http://lod.bco-dmo.org/id/dataset/629125
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
2015-12-17
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Upcast CTD profiles from R/V Pelican cruise PE16-01 from the Louisiana Shelf (hypoxic zone) and Gulf of Mexico from 2013 to 2104 (OMZ_Sulfur_Cycling project)
2015-12-15
publication
2015-12-15
revision
BCO-DMO Linked Data URI
2015-12-15
creation
http://lod.bco-dmo.org/id/dataset/629125
Frank James Stewart
Georgia Institute of Technology
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: Stewart, F. J. (2015) Upcast CTD profiles from R/V Pelican cruise PE16-01 from the Louisiana Shelf (hypoxic zone) and Gulf of Mexico from 2013 to 2104 (OMZ_Sulfur_Cycling project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 15 December 2015) Version Date 2015-12-15 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/629125 [access date]
CTD Profiles - Upcasts - ETNP Dataset Description: <p>CTD Profiles - Upcasts - ETNP - NH1315 and NH1410</p>
<p>Processed CTD data for cruise NH1315, Eastern Tropical North Pacific, June 2013<br />
Processed CTD data for cruise NH1410, Eastern Tropical North Pacific, June 2014</p>
<p>Eastern Tropical North Pacific (ETNP) oxygen minimum zone off Manzanillo, Mexico; sampling transects run southeast-northwest along the Colima coast (~19-24°N, 106-116°W) and northeast-southwest off the coast (~14-18°N, 106-115°W)</p>
<p>Measured parameters, including units are listed within the files.<br />
Upcasts only provided, to provide the best oxygen data.</p>
<p><strong>Supporting references describing data:</strong><br />
<a href="http://dmoserv3.whoi.edu/data_docs/OMZ_SulfurCycling/Duret_etal_2015_FEMS.pdf" target="_blank">Duret_etal_2015_FEMS.pdf</a><br />
<a href="http://dmoserv3.whoi.edu/data_docs/OMZ_SulfurCycling/Ganesh_etal_2015_ISME.pdf" target="_blank">Ganesh_etal_2015_ISME.pdf</a><br />
<a href="http://dmoserv3.whoi.edu/data_docs/OMZ_SulfurCycling/Glass_etal_2015_Frontiers_Microbiology.pdf" target="_blank">Glass_etal_2015_Frontiers_Microbiology.pdf</a><br />
<a href="http://dmoserv3.whoi.edu/data_docs/OMZ_SulfurCycling/Padilla_etal_2015_Frontiers_Microbiology.pdf" target="_blank">Padilla_etal_2015_Frontiers_Microbiology.pdf</a></p> Methods and Sampling: <p>Processed CTD data for cruise NH1315, Eastern Tropical North Pacific, June 2013<br />
Processed CTD data for cruise NH1410, Eastern Tropical North Pacific, June 2014</p>
<p>Eastern Tropical North Pacific (ETNP) oxygen minimum zone off Manzanillo, Mexico; sampling transects run southeast-northwest along the Colima coast (~19-24°N, 106-116°W) and northeast-southwest off the coast (~14-18°N, 106-115°W)</p>
<p>Measured parameters, including units are listed within the files.<br />
Upcasts only provided, to provide the best oxygen data.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1151698 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1151698
completed
Frank James Stewart
Georgia Institute of Technology
775-530-3627
Leon Johnson Hall 621
Bozeman
Montana
59715
USA
frank.stewart@montana.edu
pointOfContact
asNeeded
Dataset Version: 15 December 2015
Unknown
CruiseId
Station
Date
Time_Local
Latitude
Longitude
Scan_Count
Depth_db
Depth_m
Salinity
Temperature_ITS90
Potential_Temperature_ITS90
Density_sigma_theta
Oxygen_SBE43_raw
Oxygen_SBE43
Fluorescence
Flag
CTD unit, SBE 911 plus
Fluorometer, Seapoint
Oxygen sensor, SBE 43
theme
None, User defined
cruise id
station
date
time_local
latitude
longitude
scan
depth
salinity
water temperature at measurement depth
potential temperature
sigma-theta potential density
Oxygen in volts
dissolved Oxygen
fluorescence
flag
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird SBE 911plus
Fluorometer
Sea-Bird SBE 43 Dissolved Oxygen Sensor
instrument
BCO-DMO Standard Instruments
NH1315
NH1410
service
Deployment Activity
Eastern Tropical North Pacific (ETNP) oxygen minimum zone off Manzanillo, Mexico; sampling transects run southeast-northwest along the Colima coast (~19-24°N, 106-116°W) and northeast-southwest off the coast (~14-18°N, 106-115°W)
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.
