http://lod.bco-dmo.org/id/dataset/515368
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
2014-05-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Depth profiles of oceanographic parameters in spring and summer from R/V Terrapin, R/V Hugh R. Sharp multiple cruises in Chesapeake Bay, 2010-2011 (LiDZ project)
2014-05-20
publication
2014-05-20
revision
BCO-DMO Linked Data URI
2014-05-20
creation
http://lod.bco-dmo.org/id/dataset/515368
Byron C. Crump
University of Maryland Center for Environmental Science
principalInvestigator
Jeffrey Cornwell
University of Maryland Center for Environmental Science
principalInvestigator
Ian Hewson
Cornell 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: Crump, B. C., Crump, B. C., Cornwell, J., Hewson, I. (2014) Depth profiles of oceanographic parameters in spring and summer from R/V Terrapin, R/V Hugh R. Sharp multiple cruises in Chesapeake Bay, 2010-2011 (LiDZ project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version final) Version Date 2014-05-20 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/515368 [access date]
Depth profiles of oceanographic parameters from Chesapeake Bay in Spring and Summer of 2010-2011 Dataset Description: <p>Oceanographic data from the middle region of the Chesapeake Bay, especially water column depth profiles of seasonally anoxic bottom waters, collected in spring and summer of 2010-2011.</p>
<p>Water samples and sensor-based measurements were made during sixteen research cruises in 2010-2012: two 1-week cruises aboard the UNOLS vessel R/V Hugh R. Sharp, and fourteen 1-day cruises aboard the R/V Terrapin, which is a 25' Parker outboard motorboat with davit for deploying a CTD package.</p> Methods and Sampling: <p><a href="http://dmoserv3.bco-dmo.org/data_docs/LiDZ/water_sample_collection.html" target="_blank"><u>SAMPLE COLLECTION</u></a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0961920 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0961920
onGoing
Byron C. Crump
University of Maryland Center for Environmental Science
410-330-0051 (cell)
College of Earth, Ocean, and Atmospheric Sciences (CEOAS) Oregon State University 104 CEOAS Admin Bldg
Corvallis
OR
97331-5503
USA
pointOfContact
Jeffrey Cornwell
University of Maryland Center for Environmental Science
410-221-8445
University of Maryland Center for Environmental Science Horn Point Laboratories PO Box 775
Cambridge
MD
21613-0775
USA
cornwell@umces.edu
pointOfContact
Ian Hewson
Cornell University
1-607-255-0151
Department of Microbiology Wing Hall 403
Ithaca
NY
14853
USA
hewson@cornell.edu
pointOfContact
asNeeded
Dataset Version: final
Unknown
sample_num
date_local
time_local
platform
cruise
cruise_new
filtered
cast
cast_new
depth
lat
lon
cond
temp
sal
O2_conc
O2_sat
fluor
N2_rate
O2_rate
DIC_rate
NO2
NO3
NH4
SRP
H2S
Fe
Mn
BP
Chla
Pheophytin_a
Cell_Counts
ISO_DateTime_Local
Box Corer
oxycline sampling device
Flow Cytometer
Apollo SciTech infrared-based analyzer
Liquid Scintillation Analyzer
membrane inlet mass spectrometer
Diaphragm Pump
Submersible Well Pump
theme
None, User defined
No BCO-DMO term
date
time of day
platform
cruise name
cast
depth
latitude
longitude
conductivity
water temperature at measurement depth
salinity
dissolved Oxygen
Dissolved oxygen (percent)
fluorescence
O2 consumption
Nitrite
Nitrate
Ammonium
SRP
sulfide
Iron
Manganese
chlorophyll a
pheophytin a
ISO_DateTime_Local
featureType
BCO-DMO Standard Parameters
Box Corer
Discrete water sampler
Flow Cytometer
Inorganic Carbon Analyzer
Liquid Scintillation Counter
Mass Spectrometer
Pump
Pump
instrument
BCO-DMO Standard Instruments
LDZ1
LDZ2
LDZ3
HRS100709BC
LDZ5
LDZ6
LDZ7
LDZ8
LDZ9
LDZ10
HRS110705BC
LDZ12
LDZ13
LDZ14
service
Deployment Activity
Chesapeake Bay
Chesapeake Bay central channel
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.
