: kilogram per liter
Description: <p>Density of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/669382.rdf
Name: DO_pcnt_YSI
Units: percent
Description: <p>Percent dissolved oxygen saturation of water at 1 atm</p>
http://lod.bco-dmo.org/id/dataset-parameter/669383.rdf
Name: DOconcYSI
Units: milligram per liter
Description: <p>Dissolved oxygen concentration of water</p>
http://lod.bco-dmo.org/id/dataset-parameter/669384.rdf
Name: depthYSI
Units: meter
Description: <p>Water column depth above sonde pressure transducer</p>
http://lod.bco-dmo.org/id/dataset-parameter/669385.rdf
Name: DOsat
Units: micromole per kilogram
Description: <p>Saturation concentration of O2 at 1 atm plus water pressure</p>
http://lod.bco-dmo.org/id/dataset-parameter/669386.rdf
Name: DOrecalc_pcnt
Units: percent
Description: <p>Detrended dissolved oxygen percent saturation at 1 atm plus water pressure</p>
http://lod.bco-dmo.org/id/dataset-parameter/669387.rdf
Name: DOrecalc
Units: micromole per kilogram
Description: <p>Dissolved oxygen concentration recalculated from detrended DO percent recalc and Dosat</p>
http://lod.bco-dmo.org/id/dataset-parameter/669388.rdf
Name: depthPGauge
Units: meter
Description: <p>High accuracy and precision water column depth above creek calculated from pressure and in situ density</p>
http://lod.bco-dmo.org/id/dataset-parameter/669389.rdf
Name: CSarea
Units: meter squared
Description: <p>Cross sectional area of water in creek at given timepoint</p>
http://lod.bco-dmo.org/id/dataset-parameter/669390.rdf
Name: surfaceArea
Units: meter squared
Description: <p>Air-water surface area in creek at given timepoint</p>
http://lod.bco-dmo.org/id/dataset-parameter/669391.rdf
Name: DeltaV
Units: meter cubed per second
Description: <p>Change in volume between timepoint and previous timepoint</p>
http://lod.bco-dmo.org/id/dataset-parameter/669392.rdf
Name: u10
Units: meter per second
Description: <p>Windspeed scaled to 10 m height</p>
http://lod.bco-dmo.org/id/dataset-parameter/669393.rdf
Name: kO2_1
Units: meter per second
Description: <p>Air-water exhange flux of O2 parameterization 1 (see methods)</p>
http://lod.bco-dmo.org/id/dataset-parameter/669394.rdf
Name: kO2_2
Units: meter per second
Description: <p>Air-water exhange flux of O2 parameterization 2 (see methods)</p>
http://lod.bco-dmo.org/id/dataset-parameter/669395.rdf
Name: kO2_3
Units: meter per second
Description: <p>Air-water exhange flux of O2 parameterization 3 (see methods)</p>
http://lod.bco-dmo.org/id/dataset-parameter/669396.rdf
Name: kO2_4
Units: meter per second
Description: <p>Air-water exhange flux of O2 parameterization 4 (see methods)</p>
http://lod.bco-dmo.org/id/dataset-parameter/669397.rdf
Name: NEM_m3
Units: millimole per meter cubed per minute
Description: <p>Volumetric net ecosystem metabolism rate of O2</p>
http://lod.bco-dmo.org/id/dataset-parameter/669398.rdf
Name: NEM_m2
Units: millimole per meter squared per minute
Description: <p>Areal net ecosystem metabolism rate of O2</p>
http://lod.bco-dmo.org/id/dataset-parameter/669399.rdf
Name: NEM_m
Units: millimole per meter per minute
Description: <p>Volumetric net ecosystem metabolism rate of O2</p>
http://lod.bco-dmo.org/id/dataset-parameter/669400.rdf
Name: comments
Units: unitless
Description: <p>Comments about specific data</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
776885
https://datadocs.bco-dmo.org/file/5AAMkyKh0Gvjlx/tidal_creeks.csv
tidal_creeks.csv
Primary data file for dataset ID 669348
download
https://osprey.bco-dmo.org/dataset/669348/data/download
download
onLine
dataset
<p>Water quality measurements are made using two YSI 6-series water quality&nbsp;data logging&nbsp;sonde. maintained by the TIDE project at PIE-LTER. YSI Sonde sensors consist of Clark-type potentiometric Oxygen probe, a conductivity/temperature probe (thermistor) .</p>
<p>Data has been screened for obviously wrong data, including a period in the fertilized creek (Sweeney Right)&nbsp; during which the oxygen probe was buried by mud from a collapsed creek bank. Other than this period, conductivity readings did not indicate any blockages that might affect data quality. Oxygen saturation state (the measured variable using this type of sensor, not concentration) had a linear, time-dependent drift that was similar in each creek based on comparison with high precision handheld sondes (YSI ProDO). Oxygen saturation states were detrended, and then resulting saturation states converted to&nbsp;molal&nbsp;concentration using the oxygen solubility function of Garcia and Gordon 1992 (doi:&nbsp;<a href="http://onlinelibrary.wiley.com/doi/10.4319/lo.1992.37.6.1307/abstract" target="_blank">10.4319/lo.1992.37.6.1307</a> and 1993 erratum).</p>
<p>Typical sensor/data problems are:</p>
<ul>
<li>For oxygen: Poor/inaccurate conductivity measurements will affect the dissolved oxygen accuracy, tears, nicks, or other wear on the oxygen selective membrane used on the Clark-type electrode.</li>
<li>For conductivity: Conductivity cell can have detrital material stuck in it, shorting out cell, resulting in lower than expected conductivity.</li>
<li>For depth: Depth strain gage pressure sensor may come out of the water at low tides resulting in many "zero" depth readings or sometimes negative values.</li>
</ul>
<p>YSI Dissolved oxygen % saturation reporting can vary depending upon how the&nbsp; oxygen is calibrated.</p>
<p>For this data Oxygen percent saturation values is reported as DO%YSI at 1 ATM&nbsp;pressure&nbsp;relative to water-saturated air&nbsp;calibration,&nbsp;and&nbsp;additionally as DO%recalc, after detrending. Resulting metabolic fluxes are calculated from resulting oxygen concentrations relative to&nbsp;the saturation concentration at local atmospheric pressure (which in this case varies by less than 2% and can be neglected relative to much larger errors in advective and air-water transfer&nbsp; rates.</p>
<p>Water depth is logged in each creek using a HOBO U20 titanium water depth loggers rated to 30 ft, and combined with 2011 creek&nbsp; geometry transects by Will Kearney (Sergio&nbsp;Fagherazzi's&nbsp;group at BU) in order to calculate&nbsp;cross-sectional areas as well as surface areas through which air-water gas exchange occurs, and tidal exchange of creek water between timesteps.&nbsp; Windspeed&nbsp; from the cited additional database (the Marshview meteorology tower) is scaled to u10 using the wind profile power law approximation. Wind and estimated current velocities are used with a&nbsp;windspeed&nbsp;parameterization to calculate the air-water&nbsp;exchange&nbsp;coefficient of oxygen (kO2) after scaling the Schmidt number of oxygen of temperature and salinity.&nbsp;</p>
<p>Average values used to calculate metabolic fluxes are reported for the mean time period between the timestep at which they are reported and the timestep 10 minutes prior.&nbsp;</p>
<p>The reported values of kO2 are based on the parameterizations of:</p>
<ul>
<li>kO2_1 Borges et al. 2004 with both wind and currents (doi: <a href="http://link.springer.com/article/10.1007/BF02907647" target="_blank">10.1007/BF02907647</a>)</li>
<li>kO2_2Borges et al. 2004 without wind</li>
<li>kO2_3 Nidzieko et al. 2014 with both wind and currents (doi:&nbsp;<a href="http://link.springer.com/article/10.1007/s12237-013-9765-2" target="_blank">10.1007/s12237-013-9765-2</a>)</li>
<li>kO2_4 Nidzieko et al. 2014 without wind</li>
</ul>
<p>Net ecosystem metabolism rates (oxygen&nbsp;production&nbsp;minus community respiration in mmol O2&nbsp; m^-n min^-1) are reported as volumetric, areal, and per unit creek length rates using only kO2_1. Per unit length is likely the most appropriate approach&nbsp; to compare between timepoints in this case as the&nbsp; volume and surface area change rapidly over tidal cycles. Please see Kearns et al. 2016&nbsp; (Nature Comm. ) for additional method details.</p>
<p><strong>References:</strong></p>
<p>Kearns et al. 2016, doi:&nbsp;<a href="http://www.nature.com/articles/ncomms12881" target="_blank">10.1038/ncomms12881</a></p>
<p>This data is also accessible through the <a href="http://pie-lter.ecosystems.mbl.edu/content/data" target="_blank">LTER database</a>, and has been assigned a database doi: <a href="https://portal.lternet.edu/nis/mapbrowse?packageid=knb-lter-pie.415.1" target="_blank">10.6073/pasta/fe47a9461bd332fae3ac7792af21c2b0</a></p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Data Processing Notes:</strong></p>
<p>-reformatted column names to comply with BCO-DMO standards.<br />
-filled in blank cells with "nd"<br />
-reformatted date to "mm/dd/yyyy"<br />
-replaced&nbsp;"NA" with "nd"</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
Oxygen saturation sensor
Oxygen saturation sensor
PI Supplied Instrument Name: Oxygen saturation sensor PI Supplied Instrument Description:Measured oxygen saturation, not concentration Instrument Name: Oxygen Sensor Instrument Short Name:Dissolved Oxygen Sensor Instrument Description: An electronic device that measures the proportion of oxygen (O2) in the gas or liquid being analyzed
HOBO U20 titanium water depth logger
HOBO U20 titanium water depth logger
PI Supplied Instrument Name: HOBO U20 titanium water depth logger PI Supplied Instrument Description:Rated to 30ft Instrument Name: Water Depth Logger Instrument Short Name: Instrument Description: For measuring and recording water levels in rivers, streams, and wells.
YSI 6-series water quality datalogging sonde
YSI 6-series water quality datalogging sonde
PI Supplied Instrument Name: YSI 6-series water quality datalogging sonde PI Supplied Instrument Description:Used to take water quality measurements 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.
Deployment: Plum_Island
Plum_Island
shoreside Massachusetts
shoreside
Plum_Island
Rachel H. R. Stanley
Wellesley College
shoreside Massachusetts
shoreside