http://lod.bco-dmo.org/id/dataset/854194
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
2021-06-22
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Water column data collected during Dataflow cruises in the lower York River Estuary, VA during intense summer algal blooms in 2020-21
2025-09-03
publication
2025-09-03
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-08-30
publication
https://doi.org/10.26008/1912/bco-dmo.854194.1
Iris C. Anderson
Virginia Institute of Marine Science
principalInvestigator
Mark J. Brush
Virginia Institute of Marine Science
principalInvestigator
Kimberly S. Reece
Virginia Institute of Marine Science
principalInvestigator
Bongkeun Song
Virginia Institute of Marine Science
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: Anderson, I. C., Brush, M. J., Reece, K., Song, B. (2021) Water column data collected during Dataflow cruises in the lower York River Estuary, VA during and following two successive harmful algal blooms. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-06-22 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.854194.1 [access date]
Water Column 2020-2021 Dataset Description: Methods and Sampling: <p>Data were collected on several single-day cruises on small privateers out of the Virginia Institute of Marine Science, Gloucester Point, VA.</p>
<p>High-resolution sampling via Dataflow was performed along the lower York River estuary during two successive summers, 2020-21, before, during, and after intense blooms of <em>Margalefidinium polykrikoides</em> and <em>Alexandrium monilatum</em> for determinations of pCO2, temperature, salinity, pH, turbidity, chlorophyll-a, and dissolved oxygen (DO). High-resolution sampling was performed with a Dataflow system (Madden &amp; Day, 1992) modified as described in Crosswell et al. (2017). The pCO2-Dataflow system is instrumented with a pCO2 analyzer, a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system. The system continuously samples surface water (approximately every 30 meters (m) at an average speed of 20 knots) from a stern-mounted water intake located 0.5 m below the water surface with a pump, which delivers water in parallel to (1) a showerhead equilibrator and (2) a flow-through cell attached to the YSI which is configured to measure water temperature, salinity, pH, turbidity, chlorophyll-a fluorescence, and DO. pCO2 in the equilibration chamber is determined by recirculating a carrier gas at a flow of approximately 1.5 liters per minute (L/min) through the equilibrator chamber and a nondispersive infrared absorbance detection analyzer (LI-COR LI-840).</p>
<p>Concurrent with Dataflow sampling, grab sampling was performed at five stations within bloom patches (as determined by levels of chlorophyll-a) and at five stations outside of bloom patches for determinations of dissolved inorganic carbon (DIC), dissolved organic carbon (DOC), total dissolved nitrogen (TDN), nitrate (NO3), nitrite (NO2), ammonium (NH4), dissolved inorganic phosphorus (DIP), active chlorophyll-a (via extraction), and cell abundance of <em>M. polykrikoides</em> and <em>A. monilatum</em>. DIC samples were filtered through 0.2-micrometer (um) polycarbonate filters into 8-milliliter (mL) hungate tubes and refrigerated underwater until analysis on an Apollo SciTech AS-C3 analyzer coupled to a LI-COR LI-7000 infrared gas analyzer. DOC samples were filtered through 0.45 um polyethersulfone filters and frozen prior to analysis on a Shimadzu TOC-VCSN combustion analyzer. Nutrient samples were also filtered through 0.45 um polyethersulfone filters and frozen prior to analysis on a Lachat QuikChem 8000 automated ion analyzer (Lachat Instruments, Milwaukee, WI, USA); detection limits for NO3−, NH4+, and PO43- are 0.20, 0.36, and 0.16 micromolar (uM), respectively. Chlorophyll-a samples for extraction were filtered through 0.7 um glass fiber filters which were frozen prior to analysis following Arar and Collins (1997, EPA Method 445.0). Samples were extracted in the dark for 24 hours in 8 mL of a 45:45:10 dimethyl sulfoxide : acetone: distilled water solution with 1% diethylamine (Shoaf &amp; Lium, 1976), and read on a 10 AU Turner Designs fluorometer before and after acidification to compute active chlorophyll-a.</p>