A phylogenetic and functional understanding of microbial sulfur cycling in oxygen minimum zones
http://omz.biology.gatech.edu/
A phylogenetic and functional understanding of microbial sulfur cycling in oxygen minimum zones
<p>Oxygen concentration significantly impacts the community structure and function of marine ecosystems. In waters with low oxygen, including the major marine oxygen minimum zones (OMZs), biological diversity is dominated by a complex community of microorganisms whose anaerobic metabolisms mediate key steps in global nitrogen and carbon cycles. Surprisingly, new evidence indicates that OMZs also support diverse microorganisms capable of utilizing inorganic sulfur compounds for energy metabolism. This assemblage appears to include both sulfur-oxidizing autotrophs and sulfate-reducing heterotrophs, suggesting an active sulfur cycle with potentially substantial roles in organic carbon input and mineralization, as well as critical links to the OMZ nitrogen cycle. Our knowledge of the microorganisms driving OMZ sulfur cycling is based largely on the metagenome of a single bacterial lineage (SUP05) and on surveys of diagnostic marker genes, which have thus far targeted only a subset of the diverse low-oxygen regions in the global ocean. The metabolic diversity, activity, and biogeographic distribution of sulfur-metabolizing microorganisms in the OMZ water column remain largely unexplored.</p>
<p>This project uses an integrated molecular and experimental approach to critically examine the physiological and phylogenetic basis of microbial sulfur cycling in oxygen minimum zones. Combining targeted metagenomics with gene expression profiling, microcosm sulfur-addition experiments, and enrichment culturing, the PI will characterize sulfur-metabolizing microorganisms in two oceanographically and ecologically distinct low-oxygen regions: the Eastern Tropical North Pacific (ETNP) OMZ off Mexico, which represents the largest permanent OMZ in the world, and the seasonally hypoxic "dead zone" in the Gulf of Mexico (GOM). Specifically, they will test the hypotheses that sulfur- oxidizing and -reducing bacterioplankton 1) are abundant and transcriptionally active in the ETNP OMZ, 2) are minor components of the hypoxic GOM, but increase in activity and abundance when oxygen decreases and sulfide increases, and 3) exhibit biogeographic variation in functional gene content and phylogenetic diversity over vertical profiles, among OMZs, and in response to environmental gradients.</p>
<p>OMZs are predicted to expand in response to future climate change, making it imperative to holistically understand the biology of low-oxygen regions. This project will establish a comprehensive framework for studying the genomics and physiology of an ecologically important, but poorly characterized, functional group(s) of marine bacterioplankton in OMZs. Results will be analyzed relative to existing metagenomic data from the permanent Eastern Tropical South Pacific (ETSP) OMZ, and a second seasonal OMZ (Saanich Inlet), thereby establishing a comparative basis for describing the ecological distribution of pelagic sulfur-metabolizing microorganisms and their relative role in OMZ community metabolism.</p>
<p> </p>
OMZ_Sulfur_Cycling
largerWorkCitation
project
eng; USA
oceans
Eastern Tropical North Pacific (ETNP) oxygen minimum zone off Manzanillo, Mexico; sampling transects run southeast-northwest along the Colima coast (~19-24°N, 106-116°W) and northeast-southwest off the coast (~14-18°N, 106-115°W)
2015-12-15
Gulf of Mexico; Louisiana Shelf hypoxic zone; approx. 28-29 N, 89-94 W
0
BCO-DMO catalogue of parameters from Upcast CTD profiles from R/V Pelican cruise PE16-01 from the Louisiana Shelf (hypoxic zone) and Gulf of Mexico from 2013 to 2104 (OMZ_Sulfur_Cycling 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/629137.rdf
Name: CruiseId
Units: text
Description: <p>UNOLS Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/629138.rdf
Name: Station
Units: text
Description: <p>Station Id</p>
http://lod.bco-dmo.org/id/dataset-parameter/629139.rdf
Name: Date
Units: YYYYMMDD
Description: <p>Date</p>
http://lod.bco-dmo.org/id/dataset-parameter/629140.rdf
Name: Time_Local
Units: HHMM
Description: <p>Local Time (CST Z+7)</p>
http://lod.bco-dmo.org/id/dataset-parameter/629141.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude (South is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/629142.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude (West is negative)</p>
http://lod.bco-dmo.org/id/dataset-parameter/629143.rdf
Name: Scan_Count
Units: dimensionless
Description: <p>Scan Count</p>
http://lod.bco-dmo.org/id/dataset-parameter/629144.rdf