Life in the Dead Zone: Microbial respiration, production, diversity and gene expression in seasonally anoxic estuarine waters
https://osprey.bco-dmo.org/project/2261
Life in the Dead Zone: Microbial respiration, production, diversity and gene expression in seasonally anoxic estuarine waters
<p>Every summer in many estuaries and coastal margins, eutrophication-elevated phytoplankton production drives rapid bacterial respiration creating hypoxic and anoxic bottom waters. These so-called “dead zones” exclude fish, kill benthic organisms, and eliminate habitat. Despite their popular name, anoxic/hypoxic zones are not really dead, but rather are populated with living and very active microbial communities. In fact, bacterial production in anoxic waters can exceed that in overlying oxic waters due, in part, to reduced grazing and increased cell size and abundance. Once oxygen is depleted, microbial respiration undergoes a succession of redox reactions with decreasing energy yield as terminal electron acceptors are depleted (e.g., O2, NO3-, Mn(IV), Fe(III), and SO42-). This combination of high production and reduced growth efficiency creates a condition in which respiration may be very high, making anoxic zones significant sinks for organic matter and key sites for nutrient cycling.</p>
<p>Previous research documented respiratory succession in Chesapeake Bay bottom waters based on redox chemistry measurements. Heterotrophic bacterial production was very high at some stages of this succession, suggesting elevated respiration. Also, the phylogenetic composition of bacterioplankton communities in anoxic waters was similar to oxic surface waters for nearly half the summer, only changing after the appearance of H2S. This suggests that typical aerobic estuarine bacteria are able to shift to anaerobic metabolisms and continue to dominate.</p>
<p>Most of what is known about microbial respiration and community composition in anoxic water comes from studies of permanently anoxic systems like the Black Sea and Cariaco Basin. By comparison, very little is known about what is a much more common and more dynamic marine environment – seasonally anoxic estuarine waters. This proposal describes a 3-year integrated study to advance the quantitative and mechanistic understanding of biogeochemical cycling in one of the largest seasonal estuarine anoxic zones in the USA. It hypothesize that:</p>
<p>• Dominant sub-pycnocline respiratory processes undergo a succession from aerobic respiration to nitrate respiration and metal reduction to sulfate reduction.<br />
• Bacterial growth efficiency decreases with this respiratory succession, but bacterial production remains high, resulting in very high carbon respiration rates.<br />
• Bacterial community composition changes little during respiratory succession until sulfate respiration dominates (i.e., the sulfide threshold), but gene expression closely tracks changes in redox conditions in order to support the most energetic respiratory processes.</p>
<p>These hypotheses will be addressed by quantifying carbon respiration rates using several techniques including delta CO2; quantifying bacterial production, biomass and growth efficiency; and characterizing succession in the composition and respiratory gene expression patterns of microbial communities in water column and sediments during each stage of respiratory succession. This project will integrate biogeochemical, biological, and genomic data to explain how biogeochemistry influences, and is influenced by, microbial respiration, production, diversity, and gene expression.</p>
