http://lod.bco-dmo.org/id/dataset/652313
eng; USA
utf8
dataset
Highest level of data collection, from a common set of sensors or instrumentation, usually within the same research project
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
pointOfContact
2016-07-22
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
CTD profiles collected in support of molecular samples from B/O Hermano Gines cruises for the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project)
2016-07-22
publication
2016-07-22
revision
BCO-DMO Linked Data URI
2016-07-22
creation
http://lod.bco-dmo.org/id/dataset/652313
Gordon T. Taylor
Stony Brook University - SoMAS
principalInvestigator
Virginia P. Edgcomb
Woods Hole Oceanographic Institution
principalInvestigator
Dr Craig Taylor
Woods Hole Oceanographic Institution
principalInvestigator
Biological and Chemical Oceanography Data Management Office (BCO-DMO)
Unavailable
508-289-2009
WHOI MS#36
Woods Hole
MA
02543
USA
info@bco-dmo.org
http://www.bco-dmo.org
Monday - Friday 8:00am - 5:00pm
For questions regarding this resource, please contact BCO-DMO via the email address provided.
publisher
Cite this dataset as: Taylor, G. T., Edgcomb, V. P., Taylor, C. (2016) CTD profiles collected in support of molecular samples from B/O Hermano Gines cruises for the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version Final) Version Date 2016-07-22 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/652313 [access date]
CTD profiles collected in support of molecular samples. Dataset Description: <p>These are CTD profiles as part of the Cariaco Metagenomics project, collecting standard CTD data and including fluorometry, several kinds of Oxygen measurements, stability and buoyancy at the CARIACO Basin time series station.</p> Methods and Sampling: <p>Standard Seabird 25 deployment and collection procedures.&nbsp; These data include both down and upcasts in 1 meter bins.<br />
&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1335436 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1335436
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1336082 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1336082
onGoing
Gordon T. Taylor
Stony Brook University - SoMAS
631-632-8688
Stony Brook University School of Marine and Atmospheric Sciences
Stony Brook
NY
11794-5000
USA
gordon.taylor@stonybrook.edu
pointOfContact
Virginia P. Edgcomb
Woods Hole Oceanographic Institution
508-289-3734
Department of Geology and Geophysics 220 McLean Lab, MS #8
Woods Hole
MA
02543
USA
vedgcomb@whoi.edu
pointOfContact
Dr Craig Taylor
Woods Hole Oceanographic Institution
508-289-2354
Mail Stop #52 Stanley W. Watson Laboratory for Biogeochemistry
Woods Hole
MA
02543
USA
ctaylor@whoi.edu
pointOfContact
asNeeded
Dataset Version: Final
Unknown
cruise_id
CTD_num
cast
month_utc
day_utc
year
time_start
lat_start
lon_start
depth_w
ISO_DateTime_UTC
press
depth
temp
cond
O2_volt
fluor
beamc
O2sat_ml_L
O2sat_mg_L
O2_ml_L
O2_mg_L
O2_umol_Kg
sigma_0
sigma_t
potemp
sal
E stability and N buoyancy terms
Seabird 25
theme
None, User defined
Cruise identfier
cast
month_utc
day_utc
year
time of day
latitude at start time of measurement
longitude at start time of measurement
depth_w
ISO_DateTime_UTC
water pressure
depth
water temperature at measurement depth
conductivity
Oxygen in volts
fluorescence
beam_c
O2 saturation
dissolved Oxygen
Dissolved_Oxygen
dissolved Oxygen
sigma-theta potential density
sigma-t
potential temperature
salinity
No BCO-DMO term
featureType
BCO-DMO Standard Parameters
Sea-Bird SBE 25 Sealogger CTD
instrument
BCO-DMO Standard Instruments
CAR212_2
CAR216_2
service
Deployment Activity
CARIACO Basin Time Series Station
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.
Genetic and Metabolic Signatures of Marine Microorganisms in Oxygen Depleted and Varying Geochemical Seascapes
https://osprey.bco-dmo.org/project/562425
Genetic and Metabolic Signatures of Marine Microorganisms in Oxygen Depleted and Varying Geochemical Seascapes
<p>Oxygen depleted water columns (ODWCs) appear to be expanding in response to global climate change. This alters trophic structure, compresses habitat and modifies geochemical cycles of major elements. Oxygen depletion can vary in intensity and duration from seasonal hypoxia to permanent anoxia. The focus of this study is a classic example of the anoxic end-member, the Cariaco Basin. The overall goal is to examine how microbial functional potential (metagenomic), activity (metatranscriptomic), taxonomic diversity (based on SSU rRNA) and the ecological/geochemical consequences (in terms of measured rates of key processes) relate along vertical oxygen/geochemical gradients and between seasons in the Cariaco Basin. This will reveal relationships between expression of particular sets of genes, environmental differences in nutrients, energy substrates and oxidant availabilities.</p>
<p>
The objectives are to: (1) Integrate hydrographic, geochemical and microbial ecological data with metagenomic and metatranscriptomic profiles to understand regulatory and metabolic networks defining microbial community responses to environmental forcing during high and low productivity periods. This will help to understand the importance of processes, such as anaerobic oxidation of methane, utilization of redox-sensitive metals, the cryptic sulfur cycle in this ODWC, and the impacts of oxygen depletion on nitrogen transformations. (2) Determine the importance of associations between microbial eukaryotes (mEuks) and prokaryotes in this ODWC. (3) Identify "indicator" genes of known or unknown function that may be relevant to major elemental and trace gas cycling as targets for further biochemical characterization and molecular probe development, and quantify a key subset of these genes and transcripts across redox gradients using qPCR. (4) Provide a basis for developing monitoring tools using expressed genes indicative of important elemental transformations and fluxes for diagnosing the health status of natural and human engineered ecosystems. (5) Compare results with recent and ongoing studies of other ODWCs to discern shared and unique attributes of these systems.</p>
<p>Intellectual Merit: Previous studies of ODWCs have underscored the need for more data on microbial community structure and functionality in ODWCs, particularly biochemical rate measurements and other data on community responses to changing conditions. Better predictive models of responses of marine microbial communities and biogeochemical processes to global climate change are essential for informing future policy and management decisions. Data from an anoxic end-member ODWC like Cariaco Basin are critically needed to compare with data from other recent and ongoing studies of seasonally-depleted coastal systems and permanently-depleted deep basin and western boundary oxygen minimum zones (OMZs) to construct more skillful models. This study will advance the understanding of impacts of expanding ODWCs around the world, moving beyond assessments based only on taxonomic diversity, to yield new insights into the ecology and physiology of major microbial groups in these environments and interactions among Bacteria, Archaea and microbial eukaryotes.</p>