Name: Depth_db
Units: decibars
Description: <p>Depth (decibars)</p>
http://lod.bco-dmo.org/id/dataset-parameter/629145.rdf
Name: Depth_m
Units: meters
Description: <p>Depth (meters)</p>
http://lod.bco-dmo.org/id/dataset-parameter/629146.rdf
Name: Salinity
Units: psu
Description: <p>Salinity</p>
http://lod.bco-dmo.org/id/dataset-parameter/629147.rdf
Name: Temperature_ITS90
Units: Degrees Celsius
Description: <p>Temperature ITS90</p>
http://lod.bco-dmo.org/id/dataset-parameter/629148.rdf
Name: Potential_Temperature_ITS90
Units: Degrees Celsius
Description: <p>Potential Temperature ITS90</p>
http://lod.bco-dmo.org/id/dataset-parameter/629149.rdf
Name: Density_sigma_theta
Units: kg m-3
Description: <p>Density sigma_theta</p>
http://lod.bco-dmo.org/id/dataset-parameter/629150.rdf
Name: Oxygen_SBE43_raw
Units: mV
Description: <p>Oxygen SBE43 raw</p>
http://lod.bco-dmo.org/id/dataset-parameter/629151.rdf
Name: Oxygen_SBE43
Units: umol kg-1
Description: <p>Oxygen SBE43</p>
http://lod.bco-dmo.org/id/dataset-parameter/629152.rdf
Name: Fluorescence
Units: ug/l
Description: <p>Fluorescence</p>
http://lod.bco-dmo.org/id/dataset-parameter/629153.rdf
Name: Flag
Units: dimensionless
Description: <p>Flag</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
7011820
https://datadocs.bco-dmo.org/file/B11vMzGfROGElV/ETNP_CTD_Profiles.csv
ETNP_CTD_Profiles.csv
Primary data file for dataset ID 629125
download
https://osprey.bco-dmo.org/dataset/629125/data/download
download
onLine
dataset
<p>Processed CTD data for cruise NH1315, Eastern Tropical North Pacific, June 2013<br />
Processed CTD data for cruise NH1410, Eastern Tropical North Pacific, June 2014</p>
<p>Eastern Tropical North Pacific (ETNP) oxygen minimum zone off Manzanillo, Mexico; sampling transects run southeast-northwest along the Colima coast (~19-24°N, 106-116°W) and northeast-southwest off the coast (~14-18°N, 106-115°W)</p>
<p>Measured parameters, including units are listed within the files.<br />
Upcasts only provided, to provide the best oxygen data.</p>
Specified by the Principal Investigator(s)
<p><strong>Data Processing: </strong><br />
Using the SeaBird data processing software, with the following steps applied<br />
- Filter: applied to the pressure data only (low pass 0.15s)<br />
- Alignment: applied to the oxygen data only (using a value of 3)<br />
- Loop edit: to mark and remove scans when the CTD is moving less than minimum velocity (set at 0.2 m/s)<br />
- Binned: into 1m depth bins</p>
<p><strong>BCO-DMO Processing Notes</strong><br />
- Generated from original files "NH1315_CTD.xlsx" and "NH1410_CTD.xlsx" contributed by Frank Stewart<br />
- Parameter names edited to conform to BCO-DMO naming convention found at <a href="http://usjgofs.whoi.edu/naming-guidelines.html" target="_blank">Choosing Parameter Name</a><br />
- "nd" (no data) inserted into blank cells</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 unit, SBE 911 plus
CTD unit, SBE 911 plus
PI Supplied Instrument Name: CTD unit, SBE 911 plus PI Supplied Instrument Description:CTD unit, SBE 911 plus Instrument Name: CTD Sea-Bird SBE 911plus Instrument Short Name:CTD SBE 911plus Instrument Description: The Sea-Bird SBE 911 plus is a type of CTD instrument package for continuous measurement of conductivity, temperature and pressure. The SBE 911 plus includes the SBE 9plus Underwater Unit and the SBE 11plus Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9 plus and SBE 11 plus is called a SBE 911 plus. The SBE 9 plus uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 plus and SBE 4). The SBE 9 plus CTD can be configured with up to eight auxiliary sensors to measure other parameters including dissolved oxygen, pH, turbidity, fluorescence, light (PAR), light transmission, etc.). more information from Sea-Bird Electronics Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0058/
Fluorometer, Seapoint
Fluorometer, Seapoint
PI Supplied Instrument Name: Fluorometer, Seapoint PI Supplied Instrument Description:Fluorometer, Seapoint 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/
Oxygen sensor, SBE 43
Oxygen sensor, SBE 43
PI Supplied Instrument Name: Oxygen sensor, SBE 43 PI Supplied Instrument Description:Oxygen sensor, SBE 43 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/
Cruise: NH1315
NH1315
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel
NH1315
Frank James Stewart
Georgia Institute of Technology
Cruise: NH1410
NH1410
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel
NH1410
Frank James Stewart
Georgia Institute of Technology
http://dmoserv3.whoi.edu/data_docs/OMZ_SulfurCycling/Cruise_Report_NH1410.pdf
Report describing NH1410
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel