http://lod.bco-dmo.org/id/dataset/3689
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
2012-08-03
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Bottle and CTD data from the CARNE ASADA project from R/V New Horizon GoCAL4 in the Gulf of California and eastern tropical North Pacific from July to August 2008 (CARNE ASADA project)
2012-08-02
publication
2012-08-02
revision
BCO-DMO Linked Data URI
2012-08-02
creation
http://lod.bco-dmo.org/id/dataset/3689
John Michael Beman
University of Hawai'i
principalInvestigator
Brian N. Popp
University of Hawai'i
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: Beman, J. M., Popp, B. N. (2012) Bottle and CTD data from the CARNE ASADA project from R/V New Horizon GoCAL4 in the Gulf of California and eastern tropical North Pacific from July to August 2008 (CARNE ASADA project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 2012-08-02) Version Date 2012-08-02 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/3689 [access date]
Bottle and CTD data from the CARNE ASADA project Dataset Description: <p>Bottle nutrient data including Oxygen, Chlorophyl, and optical properies and corresponding CTD data from descrete depths associated with the '<span class="s1">C</span>ren<span class="s1">a</span>rchaeal <span class="s1">R</span>oles in <span class="s1">N</span>itrification in the <span class="s1">E</span>TNP: <span class="s1">As</span>sessing <span class="s1">A</span>bundance, <span class="s1">D</span>iversity, and <span class="s1">A</span>ctivity (CARNE ASADA)' project. &nbsp;</p>
<p>This dataset is preliminary and not yet finalized by the PI.</p> Methods and Sampling: <p>Temperature, conductivity and chlorophyll concentrations were measured using a Seabird SBE 9 conductivity-temperature-depth (CTD) sensor package equipped with a Seapoint fluorometer and photosynthetically active radiation sensor (Biospherical Instruments QSP-2300).</p>
<p>Nutrient and oxygen samples were collected using 10-liter PVC bottles deployed on the CTD rosette.&nbsp; NH4 concentrations were measured using fluorometric methods.&nbsp; NO2 and NO3 concentrations were measured using standard colormetric techniques.&nbsp; Oxygen concentrations were measured using a SBE oxygen sensor and corrected based on Winkler titrations.</p>
<p>For additional information on sampling and analytical methods, see<a href="http://dmoserv3.whoi.edu/data_docs/GoCal4/BEMAN12_LO.pdf"> Beman et al. 2012 Limnology and Oceanography 57: 711-726&nbsp;</a></p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1034943 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1034943
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0824997 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0824997
onGoing
John Michael Beman
University of Hawai'i
650-823-7925
5200 North Lake Road
Merced
CA
95343
USA
jmbeman@gmail.com
pointOfContact
Brian N. Popp
University of Hawai'i
808-956-6206
Department of Earth Sciences 1680 East-West Road
Honolulu
HI
96822
USA
popp@hawaii.edu
pointOfContact
asNeeded
Dataset Version: 2012-08-02
Unknown
cruise_id
station
date
time_local
lon
lat
depth_w
depth
NH4
NO2
NO3
PO4
temp1
temp2
sal
density
PAR
SPAR
trans
chl_a
O2_umol_kg
O2_sat_pcnt
SPAR_pcnt
station_pub
CTD Sea-Bird 9
Fluorometer
Niskin bottle
Photosynthetically Available Radiation Sensor
SBE 43 Dissolved Oxygen Sensor
Transmissometer
theme
None, User defined
Cruise identifier
station
date
time_local
longitude
latitude
depth_w
depth
Ammonium
Nitrite
Nitrate
reactive phosphorus (PO4)
water temperature at measurement depth
salinity
density
PAR
SPAR
transmission
chlorophyll a
dissolved Oxygen
Dissolved oxygen (percent)
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird 9
Fluorometer
Niskin bottle
Photosynthetically Available Radiation Sensor
Sea-Bird SBE 43 Dissolved Oxygen Sensor
Transmissometer
instrument
BCO-DMO Standard Instruments
GoCAL4
service
Deployment Activity
Gulf of California and eastern tropical North Pacific
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.
The role of marine Crenarchaeota in nitrification and links among biogeochemical processes in the eastern tropical North Pacific and Gulf of California
https://osprey.bco-dmo.org/project/2231
The role of marine Crenarchaeota in nitrification and links among biogeochemical processes in the eastern tropical North Pacific and Gulf of California
<p>Nitrification, the two-step oxidation of ammonia to nitrate via nitrite, plays a critical role in the global nitrogen (N) cycle by changing the form in which N occurs, and consequently influencing the accessibility and availability of N to different groups of organisms and biogeochemical processes, indeed, the processes responsible for the fixation and removal of N from the ocean may ultimately be connected by nitrification. It has long been assumed that the first and rate-limiting step of nitrification, ammonia oxidation, is restricted to a few groups within the domain Bacteria. However, the recent discovery of ammonia-oxidizing Archaea (AOA) has seriously challenged our understanding of the microbial ecology and biogeochemistry of nitrification in the ocean.</p>
<p>In this project, researchers at Stanford University and the University of Hawaii at Manoa will attempt to constrain quantitatively the contribution of marine Crenarchaeota to oceanic nitrification and investigate connections to other forms of nitrogen metabolism in the Gulf of California (GOC) and the eastern tropical North Pacific (ETNP). The specific objectives are to: (1) quantify 15N-ammonium oxidation rates, and bacterial and archaeal amoA genes and transcripts, at seven stations in the upper water column (0-100m) of the GOC and ETNP; (2) determine if Crenarchaeota are actively fixing inorganic carbon (i.e., autotrophic) based on uptake of 13C--labeled bicarbonate into archaeal membrane lipids; (3) quantify nitrite oxidation rates and nitrite-oxidizer abundances at the same depths and stations; (4) extend these measurements to multiple depths within the oxygen minimum zone (OMZ); (5) examine potential coupling between ammonia-oxidizing archaea and nitrogen loss processes in the OMZ of the GOC and ETNP, and (6) place our results in a broader oceanographic perspective by tying into NSF-funded work examining nitrogen fixation in N-deficient waters ultimately generated in OMZs. The researchers predict that marine Crenarchaeota will play a dominant role in ammonia oxidation-based on amoA abundance, gene expression, active fixation of isotopically-labeled inorganic carbon, and correlation to measured rates?in both the upper water column and OMZ. They also expect that metabolic coupling between AOA and both oxidative (nitrite oxidation) and reductive N metabolisms (e.g., anammox) will be apparent. </p>
<p>With regard to broader impacts, nitrification plays a pivotal role in linking organic matter mineralization to anaerobic nitrogen removal, and this project will provide critical information regarding how nitrification and the underlying microbial communities are influenced by key environmental gradients, as well as their connections to other N-cycling processes. Ultimately, this multi-disciplinary study should provide insights into the ecology and regulation of this biogeochemically-important process in all marine systems. The proposed research has excellent educational opportunities, and the PIs have a history of successfully mentoring and graduating Masters and/or Ph.D. students and fostering student publications and presentations at national meetings. Undergraduate, graduate, and postdoctoral education will be furthered through active participation in the cruise and post-cruise analyses, where students will work collaboratively with experts in molecular microbial ecology and stable isotope biogeochemistry, and learn a spectrum of state-of-the-art experimental and analytical methods.</p>
CARNE ASADA
largerWorkCitation
project
eng; USA
oceans
Gulf of California and eastern tropical North Pacific
2012-08-02
Gulf of California and Eastern Tropical Northern Pacific
0
BCO-DMO catalogue of parameters from Bottle and CTD data from the CARNE ASADA project from R/V New Horizon GoCAL4 in the Gulf of California and eastern tropical North Pacific from July to August 2008 (CARNE ASADA 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/29025.rdf
Name: cruise_id
Units: dimensionless
Description: <p>cruise id, originally submitted as 'cruise'</p>
http://lod.bco-dmo.org/id/dataset-parameter/29037.rdf
Name: station
Units: dimensionless
Description: <p>Station number given to stations at time of cruise. These designations differed from station numbers at time of publication. Distinction was added at the request of the PI.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29039.rdf
Name: date
Units: yyyy/mm/dd
Description: <p>Date, originally reported as format only (yyyy-mm-dd).</p>
http://lod.bco-dmo.org/id/dataset-parameter/29040.rdf
Name: time_local
Units: hh:mm
Description: <p>Local time in hours and minutes, originally reported as units only (hh:mm).</p>