<p>Broader Impacts: The PIs and their collaborators will train one Research Associate, one postdoctoral investigator, a graduate student, and numerous undergraduates from SBU. All personnel will be trained in various aspects of microbial ecology and oceanography, with an emphasis on both traditional (e.g., microscopy) and "cutting edge" (e.g. metagenomics/transcriptomics) techniques. The PIs will also involve the Zephyr Education Foundation's marine science literacy and education program, located in Woods Hole, MA. The PIs will work with this organization to educate inner city K-12 students using local boat field trips organized by Zephyr, and lectures, and classroom laboratory exercises designed by the PIs. Additionally, this project will have broad implications for understanding how ODWCs affect marine ecosystems, and may influence future management strategies and models describing the cycling of C and N between the ocean and atmosphere.</p>
CariacoMetaOmics
largerWorkCitation
project
eng; USA
oceans
CARIACO Basin Time Series Station
2016-07-22
Southern Caribbean Sea - 10" 30' N, 64" 40' W (CARIACO Ocean Time Series Station)
0
BCO-DMO catalogue of parameters from CTD profiles collected in support of molecular samples from B/O Hermano Gines cruises for the CARIACO Basin Time Series Station from May to November 2014 (CariacoMetaOmics 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/652379.rdf
Name: cruise_id
Units: unitless
Description: <p>cruise designation</p>
http://lod.bco-dmo.org/id/dataset-parameter/652380.rdf
Name: CTD_num
Units: unitless
Description: <p>sequential CTD number</p>
http://lod.bco-dmo.org/id/dataset-parameter/652381.rdf
Name: cast
Units: unitless
Description: <p>cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/652382.rdf
Name: month_utc
Units: unitless
Description: <p>month of year; Universal Coordinated Time</p>
http://lod.bco-dmo.org/id/dataset-parameter/652383.rdf
Name: day_utc
Units: unitless
Description: <p>day of month; Universal Coordinated Time</p>
http://lod.bco-dmo.org/id/dataset-parameter/652384.rdf
Name: year
Units: unitless
Description: <p>year</p>
http://lod.bco-dmo.org/id/dataset-parameter/652385.rdf
Name: time_start
Units: unitless
Description: <p>time the cast started in hours and decimal minutes</p>
http://lod.bco-dmo.org/id/dataset-parameter/652386.rdf
Name: lat_start
Units: decimal degrees
Description: <p>latitude at start of cast; North is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/652387.rdf
Name: lon_start
Units: decimal degrees
Description: <p>longitude at start of cast; West is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/652388.rdf
Name: depth_w
Units: meters
Description: <p>water depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/652389.rdf
Name: ISO_DateTime_UTC
Units: YYYY-MM-DDTHH:MM:SS[.xx]Z
Description: <p>standardized time parameter</p>
http://lod.bco-dmo.org/id/dataset-parameter/652390.rdf
Name: press
Units: decibars
Description: <p>pressure by CTD strain gauge</p>
http://lod.bco-dmo.org/id/dataset-parameter/652391.rdf
Name: depth
Units: meters
Description: <p>depth of instrument</p>
http://lod.bco-dmo.org/id/dataset-parameter/652392.rdf
Name: temp
Units: degrees centigrade
Description: <p>temperature of water; ITS90</p>
http://lod.bco-dmo.org/id/dataset-parameter/652393.rdf
Name: cond
Units: Siemans per meter
Description: <p>conductivity</p>
http://lod.bco-dmo.org/id/dataset-parameter/652394.rdf
Name: O2_volt
Units: voltage
Description: <p>dissolved Oxygen</p>
http://lod.bco-dmo.org/id/dataset-parameter/652395.rdf
Name: fluor
Units: milligrams per cubic meters
Description: <p>fluorescence from Wetlab ECO-AFL/FL</p>
http://lod.bco-dmo.org/id/dataset-parameter/652396.rdf
Name: beamc
Units: 1/meters
Description: <p>beam attenuation; Chelsea SeaTech Wetlab Cstar</p>
http://lod.bco-dmo.org/id/dataset-parameter/652397.rdf
Name: O2sat_ml_L
Units: milliliters per liter
Description: <p>Oxygen saturation</p>
http://lod.bco-dmo.org/id/dataset-parameter/652398.rdf
Name: O2sat_mg_L
Units: milligrams per liter
Description: <p>Oxygen saturation</p>
http://lod.bco-dmo.org/id/dataset-parameter/652399.rdf
Name: O2_ml_L
Units: milliliters per liter
Description: <p>dissolved oxygen</p>
http://lod.bco-dmo.org/id/dataset-parameter/652400.rdf
Name: O2_mg_L
Units: milligram per liter
Description: <p>dissolved oxygen</p>
http://lod.bco-dmo.org/id/dataset-parameter/652401.rdf