<p>The proposed research will provide (1) reliable measurements of production and respiration in anoxic/hypoxic waters, (2) techniques applicable to other ecosystems, and (3) ecological insight for predicting future changes with ongoing restoration efforts in anoxia-impacted estuaries. These measurements will be useful for calibrating biogeochemical models and for estimating carbon budgets. This research will train two graduate students and one postdoctoral scientist in several state-of-the-art geochemical and molecular biology techniques. Applications will be submitted to the NSF Research Experiences for Teachers program to engage two teachers to work on this project and to participate in the seven-week Environmental Science Education Partnership (ESEP) Teacher Research Fellowship Program (<a href="http://www.esep.umces.edu">www.esep.umces.edu</a>) at UMCES Horn Point Laboratory. New discoveries will be incorporated into graduate-level courses entitled Aquatic Microbial Ecology, Biological Oceanography, and Environmental Geochemistry. Nucleic acid sequences will be deposited in online repositories including GenBank.</p>
LiDZ
largerWorkCitation
project
eng; USA
oceans
Chesapeake Bay; Chesapeake Bay central channel
-76.446
-76.1718
37.7746
39.0414
2010-10-18
2011-04-18
Chesapeake Bay
0
BCO-DMO catalogue of parameters from Depth profiles of oceanographic parameters in spring and summer from R/V Terrapin, R/V Hugh R. Sharp multiple cruises in Chesapeake Bay, 2010-2011 (LiDZ 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
http://lod.bco-dmo.org/id/dataset-parameter/517919.rdf
Name: sample_num
Units: nd
Description: <p>arbitrary</p>
http://lod.bco-dmo.org/id/dataset-parameter/517920.rdf
Name: date_local
Units: Eastern Daylight Time
Description: <p>Date</p>
http://lod.bco-dmo.org/id/dataset-parameter/517921.rdf
Name: time_local
Units: 24-hour clock
Description: <p>HH:MM</p>
http://lod.bco-dmo.org/id/dataset-parameter/517922.rdf
Name: platform
Units: nd
Description: <p>Ship used to collect samples</p>
http://lod.bco-dmo.org/id/dataset-parameter/517923.rdf
Name: cruise
Units: text
Description: <p>Internal cruise number</p>
http://lod.bco-dmo.org/id/dataset-parameter/517924.rdf
Name: cruise_new
Units: text
Description: <p>UNOLS cruise identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/517925.rdf
Name: filtered
Units: text
Description: <p>indicates whether a sample was prefiltered before measuring N2_rate;O2_rate; and DIC_rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/517926.rdf
Name: cast
Units: alphanumeric
Description: <p>Depth station number for each CTD and pump cast; WC1 is near surface and WC8 is near bottom.</p>
http://lod.bco-dmo.org/id/dataset-parameter/517927.rdf
Name: cast_new
Units: numeric
Description: <p>Depth station number for each CTD and pump cast without the alpha</p>
http://lod.bco-dmo.org/id/dataset-parameter/517928.rdf
Name: depth
Units: meters
Description: <p>Sampling depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/517929.rdf
Name: lat
Units: degrees
Description: <p>Latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/517930.rdf
Name: lon
Units: degrees
Description: <p>Longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/517931.rdf
Name: cond
Units: microsiemens per centimeter
Description: <p>Conductivity: Measured with a SBE 25 on the R/V Terrapin and SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics</p>
http://lod.bco-dmo.org/id/dataset-parameter/517932.rdf
Name: temp
Units: degrees celsius
Description: <p>Temperature: Measured with a SBE 25 on the R/V Terrapin and SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics</p>
http://lod.bco-dmo.org/id/dataset-parameter/517933.rdf
Name: sal
Units: salinity
Description: <p>Salinity: Measured with a SBE 25 on the R/V Terrapin and SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics</p>
http://lod.bco-dmo.org/id/dataset-parameter/517934.rdf
Name: O2_conc
Units: milligrams per liter
Description: <p>oxygen concentration: Measured with a SBE 25 on the R/V Terrapin and SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics</p>
http://lod.bco-dmo.org/id/dataset-parameter/517935.rdf
Name: O2_sat
Units: percent saturation
Description: <p>oxygen saturation: Measured with a SBE 25 on the R/V Terrapin and SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics</p>
http://lod.bco-dmo.org/id/dataset-parameter/517936.rdf
Name: fluor
Units: milligrams per cubic meter
Description: <p>Fluorescence: Measured with a WETStar sensor; WET Labs</p>
