http://lod.bco-dmo.org/id/dataset/886536
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
2023-01-10
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Porewater geochemistry, including methane, CO2, sulfate, and sulfide from Guaymas Basin hydrothermal sediments collected on R/V Atlantis cruise AT15-56 in Nov-Dec 2009
2023-02-24
publication
2023-02-24
revision
BCO-DMO Linked Data URI
2023-02-24
creation
http://lod.bco-dmo.org/id/dataset/886536
Andreas Teske
University of North Carolina at Chapel Hill
principalInvestigator
Daniel B. Albert
University of North Carolina at Chapel Hill
principalInvestigator
Barbara J. MacGregor
University of North Carolina at Chapel Hill
principalInvestigator
Christopher S. Martens
University of North Carolina at Chapel Hill
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: Teske, A., MacGregor, B. J., Albert, D. B., Martens, C. S. (2023) Porewater geochemistry, including methane, CO2, sulfate, and sulfide from Guaymas Basin hydrothermal sediments collected on R/V Atlantis cruise AT15-56 in Nov-Dec 2009. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-02-24 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/886536 [access date]
AT15-56 Porewater Geochemistry Dataset Description: Methods and Sampling: <p><strong>Geochemical Analyses:</strong><br />
Sulfate concentration measurements were completed shipboard; after centrifuging sediment-filled 15-milliliter (ml) tubes, the overlying porewater was filtered through 0.45-micrometer (um) filters, acidified with 50 microliters (ul) of 50% HCl and bubbled with nitrogen for 4 minutes to remove sulfide. Sulfate concentrations were then measured shipboard using a 2010i Dionex Ion Chromatograph (Sunnyvale, CA, USA) through Ag exchange columns (Dionex) so as to remove Cl (Martens et al., 1999). For sulfide, 1 ml porewater samples were combined with 0.1 molar (M) zinc acetate and concentrations were analyzed spectrophotometrically on the ship (Cline, 1969).</p>
<p>Headspace methane concentrations were determined onboard by standard gas chromatography with a flame ionization detector (FID), specifically using a HACH Carle Series 100 AGC Gas Chromatograph (GC) with an Alltech Molecular Sieve 5A packed column (80/100 mesh, 3.05 meters (m) length, 3.2 millimeter internal diameter (mm ID)) and an 80 degree Celsius (C) isothermal temperature profile. Stable isotopic compositions of the same methane samples were measured post-cruise at the University of North Carolina (UNC) via gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS) on a Finnigan MAT 252 Isotope Ratio Mass Spectrometer, using an HP 5890 Series II Gas Chromatograph with an HP Plot Q column (30 m length, 0.32 mm ID, 20 um film thickness) and a 30 degree C isothermal temperature profile.</p>
<p>To measure DIC, 2 ml of unamended porewater from each sediment horizon were injected into evacuated serum vials (30 ml) and stored upside down at -20 degrees C. At UNC, the samples were thawed, and DIC was reacted to gaseous CO2 by adding 1 ml of a 30% phosphoric acid solution to each serum vial and shaking vigorously before GC analysis (Kelley et al., 1990). Stable isotopic values and concentrations of DIC were analyzed via coupled GC (Hewlett Packard 5890) and Isotope Ratio Mass Spectrometer (Finnigan MAT 252).</p>
<p>Porewater concentrations of dissolved organic acids were measured via High-Pressure Liquid Chromatography (HPLC) after the cruise, using a Beckman Model 332 gradient liquid chromatograph combined with an ISCO V4 UV/VIS detector and a Shimadzu CR3-A integrator (Albert and Martens, 1997).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0647633 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0647633
onGoing
Andreas Teske
University of North Carolina at Chapel Hill
508-287-1648
Department of Marine Sciences 3117B Venable Hall, CB 3300
Chapel Hill
NC
27599
USA
teske@email.unc.edu
pointOfContact
Daniel B. Albert