Name: O2_umol_Kg
Units: micromoles per kilogram
Description: <p>dissolved oxygen</p>
http://lod.bco-dmo.org/id/dataset-parameter/652402.rdf
Name: sigma_0
Units: kilograms per cubic meter
Description: <p>sigma theta; potential density of seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/652403.rdf
Name: sigma_t
Units: kilograms per cubic meters
Description: <p>density of seawater</p>
http://lod.bco-dmo.org/id/dataset-parameter/652404.rdf
Name: potemp
Units: degrees centigrade
Description: <p>potential temperature; ITS90</p>
http://lod.bco-dmo.org/id/dataset-parameter/652405.rdf
Name: sal
Units: Practical Salinity Units(PSU)
Description: <p>salinity calculated from the primary CTD temp and conductivity sensors</p>
http://lod.bco-dmo.org/id/dataset-parameter/652406.rdf
Name: E stability and N buoyancy terms
Units: radians per second or cycles per hour
Description: <p>Calculated by Sea Bird CTD; calculates buoyancy (Brunt-Väisälä) frequency (N) and stability (E) using the Fofonoff adiabatic leveling method (Bray N. A. and N. P. Fofonoff(1981) Available potential energy for MODE eddies. Journal of Physical Oceanography 11 30-46.).</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
1786394
https://datadocs.bco-dmo.org/file/zqqA8V8Um3VzJQ/CTD.csv
CTD.csv
Primary data file for dataset ID 652313
download
https://osprey.bco-dmo.org/dataset/652313/data/download
download
onLine
dataset
<p>Standard Seabird 25 deployment and collection procedures.&nbsp; These data include both down and upcasts in 1 meter bins.<br />
&nbsp;</p>
Specified by the Principal Investigator(s)
<p>CTD files were processed according to the standard methods used by the CARIACO Time Series program, available in the manual at <a href="http://reef01.marine.usf.edu/sites/default/files/project/cariaco/publications/CARIACO_Methods_Manual.pdf">http://reef01.marine.usf.edu/sites/default/files/project/cariaco/publications/CARIACO_Methods_Manual.pdf</a>.</p>
<p><span style="font-size:11px"><strong>DMO Notes:</strong><br />
Created a top-level file of all CTDs from all cruises.<br />
renamed the column headers to comply with normal usages and BCO-DMO standards.<br />
changed -9.99E-29 to 'nd'.&nbsp; Changed blanks to 'nd'.</span></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
Seabird 25
Seabird 25
PI Supplied Instrument Name: Seabird 25 PI Supplied Instrument Description:With fluorometer, beam transmissometer, and several O2 sensors. Instrument Name: Sea-Bird SBE 25 Sealogger CTD Instrument Short Name:CTD SBE 25 Instrument Description: The Sea-Bird SBE 25 SEALOGGER CTD is battery powered and is typically used to record data in memory, eliminating the need for a large vessel, electrical sea cable, and on-board computer. All SBE 25s can also operate in real-time, transmitting data via an opto-isolated RS-232 serial port. Temperature and conductivity are measured by the SBE 3F Temperature sensor and SBE 4 Conductivity sensor (same as those used on the premium SBE 9plus CTD). The SBE 25 also includes the SBE 5P (plastic) or 5T (titanium) Submersible Pump and TC Duct. The pump-controlled, TC-ducted flow configuration significantly reduces salinity spiking caused by ship heave, and in calm waters allows slower descent rates for improved resolution of water column features. Pressure is measured by the modular SBE 29 Temperature Compensated Strain-Gauge Pressure sensor (available in eight depth ranges to suit the operating depth requirement). The SBE 25's modular design makes it easy to configure in the field for a wide range of auxiliary sensors, including optional dissolved oxygen (SBE 43), pH (SBE 18 or SBE 27), fluorescence, transmissivity, PAR, and optical backscatter sensors. More information from Sea-Bird Electronics: http:www.seabird.com. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0040/
Cruise: CAR212_2
CAR212_2
B/O Hermano Gines
vessel
Cruise: CAR216_2
CAR216_2
B/O Hermano Gines
vessel
B/O Hermano Gines
vessel