<p>Cell concentrations of <em>M. polykrikoides</em> (Marg) and <em>A. monilatum</em> (Alex) by qPCR were measured as described in Wolney et al. (2020). Briefly, 100 mL water samples were collected, and 25-100 mL were filtered onto 3 um Isopore membrane filters (Millipore Corp., Darmstadt, Germany), with the volume filtered for DNA extraction dependent on Dataflow-measured chlorophyll-a concentrations. Disposable filtration units were used to prevent cross contamination between samples. DNA was extracted from the filters using the Qiamp Fast Stool Mini Kit (QIAGEN Corp., Germantown, MD, USA) using the modified protocol as described in Wolney et al. (2020). DNA was amplified targeting Marg and Alex DNA using TaqMan qPCR assays designed in the Reece laboratory with York River Marg and Alex sequences included for assay design (Vandersea et al., 2017; Wolney et al., 2020). The cell concentrations of Marg and Alex cultures were determined by microscopy using a Sedgwick-Rafter counting cell chamber and DNA was extracted from a known number of cells. This material was used as positive control material and to generate standard curves by serially diluting the DNA to achieve a range of cell number equivalents.</p>
<p>Data represent means and standard errors (SE) at the five bloom and five non-bloom stations on each cruise. Dataflow values represent means and SE of all readings while sampling at each site; grab sample values represent the means and SE of three replicate samples.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1737258 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1737258
onGoing
Iris C. Anderson
Virginia Institute of Marine Science
757-876-9436
P.O Box 1346
Gloucester Point
VA
23062
USA
iris@vims.edu
pointOfContact
Mark J. Brush
Virginia Institute of Marine Science
804-684-7402
P.O Box 1346
Gloucester Point
VA
23062
USA
brush@vims.edu
pointOfContact
Kimberly S. Reece
Virginia Institute of Marine Science
804-684-7407
P.O Box 1346
Gloucester Point
VA
23062
USA
kreece@vims.edu
pointOfContact
Bongkeun Song
Virginia Institute of Marine Science
804-684-7411
P.O Box 1346
Gloucester Point
VA
23692
USA
songb@vims.edu
pointOfContact
asNeeded
Dataset Version: 2
Unknown
Date
Station
Type
Lat
Long
pCO2
pCO2_SE
Temp
Temp_SE
Sal
Sal_SE
pH
pH_SE
Turb
Turb_SE
ChlaYSI
ChlaYSI_SE
DOsat
DOsat_SE
DOmgl
DOmgl_SE
DIC
DIC_SE
DOC
DOC_SE
TDN
TDN_SE
NO3
NO3_SE
NO2
NO2_SE
NH4
NH4_SE
DIP
DIP_SE
ChlaEXTR
ChlaEXTR_SE
Marge
Marg_SE
Alex
Alex_SE
Apollo SciTech AS-C3 analyzer
Applied BiosystemsTM 7500 Fast Real-time PCR System
Applied BiosystemsTM QuantStudio TM 6 Flex Real-time PCR System
Lachat QuikChem 8000 automated ion analyzer
Garmin global positioning system (GPS MAP 546S)
LI-COR LI-7000 infrared gas analyzer
LI-COR LI-840
pCO2-Dataflow system
Shimadzu TOC-VCSN combustion analyzer
10 AU Turner Designs fluorometer
YSI 6600V2
theme
None, User defined
date
station
site description
latitude
longitude
Partial pressure of CO2
water temperature at measurement depth
salinity
pH
turbidity
chlorophyll a
O2 saturation
dissolved Oxygen
dissolved inorganic Carbon
dissolved organic Carbon
Total Dissolved Nitrogen
Nitrate
Nitrite
Ammonium
Dissolved Inorganic Phosphate
abundance
featureType
BCO-DMO Standard Parameters
Apollo SciTech AS-C3 Dissolved Inorganic Carbon (DIC) analyzer
Applied Biosystems Real-Time PCR System (ThermoFisher)
Applied Biosystems Real-Time PCR System (ThermoFisher)
Flow Injection Analyzer
Global Positioning System Receiver
LI-COR LI-7000 Gas Analyzer
LI-COR LI-840 Gas Analyzer
pCO2-Dataflow system
Shimadzu TOC-V Analyzer
Turner Designs Fluorometer 10-AU
YSI Sonde 6-Series
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.