University of North Carolina at Chapel Hill
919-962-0298
Department of Marine Sciences Venable Hall, CB# 3300
Chapel Hill
NC
27599
USA
dan_albert@unc.edu
pointOfContact
Barbara J. MacGregor
University of North Carolina at Chapel Hill
USA
macgregb@umn.edu
pointOfContact
Christopher S. Martens
University of North Carolina at Chapel Hill
919-619-9251
Dept of Marine Sciences - CB-3300 3202 Venable Hall
Chapel Hill
NC
27599
USA
cmartens@email.unc.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Date
Alvin_Dive_Number
Core_Number
Dive_Core
Core_Depth_Range
Mid_Depth
Peak_Area
Calculated_SO4_Concentration
Sulfide
CH4_mM
d13C_CH4
DIC_mM
d13C_DIC
Notes_DIC
centrifuge
flame ionization detector (FID)
HACH Carle Series 100 AGC Gas Chromatograph
HP 5890 Series II Gas Chromatograph
Beckman Model 332 gradient liquid chromatograph
Alvin dives 4562-4574
2010i Dionex Ion Chromatograph
Finnigan MAT 252 Isotope Ratio Mass Spectrometer
theme
None, User defined
date
dive_id
core id
sample identification
depth core
No BCO-DMO term
sulfate
sulfide
methane
d13C
dissolved inorganic Carbon
comments
featureType
BCO-DMO Standard Parameters
Centrifuge
Flame Ionization Detector
Gas Chromatograph
Hewlett Packard 5890 Series II gas chromatograph
High-Performance Liquid Chromatograph
HOV Alvin
Ion Chromatograph
Isotope-ratio Mass Spectrometer
instrument
BCO-DMO Standard Instruments
AT15-56
AT15-56_Alvin_Dives
service
Deployment Activity
Guaymas Basin
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.
Microbial carbon and sulfur cycling in the hydrothermally altered sediments of Guaymas Basin
https://sites.google.com/site/teskelab/Home/guaymas-basin
Microbial carbon and sulfur cycling in the hydrothermally altered sediments of Guaymas Basin
<p>While microbial communities in marine sediments are generally sustained by sedimentation of organic matter from the water column, the Guaymas Basin hydrothermal sediments provide a model system for the microbial utilization and transformation of thermally released microbial substrates from deeply buried marine organic matter. Thermal generation of subsurface organic carbon compounds is usually restricted to deeply buried subsurface sediments, where it sustains deep subsurface microbiota. However, in the Guaymas Basin, the thermally generated organic substrates of subsurface origin fuel a complex microbial ecosystem in surficial sediments that can be sampled by submersible. As a working hypothesis, the physiologically distinct, layered microbial communities force the geothermally produced substrates through a double “microbial gauntlet” of anaerobic metabolism and autotrophic carbon fixation, where terminal anaerobic degradation of organic matter is performed by methanogenic and methane-oxidizing archaea, by sulfate-reducing bacteria and archaea, and (to be tested) by novel subsurface archaeal populations within the upper sediments, while inorganic and organic remineralization products are assimilated by sulfur-oxidizing <em>Beggiatoa</em> mats at the sediment surface. We aim at a quantitative understanding of how the dense and highly active benthic microbial populations of the Guaymas system utilize and recycle organic and inorganic carbon and sulfur of subsurface origin, how geochemical controls affect the community structure, and how uncultured, globally occurring subsurface archaea and bacteria thrive in their sediment habitat. More generally, microbial utilization and recycling of deeply buried, fossil carbon and sulfur in benthic sediments and the sedimentary subsurface is a “seldom seen“ but essential part of these microbially driven processes in the marine biosphere. To analyze the complex interplay of thermogenic and biogenic carbon sources and sinks, and the role of uncultured microbial populations in these processes, geochemical and molecular-biological approaches are integrated and combined. The microbial community composition and activity patterns will be analyzed quantitatively (rRNA membrane slot blot hybridization; single-strand rRNA conformation polymorphism) and with qualitative diversity surveys (PCR, cloning and sequencing). Carbon assimilation patterns in specific functional and phylogenetic groups of prokaryotes will be analyzed using carbon-isotopic analysis of ribosomal RNA, intact polar lipids, and whole microbial cells (using FISH-SIMS). Carbon substrate profiles and microbial process rates (sulfate reduction, methanogenesis, methane oxidation) across hydrothermally active sediment sites and down-core will correlate microbial populations and substrate utilization. Stable carbon isotopic analysis of key microbial substrates will further constrain the microbial utilization patterns of isotopically distinct carbon pools in specific sediment layers.</p>
<p>To summarize, in situ and lab results indicate that newly discovered, phylogenetically distinct populations of Anaerobic Methane-oxidizing archaea (ANMEs) in Guaymas Basin, and their presumed syntrophic bacterial partners, are capable of methane oxidation at high temperatures, at least up to 70-75°C. Isotopically light carbon (indicative of a methane-derived contribution) permeates into sedimentary microbial populations and microbial mats in hydrothermally active areas, as shown by 13C analysis of extracted bacterial and archaeal rRNA. Manipulative incubations with Guaymas sediments suggest a mode of anaerobic methane oxidation which appears to operate uncoupled to sulfate reduction, and requires near in situ methane concentration. Rigorous testing is required for validation of the process and identification of the organisms responsible. High-temperature tolerant and sulfate-uncoupled anaerobic methane oxidation require re-evaluation of the classical controls of this process, temperature and sulfate availability.</p>
<p>By installing autonomous temperature loggers in Guaymas sediments covered with <em>Beggiatoa</em> spp. mats, we have obtained continuous temperature profiles, from the sediment surface to 40 cm depth, over up to 11 days. In contrast to previous one-time temperature measurements that provided only a static snapshot, these data revealed substantial temperature fluctuations in the upper cm layers underlying orange <em>Beggiatoa</em> mats, indicative of fluctuations in hydrothermal flux and/or advective in-mixing of seawater. Such temperature regimes would select for eurythermal bacteria and archaea that tolerate a broad mesophilic/thermophilic temperature range, or for microbial communities that consist of members with different temperature optima, that co-occur or overlap in the same sediment layer but vary in activity depending on temperature and associated geochemical conditions.</p>
<p>Anaerobic microbial processes in sediments (sulfate reduction, remineralization of biomass, anaerobic methane oxidation) produce DIC and sulfide that, in turn, sustain the <em>Beggiatoa</em> mats, assuming autotrophic capability. To examine this link between sediment processes and surface mats, we quantified temperature gradients, porewater concentration gradients (sulfide, sulfate, methane, DIC, volatile organic acids), and 13C-isotopic signatures of methane and DIC underneath orange and white <em>Beggiatoa</em> mats (differentiated by 16S rRNA sequencing), and the bare sediment. The steepest temperature and porewater concentration gradients (sulfide and DIC) are mostly found under orange <em>Beggiatoa</em> mats that occur in the center of <em>Beggiatoa</em> patches. Temperature and geochemical gradients are attenuated under white <em>Beggiatoa mats</em>, which surround the orange mats in a sunny-side up pattern, and flatten out or disappear in the surrounding mat-free sediment</p>
<p>We are annotating the genome of an orange <em>Beggiatoa</em> spp. from Guaymas Basin [taxonomically revised as <em>Maribeggiatoa</em>], recovered from a single filament after whole genome amplification. Sequencing was completed at JCVI, supported by the Gordon and Betty Moore Foundation. The single-filament genome is not completely assembled, but is of approximately the expected total length and includes a full complement of ribosomal protein, tRNA, and tRNA synthetase genes. So far, the genome content is broadly consistent with a nitrate-reducing, facultatively autotrophic sulfur-oxidizing bacterium.</p>
<p><strong>Publications associated with this project are as follows:</strong><br />
Note: this is now a list of all publications that use samples collected from the NSF-funded Guaymas cruises AT15-40 and AT15-56. All these publications were funded from NSF award OCE-0647633, the grant that funded these two cruises. Those publications that were written and published after 2013 continue to use samples collected and analyzed on cruises AT15-40 and AT15-56 under NSF award OCE-0647633, but the effort in analyzing the data and writing the manuscript also relied on funding by OCE-1357238. Since we will not have new samples until late in 2016, current work and publications on OCE-1357238 will continue to rely on samples collected during cruises AT15-40 and AT15-56.</p>
<p>Holler, T. F. Widdel, K. Knittel, R. Amann, M. Y. Kellermann, K.-. Hinrichs, A. Teske, A. Boetius, and G. Wegener. 2011. Thermophilic anaerobic oxidation of methane by marine microbial consortia. The ISME Journal 5:1946-1956. doi:<a href="http://dx.doi.org/10.1038/ismej.2011.77" target="_blank">10.1038/ismej.2011.77</a></p>
<p>Biddle, J.F., Z. Cardman, H. Mendlovitz, D.B. Albert, K.G. Lloyd, A. Boetius, and A. Teske. 2012. Anaerobic oxidation of methane at different temperature regimes in Guaymas Basin hydrothermal sediments. The ISME Journal 6:1018-1031. doi:<a href="http://dx.doi.org/10.1038/ismej.2011.164" target="_blank">10.1038/ismej.2011.164</a></p>
<p>McKay, L.J., B.J. MacGregor, J.F. Biddle, H.P. Mendlovitz, D. Hoer, J.S. Lipp, K.G. Lloyd, and A.P. Teske. 2012. Spatial heterogeneity and underlying geochemistry of phylogenetically diverse orange and white <em>Beggiatoa</em> mats in Guaymas Basin hydrothermal sediments. Deep-Sea Research I, 67:21-31. doi:<a href="http://dx.doi.org/10.1016/j.dsr.2012.04.011" target="_blank">10.1016/j.dsr.2012.04.011</a></p>
<p>Bowles, M.W., L.M. Nigro, A.P. Teske, and S.B. Joye.. 2012. Denitrification and environmental factors influencing nitrate removal in Guaymas Basin hydrothermally-altered sediments. Frontiers in Microbiology 3:377. doi:<a href="http://dx.doi.org/10.3389/fmicb.2012.03377" target="_blank">10.3389/fmicb.2012.03377</a></p>
<p>MacGregor, B.J., J.F. Biddle, J.R. Siebert, E. Staunton, E. Hegg, A.G. Matthysse, and A. Teske. 2013. Why orange Guaymas Basin <em>Beggiatoa</em> spp. are orange: Single-filament genome-enabled identification of an abundant octaheme cytochrome with hydroxylamine oxidase, hydrazine oxidase and nitrite reductase activities. Applied and Environmental Microbiology 79:1183-1190. doi:<a href="http://dx.doi.org/10.1128/AEM.02538-12" target="_blank">10.1128/AEM.02538-12</a></p>
<p>MacGregor, B.J., J.F. Biddle, and A. Teske. 2013. Mobile elements in a single-filament orange Guaymas Basin <em>Beggiatoa</em> ("Candidatus Maribeggiatoa<em>"</em>) sp. draft genome; evidence for genetic exchange with cyanobacteria. Applied and Environmental Microbiology 79:3974-3985. doi:<a href="http://dx.doi.org/10.1128/AEM.03821-12" target="_blank">10.1128/AEM.03821-12</a></p>
<p>Meyer, S., G. Wegener, K.G. Lloyd, A. Teske, A. Boetius, and A. Ramette. 2013. Microbial habitat connectivity across spatial scales and hydrothermal temperature gradients at Guaymas Basin. Frontiers in Microbiology 4:207. doi:<a href="http://dx.doi.org/10.3389/fmic.2013.00207" target="_blank">10.3389/fmic.2013.00207</a></p>