http://lod.bco-dmo.org/id/dataset-parameter/29041.rdf
Name: lon
Units: decimal degrees
Description: <p>Longitude originally submitted in 360 degree format.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29042.rdf
Name: lat
Units: decimal degrees
Description: <p>Latitude in decimal degrees.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29043.rdf
Name: depth_w
Units: meters
Description: <p>Depth originally submitted as 'Bot. Depth'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29044.rdf
Name: depth
Units: meters
Description: <p>Sample or observation depth.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29045.rdf
Name: NH4
Units: nM
Description: <p>Ammonium, reported in nanoMolar concentration.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29046.rdf
Name: NO2
Units: microMolar
Description: <p>Nitrite reported in microMolar concentration.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29047.rdf
Name: NO3
Units: microMolar
Description: <p>Nitrate, reported in microMolar concentration.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29048.rdf
Name: PO4
Units: microMolar
Description: <p>Phosphate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29049.rdf
Name: temp1
Units: degrees Celsius
Description: <p>Water temperature at observation depth.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29050.rdf
Name: temp2
Units: degrees Celsius
Description: <p>Water temperature at observation depth.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29051.rdf
Name: sal
Units: ppt
Description: <p>Salinity reported in parts per thousand (permille) units, originally reported as 'salinity'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29053.rdf
Name: density
Units: kilograms/meter^3
Description: <p>Water density.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29055.rdf
Name: PAR
Units: uE/m^2/sec
Description: <p>Photosynthetically available radiation. Original PAR values equivalent to 1.0E12 were served as zero.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29056.rdf
Name: SPAR
Units: uE/m^2/sec
Description: <p>Surface photosynthetically available radiation.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29057.rdf
Name: trans
Units: percent
Description: <p>Light transmission.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29058.rdf
Name: chl_a
Units: micrograms/Liter
Description: <p>Chlorophyll pigment measurement, originally reported as chl.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29059.rdf
Name: O2_umol_kg
Units: micromoles/kg
Description: <p>Dissolved oxygen, originally reported as 'DO[umol/kg]'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29071.rdf
Name: O2_sat_pcnt
Units: percent
Description: <p>Oxygen saturation reported as DO in percent, originally reported as 'DO[%]'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/29291.rdf
Name: SPAR_pcnt
Units: percent
Description: <p>Percentage of surface PAR, originally submitted as 'SPAR[%]'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/30271.rdf
Name: station_pub
Units: dimensionless
Description: <p>Station number at time of publication. These designations differ from those given at the time of the cruise. This distinction was added at the request of the PI.</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
36643
https://datadocs.bco-dmo.org/file/3YY3qWKf2z0lZ1/GoCal4.csv
GoCal4.csv
Primary data file for dataset ID 3689
download
https://osprey.bco-dmo.org/dataset/3689/data/download
download
onLine
dataset
<p>Temperature, conductivity and chlorophyll concentrations were measured using a Seabird SBE 9 conductivity-temperature-depth (CTD) sensor package equipped with a Seapoint fluorometer and photosynthetically active radiation sensor (Biospherical Instruments QSP-2300).</p>
<p>Nutrient and oxygen samples were collected using 10-liter PVC bottles deployed on the CTD rosette.&nbsp; NH4 concentrations were measured using fluorometric methods.&nbsp; NO2 and NO3 concentrations were measured using standard colormetric techniques.&nbsp; Oxygen concentrations were measured using a SBE oxygen sensor and corrected based on Winkler titrations.</p>
<p>For additional information on sampling and analytical methods, see<a href="http://dmoserv3.whoi.edu/data_docs/GoCal4/BEMAN12_LO.pdf"> Beman et al. 2012 Limnology and Oceanography 57: 711-726&nbsp;</a></p>
Specified by the Principal Investigator(s)
<p><b>BCO-DMO Processing Notes</b><br />
Generated from original file CARNE_BCODMO.csv</p>
<div><b>BCO-DMO Edits</b><br />
- Edited header parameters names to conform to BCO-DMO convention, of note:</div>
<div>&nbsp;&nbsp; - chl edited to 'chl_a'</div>
<div>&nbsp;&nbsp; - DO[umol/kg] edited to 'O2_umol_kg'</div>
<div>&nbsp;&nbsp; - DO[%] edited to 'O2_sat_pcnt'</div>
<div>&nbsp;&nbsp; - yyy-mm-dd edited to 'time_local'</div>
<div>- Edited missing data (e.g., no data, no sample collected) to 'nd'<br />
- Edited reported Latitude from 360 degree to +/-180 degree representation<br />
- Separated date and time; included ISO-formatted date/time.</div>
