http://lod.bco-dmo.org/id/dataset/674781
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
2017-01-13
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Vent fluid chemistry from R/V Atlantis AT26-10 and AT26-23 in the East Pacific Rise, Pacific Ocean from 2013-2014 (Microbial Communities at Deep-Sea Vents project)
2017-01-13
publication
2017-01-13
revision
BCO-DMO Linked Data URI
2017-01-13
creation
http://lod.bco-dmo.org/id/dataset/674781
Jeffrey S. Seewald
Woods Hole Oceanographic Institution
principalInvestigator
Stefan M. Sievert
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: Seewald, J. S., Sievert, S. M. (2017) Vent fluid chemistry from R/V Atlantis AT26-10 and AT26-23 in the East Pacific Rise, Pacific Ocean from 2013-2014 (Microbial Communities at Deep-Sea Vents project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-01-13 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/674781 [access date]
Vent fluid chemistry from AT26-10 and AT26-23 Dataset Description: Methods and Sampling: <p>- All fluids were collected using isobaric gas-tight fluid samplers (Seewald et al., 2002).<br />
- Temperature was measured during sample collection using a type-J thermocouple attached to the inlet snorkel. Reported values are maximums observed during sample collection.</p>
<p><u>Analytical methods:</u><br />
pH: Ag/AgCl combination reference electrode<br />
Na+, K+, Ca2+, Mg2+, Cl-, Br-, SO42- : ion chromatography with suppressed conductivity detectionCH4: gas chromatography with flame ionization detection<br />
H2: gas chromatography with thermal conductivity detection</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1136727 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1136727
completed
Jeffrey S. Seewald
Woods Hole Oceanographic Institution
508-289-2966
Mail Stop #04 Fye 142A
Woods Hole
MA
02543
USA
jseewald@whoi.edu
pointOfContact
Stefan M. Sievert
Woods Hole Oceanographic Institution
508 289 2305
Biology Department Watson Bldg. MS #52
Woods Hole
MA
02543
USA
ssievert@whoi.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
cruise_id
lat
lon
sample
vent_site
temp
pH_25C
Na_mmol_kg
K_mmol_kg
Mg_mmol_kg
Ca_mmol_kg
Cl_mmol_kg
SO4_mmol_kg
Br_mmol_kg
H2S_mmol_L
H2_umol_L
CH4_umol_L
type-J thermocouple attached to the inlet snorkel
theme
None, User defined
Cruise identfier
latitude
longitude
sample identification
site
water temperature at measurement depth
pH
Sodium
potassium
Magnesium
Calcium
chloride
sulfate
bromides
sulfide
No BCO-DMO term
methane
featureType
BCO-DMO Standard Parameters
Isobaric Gas-Tight Sampler
ROV Jason
Water Temperature Sensor
instrument
BCO-DMO Standard Instruments
AT26-10
AT26-23_Alvin_Dives
AT26-23
service
Deployment Activity
East Pacific Rise, Pacific Ocean
East Pacific Rise
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.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Center for Dark Energy Biosphere Investigations
http://www.darkenergybiosphere.org
Center for Dark Energy Biosphere Investigations
The mission of the Center for Dark Energy Biosphere Investigations (C-DEBI) is to explore life beneath the seafloor and make transformative discoveries that advance science, benefit society, and inspire people of all ages and origins.
C-DEBI provides a framework for a large, multi-disciplinary group of scientists to pursue fundamental questions about life deep in the sub-surface environment of Earth. The fundamental science questions of C-DEBI involve exploration and discovery, uncovering the processes that constrain the sub-surface biosphere below the oceans, and implications to the Earth system. What type of life exists in this deep biosphere, how much, and how is it distributed and dispersed? What are the physical-chemical conditions that promote or limit life? What are the important oxidation-reduction processes and are they unique or important to humankind? How does this biosphere influence global energy and material cycles, particularly the carbon cycle? Finally, can we discern how such life evolved in geological settings beneath the ocean floor, and how this might relate to ideas about the origin of life on our planet?
C-DEBI's scientific goals are pursued with a combination of approaches:
(1) coordinate, integrate, support, and extend the research associated with four major programs—Juan de Fuca Ridge flank (JdF), South Pacific Gyre (SPG), North Pond (NP), and Dorado Outcrop (DO)—and other field sites;
(2) make substantial investments of resources to support field, laboratory, analytical, and modeling studies of the deep subseafloor ecosystems;
(3) facilitate and encourage synthesis and thematic understanding of submarine microbiological processes, through funding of scientific and technical activities, coordination and hosting of meetings and workshops, and support of (mostly junior) researchers and graduate students; and
(4) entrain, educate, inspire, and mentor an interdisciplinary community of researchers and educators, with an emphasis on undergraduate and graduate students and early-career scientists.
Note: Katrina Edwards was a former PI of C-DEBI; James Cowen is a former co-PI.
Data Management:
C-DEBI is committed to ensuring all the data generated are publically available and deposited in a data repository for long-term storage as stated in their Data Management Plan (PDF) and in compliance with the NSF Ocean Sciences Sample and Data Policy. The data types and products resulting from C-DEBI-supported research include a wide variety of geophysical, geological, geochemical, and biological information, in addition to education and outreach materials, technical documents, and samples. All data and information generated by C-DEBI-supported research projects are required to be made publically available either following publication of research results or within two (2) years of data generation.
To ensure preservation and dissemination of the diverse data-types generated, C-DEBI researchers are working with BCO-DMO Data Managers make data publicly available online. The partnership with BCO-DMO helps ensure that the C-DEBI data are discoverable and available for reuse. Some C-DEBI data is better served by specialized repositories (NCBI's GenBank for sequence data, for example) and, in those cases, BCO-DMO provides dataset documentation (metadata) that includes links to those external repositories.
C-DEBI
largerWorkCitation
program
An Integrated Study of Energy Metabolism, Carbon Fixation, and Colonization Mechanisms in Chemosynthetic Microbial Communities at Deep-Sea Vents
https://osprey.bco-dmo.org/project/2216
An Integrated Study of Energy Metabolism, Carbon Fixation, and Colonization Mechanisms in Chemosynthetic Microbial Communities at Deep-Sea Vents
<p></p><p>
Deep-sea hydrothermal vents, first discovered in 1977, are poster child ecosystems where microbial chemosynthesis rather than photosynthesis is the primary source of organic carbon. Significant gaps remain in our understanding of the underlying microbiology and biogeochemistry of these fascinating ecosystems. Missing are the identification of specific microorganisms mediating critical reactions in various geothermal systems, metabolic pathways used by the microbes, rates of the catalyzed reactions, amounts of organic carbon being produced, and the larger role of these ecosystems in global biogeochemical cycles. To fill these gaps, the investigators will conduct a 3-year interdisciplinary, international hypothesis-driven research program to understand microbial processes and their quantitative importance at deep-sea vents. Specifically, the investigators will address the following objectives: 1. Determine key relationships between the taxonomic, genetic and functional diversity, as well as the mechanisms of energy and carbon transfer, in deep-sea hydrothermal vent microbial communities. 2. Identify the predominant metabolic pathways and thus the main energy sources driving chemoautotrophic production in high and low temperature diffuse flow vents. 3. Determine energy conservation efficiency and rates of aerobic and anaerobic chemosynthetic primary productivity in high and low temperature diffuse flow vents. 4. Determine gene expression patterns in diffuse-flow vent microbial communities during attachment to substrates and the development of biofilms.
</p>
<p>
Integration: To address these objectives and to characterize the complexity of microbially-catalyzed processes at deep-sea vents at a qualitatively new level, we will pursue an integrated approach that couples an assessment of taxonomic diversity using cultivation-dependent and -independent approaches with methodologies that address genetic diversity, including a) metagenomics (genetic potential and diversity of community), b) single cell genomics (genetic potential and diversity of uncultured single cells), c) meta-transcriptomics and -proteomics (identification and function of active community members, realized potential of the community). To assess function and response to the environment, these approaches will be combined with 1) measurement of in situ rates of chemoautotrophic production, 2) geochemical characterization of microbial habitats, and 3) shipboard incubations under simulated in situ conditions (hypothesis testing under controlled physicochemical conditions). Network approaches and mathematical simulation will be used to reconstruct the metabolic network of the natural communities. A 3-day long project meeting towards the end of the second year will take place in Woods Hole. This Data Integration and Synthesis meeting will allow for progress reports and presentations from each PI, postdoc, and/or student, with the aim of synthesizing data generated to facilitate the preparation of manuscripts.
</p>
<p>
Intellectual Merit. Combining the community expression profile with diversity and metagenomic analyses as well as process and habitat characterization will be unique to hydrothermal vent microbiology. The approach will provide new insights into the functioning of deep-sea vent microbial communities and the constraints regulating the interactions between the microbes and their abiotic and biotic environment, ultimately enabling us to put these systems into a quantitative framework and thus a larger global context.
</p>
<p>
Broader Impacts. This is an interdisciplinary and collaborative effort between 4 US and 4 foreign institutions, creating unique opportunities for networking and fostering international collaborations. This will also benefit the involved students (2 graduate, several undergraduate) and 2 postdoctoral associates. This project will directly contribute to many educational and public outreach activities of the involved PIs, including the WHOI Dive & Discover program; single cell genomics workshops and Cafe Scientifique (Bigelow); REU (WHOI, Bigelow, CIW); COSEE and RIOS (Rutgers), and others. The proposed research fits with the focus of a number of multidisciplinary and international initiatives, in which PIs are active members (SCOR working group on Hydrothermal energy and the ocean carbon cycle, <a href="http://www.scorint">http://www.scorint</a>. org/Working_Groups/wg135.htm; Deep Carbon Observatory at CIW, <a href="https://dco.gl.ciw.edu/;">https://dco.gl.ciw.edu/;</a> Global Biogeochemical Flux (GBF) component of the Ocean Observatories Initiative (OOI), <a href="http://www.whoi.edu/GBF-OOI/page.do?pid=41475">http://www.whoi.edu/GBF-OOI/page.do?pid=41475</a>)
</p>
Microbial Communities at Deep-Sea Vents
largerWorkCitation
project
eng; USA
oceans
East Pacific Rise, Pacific Ocean; East Pacific Rise
-104.2912
-104.2912
9.8387
9.8387
2017-01-13
0
BCO-DMO catalogue of parameters from Vent fluid chemistry from R/V Atlantis AT26-10 and AT26-23 in the East Pacific Rise, Pacific Ocean from 2013-2014 (Microbial Communities at Deep-Sea Vents 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/674801.rdf
Name: cruise_id
Units: unitless
Description: <p>Cruise identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/674802.rdf
Name: lat
Units: degrees
Description: <p>Latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/674803.rdf
Name: lon
Units: degrees
Description: <p>Longitude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/674804.rdf
Name: sample
Units: unitless
Description: <p>Sample identifier</p>
http://lod.bco-dmo.org/id/dataset-parameter/674805.rdf
Name: vent_site
Units: unitless
Description: <p>Vent site name</p>
http://lod.bco-dmo.org/id/dataset-parameter/674806.rdf
Name: temp
Units: degrees Celsius
Description: <p>Temperature</p>
http://lod.bco-dmo.org/id/dataset-parameter/674807.rdf
Name: pH_25C
Units: unitless
Description: <p>pH at 25 degrees C</p>
http://lod.bco-dmo.org/id/dataset-parameter/674808.rdf
Name: Na_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Sodium concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674809.rdf
Name: K_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Potassium concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674810.rdf
Name: Mg_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Magnesium concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674811.rdf
Name: Ca_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Calcium concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674812.rdf
Name: Cl_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Chloride concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674813.rdf
Name: SO4_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Sulfate concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674814.rdf
Name: Br_mmol_kg
Units: millimoles/kilogram (mmol/kg)
Description: <p>Bromide concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674815.rdf
Name: H2S_mmol_L
Units: millimoles/kilogram (mmol/kg)
Description: <p>Hydrogen sulfide concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674816.rdf
Name: H2_umol_L
Units: micromoles/kilogram (umol/kg)
Description: <p>Hydrogen gas concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/674817.rdf
Name: CH4_umol_L
Units: micromoles/kilogram (umol/kg)
Description: <p>Methane concentration</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