Alteration of carbon fluxes by intense phytoplankton blooms in a microtidal estuary
https://osprey.bco-dmo.org/project/747588
Alteration of carbon fluxes by intense phytoplankton blooms in a microtidal estuary
<p><em>NSF Award Abstract:</em><br />
Estuaries, coastal water bodies where rivers mix with ocean water, are hotspots for the processing of carbon and nutrients moving from land to the coastal ocean. Within estuaries land-based nutrient inputs can cause intense blooms of single-celled algae called phytoplankton, which can have significant impacts on the ecosystem. As blooms move down-estuary some of the phytoplankton material is buried on the bottom, and some is decomposed, resulting in low oxygen conditions (hypoxia), harmful to marine life, and production of carbon dioxide (CO2), the major greenhouse gas, which can exchange with the atmosphere. The remaining phytoplankton material can be exported to the ocean. The type and amount of carbon exported from the estuary depend both on its biological activity and physical factors such as fresh water discharge, temperature, and light availability. If phytoplankton production is greater than decomposition, the estuary will take up atmospheric CO2 and export phytoplankton carbon to the coastal ocean. On the other hand, if decomposition is greater than production the estuary will be a source of CO2 to the atmosphere and dissolved CO2 to the coastal ocean. The investigators expect that intense phytoplankton blooms will greatly amplify carbon exchanges with the atmosphere, coastal ocean, and bottom sediments. As intense phytoplankton blooms increase in the future due to increased nutrient inputs and temperature, low oxygen events may become more frequent with potential negative impacts on fisheries and increased export of carbon to the coastal ocean and atmosphere. This study will fill critical gaps identified by the Coastal Carbon Synthesis Program in knowledge of how microtidal estuaries transform and export C to the atmosphere, benthos, and coastal ocean. In addition, there will be a strong teaching and training component to this project, with support for graduate and undergraduate students. The graduate student will be partnered with secondary teachers to gain teaching experience and enrich the middle school educational programs. Summer undergraduate interns will be recruited for a summer program from Hampton University, a historically Black college. There will be public outreach through participation in existing programs at VIMS.</p>
<p>Estuaries serve as critical hotspots for the processing of carbon (C) as it transits from land to the coastal ocean. Recent attempts to synthesize what is known about sources and fates of C in estuaries have noted large data gaps; thus, the role of estuaries, especially those that are microtidal, as important sources of carbon dioxide (CO2) to the atmosphere and total organic carbon (TOC) and dissolved inorganic carbon (DIC) to the coastal ocean, or as a C sink in bottom sediments, remains uncertain. Intensive phytoplankton blooms are becoming increasingly frequent in many estuaries and are likely to have important and yet unknown impacts on the C cycle. The trophic status of an estuary will determine in large part the species of C exported to the atmosphere, bottom sediments, and coastal ocean. The overarching objective of this project is to identify the impacts of intense phytoplankton blooms on C speciation, net C fluxes and exchanges in the Lower York River Estuary (LYRE), a representative mesotrophic, microtidal mid-Atlantic estuary. Metabolic processes are hypothesized to be spatially and temporally dynamic, driving the speciation, abundance, and fates of C in the LYRE. High spatiotemporal resolution sampling in the LYRE will capture rates of C cycling under both baseline conditions throughout most of the year, and during periods when the estuary is perturbed by widespread and intense, but patchy, late summer phytoplankton blooms. The short-term effects of physical drivers (wind, temperature, salinity, fresh water discharge, nutrient and organic carbon loads) and biological drivers (metabolic rates, bacterial and phytoplankton abundances and composition) on C transformations, speciation, and exchanges will be assessed. Expected longer term variations in the C cycle due to anthropogenic and natural disturbances will be predicted through use of modeling. In addition, laboratory manipulations will examine the impacts of specific organisms dominating intensive phytoplankton blooms on benthic metabolism, processing of organic C by the microbial community, and C fluxes to the water column.</p>