http://lod.bco-dmo.org/id/dataset-parameter/517937.rdf
Name: N2_rate
Units: micromoles per liter hour
Description: <p>Nitrogen production rate: (TF-T0) / hr (Importantly this is the number which is multiplied by -2 to make unit of uM N2-N/h)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517938.rdf
Name: O2_rate
Units: micromoles per liter hour
Description: <p>Oxygen consumption rate: Measured with membrane inlet mass spectrometer during short incubations in gas-tight BOD bottles</p>
http://lod.bco-dmo.org/id/dataset-parameter/517939.rdf
Name: DIC_rate
Units: micromoles per liter hour
Description: <p>Dissolved inorganic carbon production rate: Measured with an infrared CO2 detector during short incubations in gas-tight BOD bottles</p>
http://lod.bco-dmo.org/id/dataset-parameter/517940.rdf
Name: NO2
Units: micromolar
Description: <p>Nitrite: Measured with segmented flow analysis after cadmium reduction (Lane et al. 2000)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517941.rdf
Name: NO3
Units: micromolar
Description: <p>Nitrate: Measured with segmented flow analysis after cadmium reduction (Lane et al. 2000)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517942.rdf
Name: NH4
Units: micromolar
Description: <p>Ammonium: Measured colorimetrically (Brewer and Spencer 1971; Parsons et al. 1984)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517943.rdf
Name: SRP
Units: micromolar
Description: <p>Soluble reactive phosphorous: Measured colorimetrically (Brewer and Spencer 1971; Parsons et al. 1984)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517944.rdf
Name: H2S
Units: micromolar
Description: <p>Total dissolved sulfide (DS = [S2-] + [HS-] + [H2S]): Measured colorimetrically (Brewer and Spencer 1971; Parsons et al. 1984)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517945.rdf
Name: Fe
Units: milligrams per liter
Description: <p>Dissolved iron (II): Measured colorimetrically (Brewer and Spencer 1971; Parsons et al. 1984)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517946.rdf
Name: Mn
Units: micromolar
Description: <p>Dissolved manganese (III and II): Measured colorimetrically (Brewer and Spencer 1971; Parsons et al. 1984)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517947.rdf
Name: BP
Units: micrograms carbon per liter hour
Description: <p>Bacterial Production: Calculated from the rate of incorporation of tritiated L-leucine in 1-hour incubations at ambient temperature and redox conditions</p>
http://lod.bco-dmo.org/id/dataset-parameter/517948.rdf
Name: Chla
Units: micrograms per liter
Description: <p>Chlorophyll a: Measured with a fluorometric method (Arar & Collins 1997)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517949.rdf
Name: Pheophytin_a
Units: micrograms per liter
Description: <p>Phaeophytin a: Measured with a fluorometric method (Arar & Collins 1997)</p>
http://lod.bco-dmo.org/id/dataset-parameter/517950.rdf
Name: Cell_Counts
Units: cells per milliliter
Description: <p>flow cytometry counts of prokaryotic cells</p>
http://lod.bco-dmo.org/id/dataset-parameter/518426.rdf
Name: ISO_DateTime_Local
Units: YYYY-mm-ddTHH:MM:SS.ss
Description: <p>ISO8601-compliant date/time standard</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
44371
https://datadocs.bco-dmo.org/file/g77yqw9sPgD06K/water_samples.csv
water_samples.csv
Primary data file for dataset ID 515368
download
https://osprey.bco-dmo.org/dataset/515368/data/download
download
onLine
dataset
<p><a href="http://dmoserv3.bco-dmo.org/data_docs/LiDZ/water_sample_collection.html" target="_blank"><u>SAMPLE COLLECTION</u></a></p>
from Cruise: LDZ1 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ2 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin; Sea-Bird Electronics) and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ3 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin; Sea-Bird Electronics) and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: HRS100709BC <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics) and fluorescence (WETStar, WET Labs) sensors. </p>
from Cruise: LDZ5 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ6 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin; Sea-Bird Electronics) and fluorescence (WETStar, WET Labs) sensors. </p>
from Cruise: LDZ7 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ8 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ9 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ10 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: HRS110705BC <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 911plus on R/V Hugh R. Sharp; Sea-Bird Electronics) and fluorescence (WETStar, WET Labs) sensors. </p>
from Cruise: LDZ12 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ13 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
from Cruise: LDZ14 <p>Vertical profiles at sampling stations were conducted from surface to near bottom depth with a Sea-Bird conductivity-temperature-depth (CTD) system with dissolved oxygen (SBE 25 on the R/V Terrapin); Sea-Bird Electronics and fluorescence (WETStar, WET Labs) sensors.</p>
Specified by the Principal Investigator(s)
<p><u><a href="http://dmoserv3.bco-dmo.org/data_docs/LiDZ/sample_analysis.html" target="_blank">SAMPLE ANALYSES</a></u></p>
<p><a href="http://dmoserv3.bco-dmo.org/data_docs/LiDZ/references.html" target="_blank">REFERENCES</a></p>
<p><strong>RELATED FILES AND REFERENCES</strong>:</p>
<p>16S amplicon DNA sequences to the Sequence Read Archive (SRA) at the National Center for Biotechnology Information (NCBI) under Accession SAMN02863536-SAMN02863970.</p>
<p>Metatranscriptomic sequence data to the BioProject Archive at NCBI under Accession PRJNA222777. http://www.ncbi.nlm.nih.gov/bioproject/PRJNA222777</p>
<p>Lee, D. Y., M. S. Owens, B. C. Crump, and J. C. Cornwell. 2014. The Effects of Oxygen Transition on Community Respiration and Potential Chemoautotrophic Production in a Seasonally Stratified Anoxic Estuary. Estuaries and Coasts. DOI 10.1007/s12237-014-9803-8. http://link.springer.com/article/10.1007/s12237-014-9803-8</p>
<p>Hewson, I., E. Eggleston, M. Doherty, D. Y. Lee, M. Owens, J. P. Shipleigh, J. C. Cornwell, and B. C. Crump. 2014. Metatranscriptomic analyses of plankton communities inhabiting surface and sub-pycnocline waters of the Chesapeake Bay during oxic-anoxic-oxic transitions. Applied And Environmental Microbiology 80:328-338. http://aem.asm.org/content/early/2013/10/21/AEM.02680-13</p>
<p><strong>DMO notes:</strong>&nbsp;<br />
Format or vocabulary adjustments to metadata primarily involved controlling the vocabulary and adding UNOLS names for the cruises.&nbsp;<br />
Date changed to date_local<br />
Time -&gt; time_local<br />
Vessel -&gt; platform<br />
Cruise -&gt; cruise&nbsp; [Inserted cruise_new&nbsp; to give column for UNOLS name]<br />
Lowercase Filtered, Cast, Depth [added cast_new to separate alpha and numeric for mapper]<br />
Abbreviated Latitude, Longiture, Conductivity, Temperature, Salinity, Fluorescence<br />
Decoded Oxygen1 -&gt; O2_conc and Oxygen2 -&gt; O2_rate</p>
<p>In keeping with BCO-DMO best practices, ISODateTime has been added as a formatted time column. At this time it is local time.</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
Box Corer
Box Corer
PI Supplied Instrument Name: Box Corer PI Supplied Instrument Description:Sediment cores were collected with an acrylic/PVC Soutar-design box corer to determine sediment-water fluxes. Instrument Name: Box Corer Instrument Short Name:Box Corer Instrument Description: General description of a box corer:
A box corer is a marine geological tool that recovers undisturbed soft surface sediments. It is designed for minimum disturbance of the sediment surface by bow wave effects. Traditionally, it consists of a weighted stem fitted to a square sampling box. The corer is lowered vertically until it impacts with the seabed. At this point the instrument is triggered by a trip as the main coring stem passes through its frame. While pulling the corer out of the sediment a spade swings underneath the sample to prevent loss. When hauled back on board, the spade is under the box. (definition from the SeaVox Device Catalog)
Box corers are one of the simplest and most commonly used types of sediment corers. The stainless steel sampling box can contain a surface sediment block as large as 50cm x 50cm x 75cm with negligible disturbance. Once the sediment is recovered onboard, the sediment box can be detached from the frame and taken to a laboratory for subsampling and further analysis. The core sample size is controlled by the speed at which the corer is lowered into the ocean bottom. When the bottom is firm, a higher speed is required to obtain a complete sample. A depth pinger or other depth indicator is generally used to determine when the box is completely filled with sediment. Once the core box is filled with sediment, the sample is secured by moving the spade-closing lever arm to lower the cutting edge of the spade into the sediment, until the spade completely covers the bottom of the sediment box. (definition from Woods Hole Oceanographic Institution). Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/51/
oxycline sampling device
oxycline sampling device
PI Supplied Instrument Name: oxycline sampling device PI Supplied Instrument Description:Samples were collected at 7 depths across the oxycline using a syringe-sampling device that simultaneously fills a total of 28 syringes (4 syringes every 20cm vertically) using a mechanical feature that gradually pulls the water into the syringes when triggered. In 2012, a new “oxycline sampling device” was developed that uses a multi-channel peristaltic pump to draw water from 8 depths across a 3m range. Instrument Name: Discrete water sampler Instrument Short Name: Instrument Description: A device that collects an in-situ discrete water sample from any depth and returns it to the surface without contamination by the waters through which it passes, such as a water bottle.
Flow Cytometer
Flow Cytometer
PI Supplied Instrument Name: Flow Cytometer PI Supplied Instrument Description:Enumeration was performed using a FACSCalibur flow cytometer (Becton Dickinson) using green fluorescence as an incident trigger, with a target range for sample event rates at 100-1000 particles s-1 to prevent incident coincidence.
(http://www.bdbiosciences.com/instruments/facscalibur/features/index.jsp) Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument Description: Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/
Apollo SciTech infrared-based analyzer
Apollo SciTech infrared-based analyzer
PI Supplied Instrument Name: Apollo SciTech infrared-based analyzer PI Supplied Instrument Description:Dissolved inorganic carbon (DIC = [H2CO3] + [HCO3-] + [CO32-]) was measured with an infrared-based analyzer (Apollo SciTech)
http://www.apolloscitech.com/DIC.htm Instrument Name: Inorganic Carbon Analyzer Instrument Short Name: Instrument Description: Instruments measuring carbonate in sediments and inorganic carbon (including DIC) in the water column.
Liquid Scintillation Analyzer
Liquid Scintillation Analyzer
PI Supplied Instrument Name: Liquid Scintillation Analyzer PI Supplied Instrument Description:Radioactivity, expressed as disintegration per minute (DPM), was counted in a liquid scintillation analyzer (Tri-Carb 3100TR, Packard). The Tri-Carb® 3100TR is a computer-controlled
benchtop liquid scintillation analyzer for detecting
small amounts of alpha, beta and gamma radioactivity. (http://shop.perkinelmer.com/Content/relatedmaterials/specificationsheets/spc_tricarb3100trlowactliquidscint.pdf) Instrument Name: Liquid Scintillation Counter Instrument Short Name:LSC Instrument Description: Liquid scintillation counting is an analytical technique which is defined by the incorporation of the radiolabeled analyte into uniform distribution with a liquid chemical medium capable of converting the kinetic energy of nuclear emissions into light energy. Although the liquid scintillation counter is a sophisticated laboratory counting system used to quantify the activity of particulate emitting (ß and a) radioactive samples, it can also detect the auger electrons emitted from 51Cr and 125I samples.
Liquid scintillation counters are instruments assaying alpha and beta radiation by quantitative detection of visible light produced by the passage of rays or particles through a suitable scintillant incorporated into the sample. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB21/
membrane inlet mass spectrometer
membrane inlet mass spectrometer
PI Supplied Instrument Name: membrane inlet mass spectrometer PI Supplied Instrument Description:"A membrane inlet mass spectrometer was modified to perform rapid, high-precision measurements of dissolved 02, and Ar in water. The instrument pumps water at < 1 mL per min through semipermeable microbore silicone; tubing positioned inside an inlet vacuum line of a quadrupole mass spectrometer. Precise pumping and temperature control of the water sample contribute to high signal stability and reproducibility. Dissolved gas concentrations are determined from intensities of the mass spectrometer signals in the multiple ion detection mode.
Precision (coefficient of variation) is Instrument Name: Mass Spectrometer Instrument Short Name:Mass Spec Instrument Description: General term for instruments used to measure the mass-to-charge ratio of ions; generally used to find the composition of a sample by generating a mass spectrum representing the masses of sample components. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/
Diaphragm Pump
Diaphragm Pump
PI Supplied Instrument Name: Diaphragm Pump PI Supplied Instrument Description:Water samples for chemistry and biological rate measurements were collected with a diaphragm pump with a 2.54 cm diameter hose attached to the CTD frame and ended with a conical PVC manifold distributing water to 16 tubings to fill sample vials. Instrument Name: Pump Instrument Short Name: Instrument Description: A pump is a device that moves fluids (liquids or gases), or sometimes slurries, by mechanical action. Pumps can be classified into three major groups according to the method they use to move the fluid: direct lift, displacement, and gravity pumps
Submersible Well Pump
Submersible Well Pump
PI Supplied Instrument Name: Submersible Well Pump PI Supplied Instrument Description:Water samples for DNA and RNA were collected with a submersible well pump (Tornado Pump, Groundwater Essentials) attached to the CTD Frame (R/V Sharp) or deployed by hand separately from the CTD (R/V Terrapin).
http://www.groundwateressentials.com/pumps/plastic-pumps-standard/tornado-dtw-100ft Instrument Name: Pump Instrument Short Name: Instrument Description: A pump is a device that moves fluids (liquids or gases), or sometimes slurries, by mechanical action. Pumps can be classified into three major groups according to the method they use to move the fluid: direct lift, displacement, and gravity pumps
Cruise: LDZ1
LDZ1
R/V Terrapin
vessel
LDZ1
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: LDZ2
LDZ2
R/V Terrapin
vessel
LDZ2
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: LDZ3
LDZ3
R/V Terrapin
vessel
LDZ3
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: HRS100709BC
HRS100709BC
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS100709BC
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: LDZ5
LDZ5
R/V Terrapin
vessel
LDZ5
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: LDZ6
LDZ6
R/V Terrapin
vessel
LDZ6
Byron C. Crump
Oregon State University
Cruise: LDZ7
LDZ7
R/V Terrapin
vessel
LDZ7
Byron C. Crump
Oregon State University
Cruise: LDZ8
LDZ8
R/V Terrapin
vessel
LDZ8
Byron C. Crump
University of Maryland Center for Environmental Science
Cruise: LDZ9
LDZ9
R/V Terrapin
vessel
LDZ9
Byron C. Crump
Oregon State University
Cruise: LDZ10
LDZ10
R/V Terrapin
vessel
LDZ10
Byron C. Crump
Oregon State University
Cruise: HRS110705BC
HRS110705BC
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel
HRS110705BC
Byron C. Crump
Oregon State University
Cruise: LDZ12
LDZ12
R/V Terrapin
vessel
LDZ12
Byron C. Crump
Oregon State University
Cruise: LDZ13
LDZ13
R/V Terrapin
vessel
LDZ13
Byron C. Crump
Oregon State University
Cruise: LDZ14
LDZ14
R/V Terrapin
vessel
LDZ14
Byron C. Crump
Oregon State University
R/V Terrapin
vessel
R/V Hugh R. Sharp
Community Standard Description
International Council for the Exploration of the Sea
R/V Hugh R. Sharp
vessel