<p>MacGregor, B.J., J.F. Biddle, C. Harbort, A.G. Matthysse, and A. Teske. 2013. Sulfide oxidation, nitrate respiration, carbon acquisition and electron transport pathways suggested by the draft genome of a single orange Guaymas Basin <em>Beggiatoa</em> (<em>Cand. </em>Maribeggiatoa) sp. filament. Marine Genomics 11:53-65. doi:<a href="http://dx.doi.org/10.1016/j.margen.2013.08.001" target="_blank">10.1016/j.margen.2013.08.001</a></p>
<p>Ruff, E., J.F. Biddle, A. Teske, K. Knittel, A. Boetius, and A. Ramette. 2015. Global dispersion and local diversification of the methane seep microbiome. Proc. Natl. Acad. Sci. USA, 112:4015-4020. doi:<a href="http://dx.doi.org/10.1073/pnas.1421865112" target="_blank">10.1073/pnas.1421865112</a></p>
<p>McKay, L., V. Klokman, H. Mendlovitz, D. LaRowe, M. Zabel, D. Hoer, D. Albert, D. de Beer, J. Amend, A. Teske. Thermal and geochemical influences on microbial biogeography in the hydrothermal sediments of Guaymas Basin. Environmental Microbiology, in revision.</p>
<p>Dowell, F., Z. Cardman, S. Dasarathy, M.Y. Kellermann, L.J. McKay, B.J. MacGregor, S.E. Ruff, J.F. Biddle, K.G. Lloyd, J.S. Lipp, K-U. Hinrichs, D.B. Albert, H. Mendlovitz, and A. Teske. Microbial communities in methane and short alkane-rich hydrothermal sediments of Guaymas Basin. Frontiers in Microbiology, In Revision.</p>
<p><strong><em>Conference abstracts (post 2013, only NSF-OCE 1357238):</em></strong><br />
B.J. MacGregor. 2014. Receiver (REC) domains in the orange Guaymas "Maribeggiatoa" (BOGUAY) draft genome: an evolutionary network of sensor networks. The Human and Environmental Microbiome Symposium 2014. Duke Center for the Genomics of Microbial Systems, Durham, NC.</p>
<p>B.J. MacGregot. 2015. Abundant intergenic repeats and a possible alternate RNA polymerase betra subunit in the orange Guaymas "Maribeggiatoa" genome. American Society for Microbiology 2015 General Meeting. New Orleans, LA.</p>
<p>Z. Cardman, L.J. McKay, E. Dowell, S. Dasarathy, V. Klokman, J.F. Biddle, K.G. Lloyd, H. Mendlovitz, D. Albert, M. Kellermann, K.-U. Hinrichs, B.J. MacGregir and A.P. Teske. 2014. American Society for Microbiology 2014 General Meeting. Boston, MA.</p>
Guaymas Basin Vents
largerWorkCitation
project
eng; USA
oceans
Guaymas Basin
-111.4091667
-111.4091667
27.007333
27.007333
2009-11-23
2009-12-04
Guaymas Basin hydrothermal vents, Southern Spreading segment, 27° 00.44N and 111° 24.55W; 2000 m water depth
0
BCO-DMO catalogue of parameters from Porewater geochemistry, including methane, CO2, sulfate, and sulfide from Guaymas Basin hydrothermal sediments collected on R/V Atlantis cruise AT15-56 in Nov-Dec 2009
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/890533.rdf
Name: Date
Units: unitless
Description: <p>Date of sample collection/dive</p>
http://lod.bco-dmo.org/id/dataset-parameter/890534.rdf
Name: Alvin_Dive_Number
Units: unitless
Description: <p>Alvin dive number</p>
http://lod.bco-dmo.org/id/dataset-parameter/890535.rdf
Name: Core_Number
Units: unitless
Description: <p>Core number</p>
http://lod.bco-dmo.org/id/dataset-parameter/890536.rdf
Name: Dive_Core
Units: unitless
Description: <p>Identifier composed of dive number and core number</p>
http://lod.bco-dmo.org/id/dataset-parameter/890537.rdf
Name: Core_Depth_Range
Units: centimeters (cm)
Description: <p>Depth range within the core</p>
http://lod.bco-dmo.org/id/dataset-parameter/890538.rdf
Name: Mid_Depth
Units: centimeters (cm)
Description: <p>Mid-depth within the core</p>
http://lod.bco-dmo.org/id/dataset-parameter/890539.rdf
Name: Peak_Area
Units: ?
Description: <p>Peak area</p>
http://lod.bco-dmo.org/id/dataset-parameter/890540.rdf
Name: Calculated_SO4_Concentration
Units: millimolar (mM)
Description: <p>Calculated porewater SO4-2 concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/890541.rdf
Name: Sulfide
Units: millimolar (mM)
Description: <p>Sulfide porewater concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/890542.rdf
Name: CH4_mM
Units: millimolar (mM)
Description: <p>Methane porewater concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/890543.rdf
Name: d13C_CH4
Units: per mil?
Description: <p>delta 13C of methane values</p>
http://lod.bco-dmo.org/id/dataset-parameter/890544.rdf
Name: DIC_mM
Units: millimolar (mM)
Description: <p>Dissolved inorganic carbon (DIC) porewater concnetration</p>
http://lod.bco-dmo.org/id/dataset-parameter/890545.rdf
Name: d13C_DIC
Units: per mil?
Description: <p>delta 13C of DIC values</p>
http://lod.bco-dmo.org/id/dataset-parameter/890546.rdf
Name: Notes_DIC
Units: unitless
Description: <p>Notes on DIC measurements</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
https://osprey.bco-dmo.org/dataset/886536/data/download
download
onLine
dataset
<p><strong>Geochemical Analyses:</strong><br />
Sulfate concentration measurements were completed shipboard; after centrifuging sediment-filled 15-milliliter (ml) tubes, the overlying porewater was filtered through 0.45-micrometer (um) filters, acidified with 50 microliters (ul) of 50% HCl and bubbled with nitrogen for 4 minutes to remove sulfide. Sulfate concentrations were then measured shipboard using a 2010i Dionex Ion Chromatograph (Sunnyvale, CA, USA) through Ag exchange columns (Dionex) so as to remove Cl (Martens et al., 1999). For sulfide, 1 ml porewater samples were combined with 0.1 molar (M) zinc acetate and concentrations were analyzed spectrophotometrically on the ship (Cline, 1969).</p>
<p>Headspace methane concentrations were determined onboard by standard gas chromatography with a flame ionization detector (FID), specifically using a HACH Carle Series 100 AGC Gas Chromatograph (GC) with an Alltech Molecular Sieve 5A packed column (80/100 mesh, 3.05 meters (m) length, 3.2 millimeter internal diameter (mm ID)) and an 80 degree Celsius (C) isothermal temperature profile. Stable isotopic compositions of the same methane samples were measured post-cruise at the University of North Carolina (UNC) via gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS) on a Finnigan MAT 252 Isotope Ratio Mass Spectrometer, using an HP 5890 Series II Gas Chromatograph with an HP Plot Q column (30 m length, 0.32 mm ID, 20 um film thickness) and a 30 degree C isothermal temperature profile.</p>
<p>To measure DIC, 2 ml of unamended porewater from each sediment horizon were injected into evacuated serum vials (30 ml) and stored upside down at -20 degrees C. At UNC, the samples were thawed, and DIC was reacted to gaseous CO2 by adding 1 ml of a 30% phosphoric acid solution to each serum vial and shaking vigorously before GC analysis (Kelley et al., 1990). Stable isotopic values and concentrations of DIC were analyzed via coupled GC (Hewlett Packard 5890) and Isotope Ratio Mass Spectrometer (Finnigan MAT 252).</p>
<p>Porewater concentrations of dissolved organic acids were measured via High-Pressure Liquid Chromatography (HPLC) after the cruise, using a Beckman Model 332 gradient liquid chromatograph combined with an ISCO V4 UV/VIS detector and a Shimadzu CR3-A integrator (Albert and Martens, 1997).</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><br />
- combined the following original files/sheets into one dataset:<br />
-- sheet named "Annotated clean data" of file named "guaymas methane 2009.xls"<br />
-- sheet named "Clean Data" of file named "Guaymas DIC 2009.xls"<br />
-- sulfate and sulfide data in file named "Sulfate_sulfide_temperatures 2009.xlsx" (re-organized from separate sheets into one table)<br />
- renamed fields to comply with BCO-DMO naming conventions.</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
centrifuge
centrifuge
PI Supplied Instrument Name: centrifuge Instrument Name: Centrifuge Instrument Short Name: Instrument Description: A machine with a rapidly rotating container that applies centrifugal force to its contents, typically to separate fluids of different densities (e.g., cream from milk) or liquids from solids.
flame ionization detector (FID)
flame ionization detector (FID)
PI Supplied Instrument Name: flame ionization detector (FID) PI Supplied Instrument Description:Headspace methane concentrations were determined onboard by standard gas chromatography with a flame ionization detector (FID). Instrument Name: Flame Ionization Detector Instrument Short Name:FID Instrument Description: A flame ionization detector (FID) is a scientific instrument that measures the concentration of organic species in a gas stream. It is frequently used as a detector in gas chromatography. Standalone FIDs can also be used in applications such as landfill gas monitoring, fugitive emissions monitoring and internal combustion engine emissions measurement in stationary or portable instruments.