LYRE
largerWorkCitation
project
eng; USA
oceans
-76.54505
-76.38636
37.22389
37.268
2020-08-11
2021-09-07
York River Estuary, Virginia
0
BCO-DMO catalogue of parameters from Water column data collected during Dataflow cruises in the lower York River Estuary, VA during intense summer algal blooms in 2020-21
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/957472.rdf
Name: Date
Units: unitless
Description: <p>Date when the sampling took place</p>
http://lod.bco-dmo.org/id/dataset-parameter/957473.rdf
Name: Station
Units: unitless
Description: <p>Sampling location (station number) starting at the estuary mouth and moving up-estuary. Locations varied among intensive cruises.</p>
http://lod.bco-dmo.org/id/dataset-parameter/957474.rdf
Name: Type
Units: unitless
Description: <p>Type of station; "bloom" stations were inside of intense bloom patches; "non-bloom" stations were outside of bloom patches.</p>
http://lod.bco-dmo.org/id/dataset-parameter/957475.rdf
Name: Lat
Units: decimal degrees North
Description: <p>Latitude of sample location</p>
http://lod.bco-dmo.org/id/dataset-parameter/957476.rdf
Name: Long
Units: decimal degrees East
Description: <p>Longitude of sample location</p>
http://lod.bco-dmo.org/id/dataset-parameter/957477.rdf
Name: pCO2
Units: microatmospheres
Description: <p>Partial pressure of CO2 in water from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957478.rdf
Name: pCO2_SE
Units: microatmospheres
Description: <p>Standard error of pCO2</p>
http://lod.bco-dmo.org/id/dataset-parameter/957479.rdf
Name: Temp
Units: degrees Celsius (°C)
Description: <p>Water temperature from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957480.rdf
Name: Temp_SE
Units: degrees Celsius (°C)
Description: <p>Standard error of water temperature</p>
http://lod.bco-dmo.org/id/dataset-parameter/957481.rdf
Name: Sal
Units: unitless
Description: <p>Salinity from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957482.rdf
Name: Sal_SE
Units: unitless
Description: <p>Standard error of salinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/957483.rdf
Name: pH
Units: unitless
Description: <p>pH from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957484.rdf
Name: pH_SE
Units: unitless
Description: <p>Standard error of pH</p>
http://lod.bco-dmo.org/id/dataset-parameter/957485.rdf
Name: Turb
Units: NTU
Description: <p>Turbidity from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957486.rdf
Name: Turb_SE
Units: NTU
Description: <p>Standard error of turbidity</p>
http://lod.bco-dmo.org/id/dataset-parameter/957487.rdf
Name: ChlaYSI
Units: micrograms per liter (ug/L)
Description: <p>In situ chlorophyll a from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957488.rdf
Name: ChlaYSI_SE
Units: micrograms per liter (ug/L)
Description: <p>Standard error of in situ chlorophyll a</p>
http://lod.bco-dmo.org/id/dataset-parameter/957489.rdf
Name: DOsat
Units: percent (%)
Description: <p>Dissolved oxygen percent saturation from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957490.rdf
Name: DOsat_SE
Units: percent (%)
Description: <p>Standard error of dissolved oxygen percent saturation</p>
http://lod.bco-dmo.org/id/dataset-parameter/957491.rdf
Name: DOmgl
Units: milligrams per liter (mg/L)
Description: <p>Dissolved oxygen concentration from Dataflow</p>
http://lod.bco-dmo.org/id/dataset-parameter/957492.rdf
Name: DOmgl_SE
Units: milligrams per liter (mg/L)
Description: <p>Standard error of dissolved oxygen concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/957493.rdf
Name: DIC
Units: milligrams per liter (mg/L)
Description: <p>Dissolved inorganic carbon</p>
http://lod.bco-dmo.org/id/dataset-parameter/957494.rdf
Name: DIC_SE
Units: milligrams per liter (mg/L)
Description: <p>Standard error of DIC</p>
http://lod.bco-dmo.org/id/dataset-parameter/957495.rdf
Name: DOC
Units: micromolar
Description: <p>Dissolved organic carbon</p>
http://lod.bco-dmo.org/id/dataset-parameter/957496.rdf
Name: DOC_SE
Units: micromolar
Description: <p>Standard error of DOC</p>
http://lod.bco-dmo.org/id/dataset-parameter/957497.rdf
Name: TDN
Units: micromolar
Description: <p>Total dissolved nitrogen</p>
http://lod.bco-dmo.org/id/dataset-parameter/957498.rdf
Name: TDN_SE
Units: micromolar
Description: <p>Standard error of TDN</p>
http://lod.bco-dmo.org/id/dataset-parameter/957499.rdf
Name: NO3
Units: micromolar
Description: <p>Nitrate</p>
http://lod.bco-dmo.org/id/dataset-parameter/957500.rdf
Name: NO3_SE
Units: micromolar
Description: <p>Standard error of NO3</p>
http://lod.bco-dmo.org/id/dataset-parameter/957501.rdf
Name: NO2
Units: micromolar
Description: <p>Nitrite</p>
http://lod.bco-dmo.org/id/dataset-parameter/957502.rdf
Name: NO2_SE
Units: micromolar
Description: <p>Standard error of NO2</p>
http://lod.bco-dmo.org/id/dataset-parameter/957503.rdf
Name: NH4
Units: micromolar
Description: <p>Ammonium</p>
http://lod.bco-dmo.org/id/dataset-parameter/957504.rdf
Name: NH4_SE
Units: micromolar
Description: <p>Standard error of NH4</p>
http://lod.bco-dmo.org/id/dataset-parameter/957505.rdf
Name: DIP
Units: micromolar
Description: <p>Dissolved inorganic phosphate</p>
http://lod.bco-dmo.org/id/dataset-parameter/957506.rdf
Name: DIP_SE
Units: micromolar
Description: <p>Standard error of DIP</p>
http://lod.bco-dmo.org/id/dataset-parameter/957507.rdf
Name: ChlaEXTR
Units: micrograms per liter (ug/L)
Description: <p>Active chlorophyll-a from extracted samples</p>
http://lod.bco-dmo.org/id/dataset-parameter/957508.rdf
Name: ChlaEXTR_SE
Units: micrograms per liter (ug/L)
Description: <p>Standard error of active chlorophyll-a from extracted samples</p>
http://lod.bco-dmo.org/id/dataset-parameter/957509.rdf
Name: Marge
Units: cells per milliliter (cells/mL)
Description: <p><em>Margalefidinium polykrikoides</em> abundance based on qPCR</p>
http://lod.bco-dmo.org/id/dataset-parameter/957510.rdf
Name: Marg_SE
Units: cells per milliliter (cells/mL)
Description: <p>Standard error of <em>M. polykrikoides</em> abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/957511.rdf
Name: Alex
Units: cells per milliliter (cells/mL)
Description: <p><em>Alexandrium monilatum</em> abundance based on qPCR</p>
http://lod.bco-dmo.org/id/dataset-parameter/957512.rdf
Name: Alex_SE
Units: cells per milliliter (cells/mL)
Description: <p>Standard error of <em>A. monilatum</em> abundance</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
7068
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/7820dc64-b7d3-534c-a0ad-4df0c74fb2a5/content
download
https://doi.org/10.26008/1912/bco-dmo.854194.1
download
onLine
dataset
<p>Data were collected on several single-day cruises on small privateers out of the Virginia Institute of Marine Science, Gloucester Point, VA.</p>
<p>High-resolution sampling via Dataflow was performed along the lower York River estuary during two successive summers, 2020-21, before, during, and after intense blooms of <em>Margalefidinium polykrikoides</em> and <em>Alexandrium monilatum</em> for determinations of pCO2, temperature, salinity, pH, turbidity, chlorophyll-a, and dissolved oxygen (DO). High-resolution sampling was performed with a Dataflow system (Madden &amp; Day, 1992) modified as described in Crosswell et al. (2017). The pCO2-Dataflow system is instrumented with a pCO2 analyzer, a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system. The system continuously samples surface water (approximately every 30 meters (m) at an average speed of 20 knots) from a stern-mounted water intake located 0.5 m below the water surface with a pump, which delivers water in parallel to (1) a showerhead equilibrator and (2) a flow-through cell attached to the YSI which is configured to measure water temperature, salinity, pH, turbidity, chlorophyll-a fluorescence, and DO. pCO2 in the equilibration chamber is determined by recirculating a carrier gas at a flow of approximately 1.5 liters per minute (L/min) through the equilibrator chamber and a nondispersive infrared absorbance detection analyzer (LI-COR LI-840).</p>
<p>Concurrent with Dataflow sampling, grab sampling was performed at five stations within bloom patches (as determined by levels of chlorophyll-a) and at five stations outside of bloom patches for determinations of dissolved inorganic carbon (DIC), dissolved organic carbon (DOC), total dissolved nitrogen (TDN), nitrate (NO3), nitrite (NO2), ammonium (NH4), dissolved inorganic phosphorus (DIP), active chlorophyll-a (via extraction), and cell abundance of <em>M. polykrikoides</em> and <em>A. monilatum</em>. DIC samples were filtered through 0.2-micrometer (um) polycarbonate filters into 8-milliliter (mL) hungate tubes and refrigerated underwater until analysis on an Apollo SciTech AS-C3 analyzer coupled to a LI-COR LI-7000 infrared gas analyzer. DOC samples were filtered through 0.45 um polyethersulfone filters and frozen prior to analysis on a Shimadzu TOC-VCSN combustion analyzer. Nutrient samples were also filtered through 0.45 um polyethersulfone filters and frozen prior to analysis on a Lachat QuikChem 8000 automated ion analyzer (Lachat Instruments, Milwaukee, WI, USA); detection limits for NO3−, NH4+, and PO43- are 0.20, 0.36, and 0.16 micromolar (uM), respectively. Chlorophyll-a samples for extraction were filtered through 0.7 um glass fiber filters which were frozen prior to analysis following Arar and Collins (1997, EPA Method 445.0). Samples were extracted in the dark for 24 hours in 8 mL of a 45:45:10 dimethyl sulfoxide : acetone: distilled water solution with 1% diethylamine (Shoaf &amp; Lium, 1976), and read on a 10 AU Turner Designs fluorometer before and after acidification to compute active chlorophyll-a.</p>
<p>Cell concentrations of <em>M. polykrikoides</em> (Marg) and <em>A. monilatum</em> (Alex) by qPCR were measured as described in Wolney et al. (2020). Briefly, 100 mL water samples were collected, and 25-100 mL were filtered onto 3 um Isopore membrane filters (Millipore Corp., Darmstadt, Germany), with the volume filtered for DNA extraction dependent on Dataflow-measured chlorophyll-a concentrations. Disposable filtration units were used to prevent cross contamination between samples. DNA was extracted from the filters using the Qiamp Fast Stool Mini Kit (QIAGEN Corp., Germantown, MD, USA) using the modified protocol as described in Wolney et al. (2020). DNA was amplified targeting Marg and Alex DNA using TaqMan qPCR assays designed in the Reece laboratory with York River Marg and Alex sequences included for assay design (Vandersea et al., 2017; Wolney et al., 2020). The cell concentrations of Marg and Alex cultures were determined by microscopy using a Sedgwick-Rafter counting cell chamber and DNA was extracted from a known number of cells. This material was used as positive control material and to generate standard curves by serially diluting the DNA to achieve a range of cell number equivalents.</p>
<p>Data represent means and standard errors (SE) at the five bloom and five non-bloom stations on each cruise. Dataflow values represent means and SE of all readings while sampling at each site; grab sample values represent the means and SE of three replicate samples.</p>
Specified by the Principal Investigator(s)
<p>Data represent means and standard errors (SE) at the five bloom and five non-bloom stations on each cruise. Dataflow values represent means and SE of all readings while sampling at each site; grab sample values represent the means and SE of three replicate samples.</p>
Specified by the Principal Investigator(s)
Version History:
Version 1:
Date: 2021-06-22
Dataset contained only 2020 data.
BCO-DMO Processing:
- changed date format to YYYY-MM-DD;
- renamed fields.
Version 2:
Date: 2025-04-01
Dataset contains 2020-2021 data, including corrections/additions to the 2020 data.
BCO-DMO Processing:
- Imported original file "water_column_2020_2021.xlsx" into the BCO-DMO system.
- Marked "n.d." as a missing data value (missing data are empty/blank in the final CSV file).
- Converted Date column to YYYY-MM-DD format.
- Saved final file as "854194_v2_water_column.csv".
Specified by BCO-DMO Data Managers
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
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Apollo SciTech AS-C3 analyzer
Apollo SciTech AS-C3 analyzer
PI Supplied Instrument Name: Apollo SciTech AS-C3 analyzer PI Supplied Instrument Description:DIC samples were analyzed using an Apollo SciTech AS-C3 analyzer coupled to a LI-COR LI-7000 infrared gas analyzer. Instrument Name: Apollo SciTech AS-C3 Dissolved Inorganic Carbon (DIC) analyzer Instrument Short Name:Apollo SciTech AS-C3 Instrument Description: A Dissolved Inorganic Carbon (DIC) analyzer, for use in aquatic carbon dioxide parameter analysis of coastal waters, sediment pore-waters, and time-series incubation samples. The analyzer consists of a solid state infrared CO2 detector, a mass-flow controller, and a digital pump for transferring accurate amounts of reagent and sample. The analyzer uses an electronic cooling system to keep the reactor temperature below 3 degrees Celsius, and a Nafion dry tube to reduce the water vapour and keep the analyzer drift-free and maintenance-free for longer. The analyzer can handle sample volumes from 0.1 - 1.5 milliliters, however the best results are obtained from sample volumes between 0.5 - 1 milliliters. It takes approximately 3 minutes per analysis, and measurement precision is plus or minus 2 micromoles per kilogram or higher for surface seawater. It is designed for both land based and shipboard laboratory use.
Applied BiosystemsTM 7500 Fast Real-time PCR System
Applied BiosystemsTM 7500 Fast Real-time PCR System
PI Supplied Instrument Name: Applied BiosystemsTM 7500 Fast Real-time PCR System PI Supplied Instrument Description:Used to quantify the abundance of Margalefidinium polykrikoides and Alexandrium monilatum Instrument Name: Applied Biosystems Real-Time PCR System (ThermoFisher) Instrument Short Name:Applied Biosystems Real-Time PCR System Instrument Description: Encompasses various models of real-time PCR systems manufactured by Applied Biosystems, including the ABI-9300, ABI-7500, and QuantStudio.
Applied BiosystemsTM QuantStudio TM 6 Flex Real-time PCR System
Applied BiosystemsTM QuantStudio TM 6 Flex Real-time PCR System
PI Supplied Instrument Name: Applied BiosystemsTM QuantStudio TM 6 Flex Real-time PCR System PI Supplied Instrument Description:Used to quantify the abundance of Margalefidinium polykrikoides and Alexandrium monilatum Instrument Name: Applied Biosystems Real-Time PCR System (ThermoFisher) Instrument Short Name:Applied Biosystems Real-Time PCR System Instrument Description: Encompasses various models of real-time PCR systems manufactured by Applied Biosystems, including the ABI-9300, ABI-7500, and QuantStudio.
Lachat QuikChem 8000 automated ion analyzer
Lachat QuikChem 8000 automated ion analyzer
PI Supplied Instrument Name: Lachat QuikChem 8000 automated ion analyzer PI Supplied Instrument Description:Nutrients were analyzed using a Lachat QuikChem 8000 automated ion analyzer (Lachat Instruments, Milwaukee, WI, USA). Instrument Name: Flow Injection Analyzer Instrument Short Name:FIA Instrument Description: An instrument that performs flow injection analysis. Flow injection analysis (FIA) is an approach to chemical analysis that is accomplished by injecting a plug of sample into a flowing carrier stream. FIA is an automated method in which a sample is injected into a continuous flow of a carrier solution that mixes with other continuously flowing solutions before reaching a detector. Precision is dramatically increased when FIA is used instead of manual injections and as a result very specific FIA systems have been developed for a wide array of analytical techniques. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB36/
Garmin global positioning system (GPS MAP 546S)
Garmin global positioning system (GPS MAP 546S)
PI Supplied Instrument Name: Garmin global positioning system (GPS MAP 546S) PI Supplied Instrument Description:The pCO2-Dataflow system is instrumented with a pCO2 analyzer (LI-COR LI-840), a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system. Instrument Name: Global Positioning System Receiver Instrument Short Name:GPS Instrument Description: The Global Positioning System (GPS) is a U.S. space-based radionavigation system that provides reliable positioning, navigation, and timing services to civilian users on a continuous worldwide basis. The U.S. Air Force develops, maintains, and operates the space and control segments of the NAVSTAR GPS transmitter system. Ships use a variety of receivers (e.g. Trimble and Ashtech) to interpret the GPS signal and determine accurate latitude and longitude. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/POS03/
LI-COR LI-7000 infrared gas analyzer
LI-COR LI-7000 infrared gas analyzer
PI Supplied Instrument Name: LI-COR LI-7000 infrared gas analyzer PI Supplied Instrument Description:DIC samples were analyzed using an Apollo SciTech AS-C3 analyzer coupled to a LI-COR LI-7000 infrared gas analyzer. Instrument Name: LI-COR LI-7000 Gas Analyzer Instrument Short Name:LI-COR LI-7000 Instrument Description: The LI-7000 gas analyzer is a differential, single source, non-dispersive, infrared gas analyzer. It has two solid state detectors, one each for CO2 and H2O, filters at 4.255 microns and 2.595 microns respectively. CO2 is measured in the range 0-3000ppm, with an accuracy of 1 percent nominally. H2O is measured in the range 0-60 mmol per mol, with an accuracy of one 1 percent. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/382/
LI-COR LI-840
LI-COR LI-840
PI Supplied Instrument Name: LI-COR LI-840 PI Supplied Instrument Description:The pCO2-Dataflow system is instrumented with a pCO2 analyzer (LI-COR LI-840), a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system Instrument Name: LI-COR LI-840 Gas Analyzer Instrument Short Name:LI-840 Instrument Description: The LI-COR LI-840 is an absolute, non-dispersive infrared gas analyzer based on a single path, dual wavelength, and thermostatically controlled infrared detection system. It has an operating temperature range of -20 to +40 degrees Celsius. CO2 is measured in the range 0-3,000 ppm with an accuracy of better than 1.5 percent of the reading. H2O is measured in the range 0-80 ppt with an accuracy of better than 1.5 percent of reading. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/382/
pCO2-Dataflow system
pCO2-Dataflow system
PI Supplied Instrument Name: pCO2-Dataflow system PI Supplied Instrument Description:The pCO2-Dataflow system is instrumented with a pCO2 analyzer (LI-COR LI-840), a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system. The platform used here includes a separate flow cell with a sensor to measure chromophoric dissolved organic matter, and is further coupled to a pCO2 analyzer as described in Crosswell et al. (2017) (doi: 10.1002/lno.10631). Instrument Name: pCO2-Dataflow system Instrument Short Name:pCO2-Dataflow system Instrument Description: Dataflow is a high-resolution sampling platform for underway surface water quality mapping, originally developed by Madden & Day (1992) (doi: 10.2307/1352789). The system consists of a pump that draws water from just below the estuary surface and passes it through a flow cell with a YSI datasonde to measure temperature, salinity, pH, turbidity, chlorophyll-a, and dissolved oxygen.
Shimadzu TOC-VCSN combustion analyzer
Shimadzu TOC-VCSN combustion analyzer
PI Supplied Instrument Name: Shimadzu TOC-VCSN combustion analyzer PI Supplied Instrument Description:DOC was analyzed using a Shimadzu TOC-VCSN combustion analyzer. Instrument Name: Shimadzu TOC-V Analyzer Instrument Short Name:Shimadzu TOC-V Instrument Description: A Shimadzu TOC-V Analyzer measures DOC by high temperature combustion method. Community Standard Description: http://onto.nerc.ac.uk/CAST/124
10 AU Turner Designs fluorometer
10 AU Turner Designs fluorometer
PI Supplied Instrument Name: 10 AU Turner Designs fluorometer PI Supplied Instrument Description:Samples were read on a 10 AU Turner Designs fluorometer before and after acidification to compute active chlorophyll-a. Instrument Name: Turner Designs Fluorometer 10-AU Instrument Short Name:Turner Fluorometer 10-AU Instrument Description: The Turner Designs 10-AU Field Fluorometer is used to measure Chlorophyll fluorescence. The 10AU Fluorometer can be set up for continuous-flow monitoring or discrete sample analyses. A variety of compounds can be measured using application-specific optical filters available from the manufacturer (read more from Turner Designs, turnerdesigns.com, Sunnyvale, CA, USA). Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0393/
YSI 6600V2
YSI 6600V2
PI Supplied Instrument Name: YSI 6600V2 PI Supplied Instrument Description:The pCO2-Dataflow system is instrumented with a pCO2 analyzer (LI-COR LI-840), a multi-parameter datasonde (YSI 6600V2), Garmin global positioning system (GPS MAP 546S), and data acquisition system. Instrument Name: YSI Sonde 6-Series Instrument Short Name:YSI Sonde 6-Series Instrument Description: YSI 6-Series water quality sondes and sensors are instruments for environmental monitoring and long-term deployments. YSI datasondes accept multiple water quality sensors (i.e., they are multiparameter sondes). Sondes can measure temperature, conductivity, dissolved oxygen, depth, turbidity, and other water quality parameters. The 6-Series includes several models. More from YSI. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0737/