3582
https://datadocs.bco-dmo.org/file/A88rznNs9n920E/vent_fluid_chemistry.csv
vent_fluid_chemistry.csv
Primary data file for dataset ID 674781
download
https://osprey.bco-dmo.org/dataset/674781/data/download
download
onLine
dataset
<p>- All fluids were collected using isobaric gas-tight fluid samplers (Seewald et al., 2002).<br />
- Temperature was measured during sample collection using a type-J thermocouple attached to the inlet snorkel. Reported values are maximums observed during sample collection.</p>
<p><u>Analytical methods:</u><br />
pH: Ag/AgCl combination reference electrode<br />
Na+, K+, Ca2+, Mg2+, Cl-, Br-, SO42- : ion chromatography with suppressed conductivity detectionCH4: gas chromatography with flame ionization detection<br />
H2: gas chromatography with thermal conductivity detection</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong><br />
-&nbsp;Added conventional header with dataset name, PI name, version date<br />
- Modified parameter names to conform with BCO-DMO naming conventions<br />
- Replaced blanks (missing data) and 'nd' to indicate 'no data'<br />
- Added cruise_id column</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
PI Supplied Instrument Name: PI Supplied Instrument Description:Used for sample collection Instrument Name: Isobaric Gas-Tight Sampler Instrument Short Name:IGT Sampler Instrument Description: Isobaric Gas Tight (IGT) samplers, designed and built by scientists and engineers at WHOI, are titanium instruments designed to be used with deep submergence vehicles to sample corrosive hydrothermal vent fluids at high temperature and high pressure. The IGT prevents the sampled fluid from degassing as pressure decreases during the vehicle’s ascent to the surface.
PI Supplied Instrument Name: Instrument Name: ROV Jason Instrument Short Name:ROV Jason Instrument Description: The Remotely Operated Vehicle (ROV) Jason is operated by the Deep Submergence Laboratory (DSL) at Woods Hole Oceanographic Institution (WHOI). WHOI engineers and scientists designed and built the ROV Jason to give scientists access to the seafloor that didn't require them leaving the deck of the ship. Jason is a two-body ROV system. A 10-kilometer (6-mile) fiber-optic cable delivers electrical power and commands from the ship through Medea and down to Jason, which then returns data and live video imagery. Medea serves as a shock absorber, buffering Jason from the movements of the ship, while providing lighting and a bird’s eye view of the ROV during seafloor operations. During each dive (deployment of the ROV), Jason pilots and scientists work from a control room on the ship to monitor Jason’s instruments and video while maneuvering the vehicle and optionally performing a variety of sampling activities. Jason is equipped with sonar imagers, water samplers, video and still cameras, and lighting gear. Jason’s manipulator arms collect samples of rock, sediment, or marine life and place them in the vehicle’s basket or on "elevator" platforms that float heavier loads to the surface. More information is available from the operator site at URL. https://ndsf.whoi.edu/jason/
type-J thermocouple attached to the inlet snorkel
type-J thermocouple attached to the inlet snorkel
PI Supplied Instrument Name: type-J thermocouple attached to the inlet snorkel PI Supplied Instrument Description:Used to measure in-situ temperature. Instrument Name: Water Temperature Sensor Instrument Short Name:Water Temp Sensor Instrument Description: General term for an instrument that measures the temperature of the water with which it is in contact (thermometer). Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/134/
Cruise: AT26-10
AT26-10
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT26-10
Stefan M. Sievert
Woods Hole Oceanographic Institution
http://dmoserv3.bco-dmo.org/data_docs/Microbe_Vent_Communities/AT26-10_Cruise_Report_v2_2015-07-09.pdf
Report describing AT26-10
Deployment: AT26-23_Alvin_Dives
AT26-23_Alvin_Dives
HOV Alvin
Community Standard Description
International Council for the Exploration of the Sea
HOV Alvin
submarine-manned
Cruise: AT26-23
AT26-23
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT26-23
Stefan M. Sievert
Woods Hole Oceanographic Institution
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
HOV Alvin
Community Standard Description
International Council for the Exploration of the Sea
HOV Alvin
submarine-manned