HACH Carle Series 100 AGC Gas Chromatograph
HACH Carle Series 100 AGC Gas Chromatograph
PI Supplied Instrument Name: HACH Carle Series 100 AGC Gas Chromatograph PI Supplied Instrument Description:Headspace methane concentrations were determined onboard by standard gas chromatography with a flame ionization detector (FID). Instrument Name: Gas Chromatograph Instrument Short Name:Gas Chromatograph Instrument Description: Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/
HP 5890 Series II Gas Chromatograph
HP 5890 Series II Gas Chromatograph
PI Supplied Instrument Name: HP 5890 Series II Gas Chromatograph PI Supplied Instrument Description:Stable isotopic compositions of the methane samples were measured via gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS) on a Finnigan MAT 252 Isotope Ratio Mass Spectrometer, using a HP 5890 Series II Gas Chromatograph with a HP Plot Q column (30 m length, 0.32 mm ID, 20 um film thickness) and a 30 degree C isothermal temperature profile.
Stable isotopic values and concentrations of DIC were analyzed via coupled GC (Hewlett Packard 5890) and Isotope Ratio Mass Spectrometer (Finnigan MAT 252). Instrument Name: Hewlett Packard 5890 Series II gas chromatograph Instrument Short Name:HP 5890 Series II GC Instrument Description: A gas chromatograph that separates and analyses compounds that do not degrade or decompose in the gas phase. The sample is dissolved in a solvent and vaporised in the instrument. A chemically inert gas, (e.g. helium or nitrogen) carries the vaporised analyte through a stationary phase which is coated inside the capillary column that is maintained at an elevated temperature. The analyte mixture separates on the stationary phase leading to chromatographic separation of the molecules. The HP 5890 Series II is completely customisable depending on the application, with choices of inlets, columns, detectors, sampling systems, flow and pressure control components. Optional detectors include Flame Ionization Detector (FID), Nitrogen-Phosphorus Detector (NPD), Electron Capture Detector (ECD), Thermal Conductivity Detector (TCD), Photoionisation Detector (PID), Flame Photometric Detector (FPD) and mass spectrometer. The instrument was originally manufactured by Hewlett Packard (HP), but part of this business was sold to Agilent Technologies in 1999. This model is no longer in production.
Beckman Model 332 gradient liquid chromatograph
Beckman Model 332 gradient liquid chromatograph
PI Supplied Instrument Name: Beckman Model 332 gradient liquid chromatograph PI Supplied Instrument Description:Porewater concentrations of dissolved organic acids were measured via High-Pressure Liquid Chromatography (HPLC) after the cruise, using a Beckman Model 332 gradient liquid chromatograph combined with an ISCO V4 UV/VIS detector and a Shimadzu CR3-A integrator. Instrument Name: High-Performance Liquid Chromatograph Instrument Short Name:HPLC Instrument Description: A High-performance liquid chromatograph (HPLC) is a type of liquid chromatography used to separate compounds that are dissolved in solution. HPLC instruments consist of a reservoir of the mobile phase, a pump, an injector, a separation column, and a detector. Compounds are separated by high pressure pumping of the sample mixture onto a column packed with microspheres coated with the stationary phase. The different components in the mixture pass through the column at different rates due to differences in their partitioning behavior between the mobile liquid phase and the stationary phase. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB11/
Alvin dives 4562-4574
Alvin dives 4562-4574
PI Supplied Instrument Name: Alvin dives 4562-4574 Instrument Name: HOV Alvin Instrument Short Name: Instrument Description: Human Occupied Vehicle (HOV) Alvin is part of the National Deep Submergence Facility (NDSF). Alvin enables in-situ data collection and observation by two scientists to depths reaching 6,500 meters, during dives lasting up to ten hours.
Commissioned in 1964 as one of the world’s first deep-ocean submersibles, Alvin has remained state-of-the-art as a result of numerous overhauls and upgrades made over its lifetime. The most recent upgrades, begun in 2011 and completed in 2021, saw the installation of a new, larger personnel sphere with a more ergonomic interior; improved visibility and overlapping fields of view; longer bottoms times; new lighting and high-definition imaging systems; improved sensors, data acquisition and download speed. It also doubled the science basket payload, and improved the command-and-control system allowing greater speed, range and maneuverability.
With seven reversible thrusters, it can hover in the water, maneuver over rugged topography, or rest on the sea floor. It can collect data throughout the water column, produce a variety of maps and perform photographic surveys. Alvin also has two robotic arms that can manipulate instruments, obtain samples, and its basket can be reconfigured daily based on the needs of the upcoming dive.
Alvin's depth rating of 6,500m gives researchers in-person access to 99% of the ocean floor. Alvin is a proven and reliable platform capable of diving for up to 30 days in a row before requiring a single scheduled maintenance day. Recent collaborations with autonomous vehicles such as Sentry have proven extremely beneficial, allowing PIs to visit promising sites to collect samples and data in person within hours of their being discovered, and UNOLs driven technological advances have improved the ability for scientific outreach and collaboration via telepresence
Alvin is named for Allyn Vine, a WHOI engineer and geophysicist who helped pioneer deep submergence research and technology.
(from https://www.whoi.edu/what-we-do/explore/underwater-vehicles/hov-alvin/, accessed 2022-09-09)
2010i Dionex Ion Chromatograph
2010i Dionex Ion Chromatograph
PI Supplied Instrument Name: 2010i Dionex Ion Chromatograph Instrument Name: Ion Chromatograph Instrument Short Name:Ion Chromatograph Instrument Description: Ion chromatography is a form of liquid chromatography that measures concentrations of ionic species by separating them based on their interaction with a resin. Ionic species separate differently depending on species type and size. Ion chromatographs are able to measure concentrations of major anions, such as fluoride, chloride, nitrate, nitrite, and sulfate, as well as major cations such as lithium, sodium, ammonium, potassium, calcium, and magnesium in the parts-per-billion (ppb) range. (from http://serc.carleton.edu/microbelife/research_methods/biogeochemical/ic.html)
Finnigan MAT 252 Isotope Ratio Mass Spectrometer
Finnigan MAT 252 Isotope Ratio Mass Spectrometer
PI Supplied Instrument Name: Finnigan MAT 252 Isotope Ratio Mass Spectrometer PI Supplied Instrument Description:Stable isotopic compositions of the methane samples were measured via gas chromatography-combustion-isotope ratio mass spectrometry (GC-C-IRMS) on a Finnigan MAT 252 Isotope Ratio Mass Spectrometer, using a HP 5890 Series II Gas Chromatograph with a HP Plot Q column (30 m length, 0.32 mm ID, 20 um film thickness) and a 30 degree C isothermal temperature profile.
Stable isotopic values and concentrations of DIC were analyzed via coupled GC (Hewlett Packard 5890) and Isotope Ratio Mass Spectrometer (Finnigan MAT 252). Instrument Name: Isotope-ratio Mass Spectrometer Instrument Short Name:IR Mass Spec; IRMS Instrument Description: The Isotope-ratio Mass Spectrometer is a particular type of mass spectrometer used to measure the relative abundance of isotopes in a given sample (e.g. VG Prism II Isotope Ratio Mass-Spectrometer). Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB16/
Cruise: AT15-56
AT15-56
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT15-56
Andreas Teske
University of North Carolina at Chapel Hill
http://www.marine.whoi.edu/at_synop.nsf/9452cb38d8d28f30852568cd004b8077/13f181c7f933dbac052574e4006399a9?OpenDocument
Report describing AT15-56
Deployment: AT15-56_Alvin_Dives
AT15-56_Alvin_Dives
HOV Alvin
Community Standard Description
International Council for the Exploration of the Sea
HOV Alvin
submarine-manned
AT15-56_Alvin_Dives
Andreas Teske
University of North Carolina at Chapel Hill
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