<div>- values of PAR equal to 1.0E -12 were edited to zero (0)</div>
<div>- At request of PI, data column 'type' was removed from the served view of the data, but remains in the data file.</div>
<div>&nbsp;</div>
<div>NOTE:&nbsp;</div>
<div>Data columns for each parameter quality flag (*_QF) were removed from the served view of the data, but remain in the data file.&nbsp; These quality flags were added by ODV by default upon import and have subsequently followed the data.&nbsp; All quality flags (even for missing data) are set to &quot;1&quot; in the data file, which indicates &quot;unknown quality&quot; in the ODV software.</div>
<div>&nbsp;</div>
<div>At request of PI, a second column describing publication station names was added to the data file as 'station_pub'.&nbsp; The station number at time of sample collection (i.e. from the cruise) is named 'station'.</div>
<p>&nbsp;</p>
Specified by the Principal Investigator(s)
asNeeded
7.x-1.1
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
CTD Sea-Bird 9
CTD Sea-Bird 9
PI Supplied Instrument Name: CTD Sea-Bird 9 PI Supplied Instrument Description: SBE 9 CTD was equipped with a Seapoint Fluorometer and Biospherical Instruments QSP-2300 PAR sensor. Instrument Name: CTD Sea-Bird 9 Instrument Short Name:CTD SBE 9 Instrument Description: The Sea-Bird SBE 9 is a type of CTD instrument package. The SBE 9 is the Underwater Unit and is most often combined with the SBE 11 Deck Unit (for real-time readout using conductive wire) when deployed from a research vessel. The combination of the SBE 9 and SBE 11 is called a SBE 911. The SBE 9 uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 and SBE 4). The SBE 9 CTD can be configured with auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorometer, altimeter, etc.). Note that in most cases, it is more accurate to specify SBE 911 than SBE 9 since it is likely a SBE 11 deck unit was used. more information from Sea-Bird Electronics Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/130/
Fluorometer
Fluorometer
PI Supplied Instrument Name: Fluorometer PI Supplied Instrument Description:Seapoint fluorometer attached to a Seabird SBE 9 CTD Instrument Name: Fluorometer Instrument Short Name:Fluorometer Instrument Description: A fluorometer or fluorimeter is a device used to measure parameters of fluorescence: its intensity and wavelength distribution of emission spectrum after excitation by a certain spectrum of light. The instrument is designed to measure the amount of stimulated electromagnetic radiation produced by pulses of electromagnetic radiation emitted into a water sample or in situ. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/113/
Niskin bottle
Niskin bottle
PI Supplied Instrument Name: Niskin bottle PI Supplied Instrument Description:10-liter PVC bottles were deployed on the CTD rosette. Instrument Name: Niskin bottle Instrument Short Name:Niskin bottle Instrument Description: A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
Photosynthetically Available Radiation Sensor
Photosynthetically Available Radiation Sensor
PI Supplied Instrument Name: Photosynthetically Available Radiation Sensor PI Supplied Instrument Description:Biospherical Instruments PAR sensor model QSP-2300 was employed for PAR mesurements. Instrument Name: Photosynthetically Available Radiation Sensor Instrument Short Name:PAR sensor Instrument Description: A PAR sensor measures photosynthetically available (or active) radiation. The sensor measures photon flux density (photons per second per square meter) within the visible wavelength range (typically 400 to 700 nanometers). PAR gives an indication of the total energy available to plants for photosynthesis. This instrument name is used when specific type, make and model are not known. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/122/
SBE 43 Dissolved Oxygen Sensor
SBE 43 Dissolved Oxygen Sensor
PI Supplied Instrument Name: SBE 43 Dissolved Oxygen Sensor PI Supplied Instrument Description:Sensor values were corrected using Winkler titrations. Instrument Name: Sea-Bird SBE 43 Dissolved Oxygen Sensor Instrument Short Name:SBE-43 DO Instrument Description: The Sea-Bird SBE 43 dissolved oxygen sensor is a redesign of the Clark polarographic membrane type of dissolved oxygen sensors. more information from Sea-Bird Electronics Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0036/
Transmissometer
Transmissometer
PI Supplied Instrument Name: Transmissometer Instrument Name: Transmissometer Instrument Short Name:Transmissometer Instrument Description: A transmissometer measures the beam attenuation coefficient of the lightsource over the instrument's path-length. This instrument designation is used when specific manufacturer, make and model are not known. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/124/
Cruise: GoCAL4
GoCAL4
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel
GoCAL4
John Michael Beman
University of Hawai'i
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel