http://lod.bco-dmo.org/id/dataset/936596
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
2024-09-04
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Composition and concentration of individual biomarkers in particulate organic carbon collected during two cruises to the Amazon River plume during R/V Knorr cruise KN197-08 in 2010 and R/V Melville cruise MV1110 in 2011
2024-09-06
publication
2024-09-06
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2024-09-06
publication
https://doi.org/10.26008/1912/bco-dmo.936596.1
Patricia M. Medeiros
University of Georgia
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: Medeiros, P. M. (2024) Composition and concentration of individual biomarkers in particulate organic carbon collected during two cruises to the Amazon River plume during R/V Knorr cruise KN197-08 in 2010 and R/V Melville cruise MV1110 in 2011. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-09-06 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.936596.1 [access date]
Amazon plume POC biomarkers Dataset Description: Methods and Sampling: <p>Particulate organic carbon (POC) samples were collected in the Amazon River plume and adjacent ocean in May/June 2010 during high river discharge conditions and in September/October 2011 during low river discharge (onboard the R/V Knorr and R/V Melville, respectively, as part of the ANACONDAS expeditions; Medeiros et al., 2015).</p>
<p>Stations sampled during high discharge conditions are labeled H followed by the station number, while during low discharge they are labeled L followed by the station number.</p>
<p>Suspended samples were collected at the surface (~2 meters (m)), immediately below the plume (at ~20 m) and at depth (~1000 m and 2000 m) using CTD-rosette casts. At key oceanic stations, more highly resolved vertical profiles were also collected, including samples at the chlorophyll-a maximum and oxygen minimum depths. Seawater was filtered through 0.7-micrometer (µm) Whatman GF/F filters (pre-combusted at 450 degrees Celsius (°C) for 5 hours), carefully wrapped using pre-combusted aluminum foil, and kept frozen at -20°C until analysis. Samples were processed within 1-2 weeks after the end of the expeditions, minimizing the effects of any possible degradation that may have occurred during storage.</p>
<p>Prior to analyses, POC samples were allowed to dry at room temperature. Biomarkers were extracted from dried POC samples as in Medeiros et al. (2012) with a mixture of dichloromethane:methanol (2:1, v/v) using accelerated solvent extraction (ASE 350, Dionex) at 100°C and 1000 psi (3 static cycles). The extracts were concentrated in a RapidVap to about 2 milliliters (mL), then further concentrated to 500 microliters (μL) using a stream of ultra-high purity nitrogen gas. Aliquots of the total extracts were converted to their trimethylsilyl derivatives using N,O-bis-(trimethylsilyl)trifluoroacetamide (BSTFA) containing 1% trimethylchlorosilane (TMCS) and pyridine (Pierce) for 3 hours at 70°C. Aliquots of 1 μL of silylated total extracts were analyzed within 24 hours using an Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS). A DB5-MS capillary column (30 m x 0.25 mm I.D. and film thickness of 0.25 μm) was used with helium as the carrier gas. The injector and MS source temperatures were maintained at 280°C and 230°C, respectively. The column temperature program consisted of injection at 65°C and hold for 2 minutes, temperature increase of 6°C per minute to 300°C, followed by an isothermal hold at 300°C for 15 minutes. The MS was operated in electron impact (EI) mode with an ionization energy of 70 eV. The scan range was set from 50 to 650 Da and the samples were analyzed in splitless mode.</p>
<p>Data were acquired and processed with the Agilent-Chemstation software. Individual compounds were identified by comparison of mass spectra with literature and library data, comparison of mass spectra and GC retention times with those of authentic standards and/or interpretation of mass spectrometric fragmentation patterns. Compounds were quantified using the total ion current (TIC) peak area and converted to compound mass using calibration curves of standards.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-0934095 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=0934095
Funding provided by Gordon and Betty Moore Foundation: Marine Microbiology Initiative (MMI) Award Number: GBMF2293
Funding provided by Gordon and Betty Moore Foundation: Marine Microbiology Initiative (MMI) Award Number: GBMF2928 Award URL: https://www.moore.org/grant-detail?grantId=GBMF2928
completed
Patricia M. Medeiros
University of Georgia
706-542-6744
Department of Marine Sciences
Athens
GA
30602-3636
USA
medeiros@uga.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Station
Depth
Compound
Concentration
Latitude
Longitude
ISO_DateTime_Local
ISO_DateTime_UTC
Accelerated Solvent Extraction (ASE 350)
Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS)
911+ Rosette 24-position, 10-liter bottle Rosette with dual T/C sensors for collection
theme
None, User defined
station
depth
biomarker
chemical concentration
latitude
longitude
ISO_DateTime_Local
ISO_DateTime_UTC
featureType
BCO-DMO Standard Parameters
Accelerated Solvent Extractor
Agilent 6850 networked gas chromatograph
CTD Sea-Bird SBE 911plus
instrument
BCO-DMO Standard Instruments
KN197-08
MV1110
service
Deployment Activity
Amazon River plume; NE coast of South America
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.
Integrated Marine Biogeochemistry and Ecosystem Research -US
http://www.imber.info/
Integrated Marine Biogeochemistry and Ecosystem Research -US
The BCO-DMO database includes data from IMBER endorsed projects lead by US funded investigators. There is no dedicated US IMBER project or data management office. Those functions are provided by US-OCB and BCO-DMO respectively.
The information in this program description pertains to the Internationally coordinated IMBER research program. The projects contributing data to the BCO-DMO database are those funded by US NSF only. The full IMBER data catalog is hosted at the Global Change Master Directory (GCMD).
IMBER Data Portal: The IMBER project has chosen to create a metadata portal hosted by the NASA's Global Change Master Directory (GCMD). The GCMD IMBER data catalog provides an overview of all IMBER endorsed and related projects and links to datasets, and can be found at URL http://gcmd.nasa.gov/portals/imber/.
IMBER research will seek to identify the mechanisms by which marine life influences marine biogeochemical cycles, and how these, in turn, influence marine ecosystems. Central to the IMBER goal is the development of a predictive understanding of how marine biogeochemical cycles and ecosystems respond to complex forcings, such as large-scale climatic variations, changing physical dynamics, carbon cycle chemistry and nutrient fluxes, and the impacts of marine harvesting. Changes in marine biogeochemical cycles and ecosystems due to global change will also have consequences for the broader Earth System. An even greater challenge will be drawing together the natural and social science communities to study some of the key impacts and feedbacks between the marine and human systems.
To address the IMBER goal, four scientific themes, each including several issues, have been identified for the IMBER project: Theme 1 - Interactions between Biogeochemical Cycles and Marine Food Webs; Theme 2 - Sensitivity to Global Change: How will key marine biogeochemical cycles, ecosystems and their interactions, respond to global change?; Theme 3 - Feedback to the Earth System: What are the roles of the ocean biogeochemistry and ecosystems in regulating climate?; and Theme 4 - Responses of Society: What are the relationships between marine biogeochemical cycles, ecosystems, and the human system?
IMBER-US
largerWorkCitation
program
Ocean Carbon and Biogeochemistry
http://us-ocb.org/
Ocean Carbon and Biogeochemistry
The Ocean Carbon and Biogeochemistry (OCB) program focuses on the ocean's role as a component of the global Earth system, bringing together research in geochemistry, ocean physics, and ecology that inform on and advance our understanding of ocean biogeochemistry. The overall program goals are to promote, plan, and coordinate collaborative, multidisciplinary research opportunities within the U.S. research community and with international partners. Important OCB-related activities currently include: the Ocean Carbon and Climate Change (OCCC) and the North American Carbon Program (NACP); U.S. contributions to IMBER, SOLAS, CARBOOCEAN; and numerous U.S. single-investigator and medium-size research projects funded by U.S. federal agencies including NASA, NOAA, and NSF.
The scientific mission of OCB is to study the evolving role of the ocean in the global carbon cycle, in the face of environmental variability and change through studies of marine biogeochemical cycles and associated ecosystems.
The overarching OCB science themes include improved understanding and prediction of: 1) oceanic uptake and release of atmospheric CO2 and other greenhouse gases and 2) environmental sensitivities of biogeochemical cycles, marine ecosystems, and interactions between the two.
The OCB Research Priorities (updated January 2012) include: ocean acidification; terrestrial/coastal carbon fluxes and exchanges; climate sensitivities of and change in ecosystem structure and associated impacts on biogeochemical cycles; mesopelagic ecological and biogeochemical interactions; benthic-pelagic feedbacks on biogeochemical cycles; ocean carbon uptake and storage; and expanding low-oxygen conditions in the coastal and open oceans.
OCB
largerWorkCitation
program
Emerging Topics in Biogeochemical Cycles
http://www.nsf.gov/pubs/2007/nsf07049/nsf07049.jsp
Emerging Topics in Biogeochemical Cycles
The original call for proposals for Emerging Topics in Biogeochemical Cycles (ETBC) was issued in September 2007 by the US NSF Directorate for Geosciences (NSF 07-049).
The Geosciences Directorate (GEO) is substantially augmenting our past funding sources to explicitly support emerging areas of interdisciplinary research. We seek to foster transformational advances in our quantitative or mechanistic understanding of biogeochemical cycles that integrate physical-chemical-biological processes over the range of temporal and/or spatial scales in Earth’s environments. We encourage submission of proposals that address emerging topics in biogeochemical cycles, the water cycle or their coupling, across the interfaces of atmosphere, land, and oceans. Proposals must cross the disciplinary boundaries of two or more divisions in Geosciences (e.g. ATM, EAR, OCE) or of at least one division in Geosciences and a division in another NSF directorate.
Although funding programmatic disciplines continues to provide a robust and adaptable framework to build our understanding of the geosciences and the earth as a system, there are classes of emerging and challenging problems that require integration of concepts and observations across diverse fields. Our goal is to enhance such integration. Successful proposals need to develop intellectual excitement in the participating disciplinary communities. Also encouraged are proposals that have broader educational, diversity, societal, or infrastructure impacts that capitalize on this interdisciplinary opportunity.
ETBC
largerWorkCitation
program
Marine Microbiology Initiative
https://www.moore.org/initiative-strategy-detail?initiativeId=marine-microbiology-initiative
Marine Microbiology Initiative
A Gordon and Betty Moore Foundation Program.
Forging a new paradigm in marine microbial ecology:
Microbes in the ocean produce half of the oxygen on the planet and remove vast amounts of carbon dioxide, a greenhouse gas, from the atmosphere. Yet, we have known surprisingly little about these microscopic organisms. As we discover answers to some long-standing puzzles about the roles that marine microorganisms play in supporting the ocean’s food webs and driving global elemental cycles, we realized that we still need to learn much more about what these organisms do and how they do it—including how they evolved and contribute to our ocean's health and productivity.
The Marine Microbiology Initiative seeks to gain a comprehensive understanding of marine microbial communities, including their diversity, functions and behaviors; their ecological roles; and their origins and evolution. Our focus has been to enable researchers to uncover the principles that govern the interactions among microbes and that govern microbially mediated nutrient flow in the sea. To address these opportunities, we support leaders in the field through investigator awards, multidisciplinary team research projects, and efforts to create resources of broad use to the research community. We also support development of new instrumentation, tools, technologies and genetic approaches.
Through the efforts of many scientists from around the world, the initiative has been catalyzing new science through advances in methods and technology, and to reduce interdisciplinary barriers slowing progress. With our support, researchers are quantifying nutrient pools in the ocean, deciphering the genetic and biochemical bases of microbial metabolism, and understanding how microbes interact with one another. The initiative has five grant portfolios:
Individual investigator awards for current and emerging leaders in the field.
Multidisciplinary projects that support collaboration across disciplines.
New instrumentation, tools and technology that enable scientists to ask new questions in ways previously not possible.
Community resource efforts that fund the creation and sharing of data and the development of tools, methods and infrastructure of widespread utility.
Projects that advance genetic tools to enable development of experimental model systems in marine microbial ecology.
We also bring together scientists to discuss timely subjects and to facilitate scientific exchange.
Our path to marine microbial ecology was a confluence of new technology that could accelerate science and an opportunity to support a field that was not well funded relative to potential impact. Around the time we began this work in 2004, the life sciences were entering a new era of DNA sequencing and genomics, expanding possibilities for scientific research – including the nascent field of marine microbial ecology. Through conversations with pioneers inside and outside the field, an opportunity was identified: to apply these new sequencing tools to advance knowledge of marine microbial communities and reveal how they support and influence ocean systems.
After many years of success, we will wind down this effort and close the initiative in 2021. We will have invested more than $250 million over 17 years to deepen understanding of the diversity, ecological activities and evolution of marine microbial communities. Thanks to the work of hundreds of scientists and others involved with the initiative, the goals have been achieved and the field has been profoundly enriched; it is now positioned to address new scientific questions using innovative technologies and methods.
MMI
largerWorkCitation
program
Amazon iNfluence on the Atlantic: CarbOn export from Nitrogen fixation by DiAtom Symbioses
http://amazoncontinuum.org/
Amazon iNfluence on the Atlantic: CarbOn export from Nitrogen fixation by DiAtom Symbioses
<p>ANACONDAS is an IMBER endorsed project.<br />
<a href="http://www.imber.info/endorsed_projects.html">View list of all IMBER endorsed projects</a></p>
<p>View the ANACONDAS project <a href="http://gcmd.gsfc.nasa.gov/KeywordSearch/Metadata.do?Portal=GCMD&KeywordPath=Parameters|OCEANS|Refine+By+Projects|G+-+I|IMBER|[Freetext%3D%27+ANACONDAS%27]&OrigMetadataNode=GCMD&EntryId=ANACONDAS_project&MetadataView=Full&MetadataType=0&lbnode=mdlb1">GCMD DIF record</a></p>
<p>The ANACONDAS project was funded as part of the US National Science Foundation (NSF) Emerging Topics in Biogeochemical Cycles (ETBC) program (Directorate for Geosciences, NSF 07 -049, September 19, 2007) explicitly intended to support emerging areas of interdisciplinary research. The ETBC program aimed to foster transformational advances in the quantitative or mechanistic understanding of biogeochemical cycles that integrated physical-chemical-biological processes over the range of temporal and/or spatial scales in Earth's environments. The program especially sought proposals that addressed emerging topics in biogeochemical cycles, the water cycle or their coupling, across the interfaces of atmosphere, land, and oceans.</p>
<p>The ANACONDAS investigators hypothesize that large tropical river plumes with low N: P ratios provide an ideal niche for diatom-diazotroph assemblages (DDAs). They suggest that the ability of these organisms to fix N2 within the surface ocean is responsible for significant C export in the Amazon River plume. Their previous observations in the Amazon River plume helped reveal that blooms comprised of the endosymbiotic N2-fixing cyanobacterium Richelia and its diatom hosts (e.g. Hemiaulus) were a significant source of new production and carbon export. The previous work focused largely on the sensitivity of DDAs to external forcing from dust and riverine inputs, so the ecology of these organisms and the fate of their new production were largely unstudied. It is now known that DDAs are responsible for a significant amount of CO2 drawdown in the Amazon River plume, and floating sediment traps at 200 m measured 4x higher mass fluxes beneath the plume than outside the plume. This led the researchers to hypothesize that this greater export is due either to aggregation and sinking of DDAs themselves or to grazing of DDAs by zooplankton.</p>
<p>In this study the researchers will undertake a suite of field, satellite and modeling studies aimed at understanding the ecology and tracing the fate of C and N fixed by DDAs and other phytoplankton living in the plume. By examining C and silicate (Si) export from offshore surface waters, through the upper oceanic food web, the mesopelagic, and down to the deep sea floor, they will quantify the impact of the Amazon River on biological processes that control C sequestration and the implications of these regional processes on C, N and Si budgets. The study will go beyond previous research because they will quantify 1) the distribution, nutrient demands, and activity of DDAs in the context of phytoplankton species succession, 2) the sensitivity of the CO2 drawdown to the mix of phytoplankton, 3) the grazing and aggregation processes contributing to the sinking flux, 4) the composition of this flux, and 5) the proportion of this material that reaches the seafloor. This effort truly represents a measure of C sequestration and pump efficiency. Ecological modeling will be used to place observational results from field studies and satellites into the context of the larger Atlantic basin with tropical climate variability on interannual and longer time scales.</p>
<p>Three cruises were carried out during the ANACONDAS project:<br />
AN10/KN197-08 - R/V KNORR - May/June 2010 - <a href="http://bcodata.whoi.edu/ANACONDAS/Knorr2010cruisetrack.jpg" target="_blank">Cruise Track over Salinity Climatology</a> <em>(Image: Yager, et al, 2007)</em><br />
AN11/MV1110 - R/V MELVILLE - September/October 2011 - <a href="http://bcodata.whoi.edu/ANACONDAS/Melville2011cruisetrack.jpg" target="_blank">Cruise Track over Salinity Climatology</a> <em>(Image: Yager, et al, 2007)</em><br />
AN12/AT21-04 - R/V ATLANTIS - July/2012 - <a href="http://bcodata.whoi.edu/ANACONDAS/ATL2012cruisetrack.jpg" target="_blank">Cruise Track over Salinity Climatology</a> <em>(Image: Yager, et al, 2007)</em></p>
<p>The ANACONDAS project builds on observations made by MANTRA/PIRANA in 2001 and 2003 (RV Knorr and Seward Johnson I cruises to the same region) to address specifically 1) how carbon cycling and sequestration in the western tropical North Atlantic (WTNA) is influenced by the Amazon River through its impact on pelagic ecosystem dynamics and 2) the sensitivity of this ecosystem to anthropogenic climate change. PIRANA revealed the importance of both riverine and atmospheric inputs for driving the high productivity of the WTNA through N2-fixation, and demonstrated the significance of the region to basin-wide biogeochemistry and C cycling. ANACONDAS will now focus on what drives phytoplankton community succession through the plume, light and nutrient requirements, factors limiting productivity, and the fate of production. These components are critical to understand the role of the plume in the regional C cycle, and to predict its response to climate variability and change.</p>
<p>The NSF-funded ANACONDAS project will also serve as a platform for additional measurements supported by the Gordon and Betty Moore Foundation's Marine Microbiology Initiative. ROCA (River-Ocean Continuum of the Amazon) brings additional focus on marine microbial community structure and activities, along with high-resolution measurements of organic matter along the river-ocean continuum.</p>
<p><strong>ANACONDAS:</strong> Amazon iNfluence on the Atlantic: CarbOn export from Nitrogen fixation by DiAtom Symbioses<br />
<strong>ROCA:</strong> River Ocean Continuum of the Amazon</p>
<p>The project is funded by NSF-OCE-0934095 and NSF-OCE-0934036: Collaborative Research: ETBC: Amazon iNfluence on the Atlantic: CarbOn export from Nitrogen fixation by DiAtom Symbioses and by the Gordon and Betty Moore Foundation through GBMF-MMI-2293: River Ocean Continuum of the Amazon.</p>
<h3>Planned Cruise Sampling</h3>
<p><strong>Water Column Characterization (hydrographic sampling with CTD/Rosette):</strong><br />
Nutrient (NO2, NO2+NO3, PO4, SiO4) concentrations<br />
Chlorophyll a and pigments concentrations<br />
Inorganic carbon (discrete DIC, ALK, underway pCO2)<br />
Organic carbon, nitrogen, phosphorus<br />
Phytoplankton and Diazotroph Abundance (using rosette and also small nets to collect)<br />
Carbon and Nitrogen Fixation by plankton<br />
Kinetic and Physiological Measurements of phytoplankton<br />
Stable Isotopic Measurements of particulate material<br />
Microbial heterotrophy<br />
Microbial community structure and gene expression<br />
Organic carbon and biomarker characterization</p>
<p><strong>MOCNESS tows for zooplankton</strong><br />
Zooplankton collection for abundance and biomass<br />
Zooplankton grazing and POC flux measurements</p>
<p><strong>Multicorer for deep sea sediment analyses</strong><br />
Solid phase analysis<br />
Pore water chemistry<br />
Isotopic composition (Pb, Th, C)</p>
<p><strong>Other instrumentation over the side:</strong><br />
The in-water light field will be characterized with a free-falling 14 channel spectroradiometer<br />
Two "Carbon Explorers" - autonomous Sounding Oceanographic Lagrangian Observer profilers<br />
Sediment Trap Studies (using 48h deployments of floating Particle Interceptor Traps; PITs)<br />
Surface water pumps - directly bring large volumes of surface water to the deck of the ship for processing.</p>
<p><strong>Shipboard Instrumentation:</strong><br />
ADCP 75 kHz<br />
Bathymetry System 12 kHz<br />
Bathymetry System 3.5 kHz<br />
Deionized Water System<br />
Fume Hood<br />
HiSeasNet<br />
Multibeam<br />
Uncontaminated Seawater System<br />
CTD/Water Sampling: 911+ Rosette 24-position, 10-liter bottle Rosette with dual T/C sensors<br />
Biospherical underwater PAR (1000m depth limit)<br />
SBE43 oxygen sensor<br />
Wet Labs C*Star transmissometer (660nm wavelength)<br />
Wet Labs ECO-AFL fluorometer<br />
Dissolved Oxygen Titration System (Portable modified Winkler titration system)</p>
ANACONDAS
largerWorkCitation
project
eng; USA
oceans
Amazon River plume; NE coast of South America
-56.4252
-44.6382
4.8787
12.4055
2010-05-25
2011-10-06
Amazon River plume; NE coast of South America; Western Tropical North Atlantic - 15N-Equator and 60W to 45W - Region surrounding the Amazon River Plume
0
BCO-DMO catalogue of parameters from Composition and concentration of individual biomarkers in particulate organic carbon collected during two cruises to the Amazon River plume during R/V Knorr cruise KN197-08 in 2010 and R/V Melville cruise MV1110 in 2011
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/936636.rdf
Name: Station
Units: unitless
Description: <p>Station number. H = high discharge; L = low discharge.</p>
http://lod.bco-dmo.org/id/dataset-parameter/936637.rdf
Name: Depth
Units: meters
Description: <p>Depth of sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/936638.rdf
Name: Compound
Units: unitless
Description: <p>Compound name</p>
http://lod.bco-dmo.org/id/dataset-parameter/936639.rdf
Name: Concentration
Units: micrograms per gram organic carbon (ug g-1 OC)
Description: <p>Concentration (µg g-1 OC) of individual compound in suspended POC</p>
http://lod.bco-dmo.org/id/dataset-parameter/936640.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude of station</p>
http://lod.bco-dmo.org/id/dataset-parameter/936641.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude of station</p>
http://lod.bco-dmo.org/id/dataset-parameter/936642.rdf
Name: ISO_DateTime_Local
Units: unitless
Description: <p>Date and time of sampling in ISO 8601 format in the local time zone (Brasilia time zone, i.e., UTC -03:00)</p>
http://lod.bco-dmo.org/id/dataset-parameter/936643.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Date and time of sampling in ISO 8601 format in UTC</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
372026
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/08027e2b-241c-4920-ab7f-529dbf357bae/content
download
https://doi.org/10.26008/1912/bco-dmo.936596.1
download
onLine
dataset
<p>Particulate organic carbon (POC) samples were collected in the Amazon River plume and adjacent ocean in May/June 2010 during high river discharge conditions and in September/October 2011 during low river discharge (onboard the R/V Knorr and R/V Melville, respectively, as part of the ANACONDAS expeditions; Medeiros et al., 2015).</p>
<p>Stations sampled during high discharge conditions are labeled H followed by the station number, while during low discharge they are labeled L followed by the station number.</p>
<p>Suspended samples were collected at the surface (~2 meters (m)), immediately below the plume (at ~20 m) and at depth (~1000 m and 2000 m) using CTD-rosette casts. At key oceanic stations, more highly resolved vertical profiles were also collected, including samples at the chlorophyll-a maximum and oxygen minimum depths. Seawater was filtered through 0.7-micrometer (µm) Whatman GF/F filters (pre-combusted at 450 degrees Celsius (°C) for 5 hours), carefully wrapped using pre-combusted aluminum foil, and kept frozen at -20°C until analysis. Samples were processed within 1-2 weeks after the end of the expeditions, minimizing the effects of any possible degradation that may have occurred during storage.</p>
<p>Prior to analyses, POC samples were allowed to dry at room temperature. Biomarkers were extracted from dried POC samples as in Medeiros et al. (2012) with a mixture of dichloromethane:methanol (2:1, v/v) using accelerated solvent extraction (ASE 350, Dionex) at 100°C and 1000 psi (3 static cycles). The extracts were concentrated in a RapidVap to about 2 milliliters (mL), then further concentrated to 500 microliters (μL) using a stream of ultra-high purity nitrogen gas. Aliquots of the total extracts were converted to their trimethylsilyl derivatives using N,O-bis-(trimethylsilyl)trifluoroacetamide (BSTFA) containing 1% trimethylchlorosilane (TMCS) and pyridine (Pierce) for 3 hours at 70°C. Aliquots of 1 μL of silylated total extracts were analyzed within 24 hours using an Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS). A DB5-MS capillary column (30 m x 0.25 mm I.D. and film thickness of 0.25 μm) was used with helium as the carrier gas. The injector and MS source temperatures were maintained at 280°C and 230°C, respectively. The column temperature program consisted of injection at 65°C and hold for 2 minutes, temperature increase of 6°C per minute to 300°C, followed by an isothermal hold at 300°C for 15 minutes. The MS was operated in electron impact (EI) mode with an ionization energy of 70 eV. The scan range was set from 50 to 650 Da and the samples were analyzed in splitless mode.</p>
<p>Data were acquired and processed with the Agilent-Chemstation software. Individual compounds were identified by comparison of mass spectra with literature and library data, comparison of mass spectra and GC retention times with those of authentic standards and/or interpretation of mass spectrometric fragmentation patterns. Compounds were quantified using the total ion current (TIC) peak area and converted to compound mass using calibration curves of standards.</p>
Specified by the Principal Investigator(s)
<p>Data were processed using 6890GC-5975 MS Agilent-Chemstation software.</p>
Specified by the Principal Investigator(s)
- Imported original file "BCO-DMO_Amazon_POC_stations_2010_2011_final.xlsx" into the BCO-DMO system.
- Extracted station location information from the primary data table.
- Removed dashes from datasets (in final CSV file, missing data are empty/blank).
- Unpivoted the table to create columns for station number and depth.
- Joined the primary data table to the location information to create columns for Latitude, Longitude, Date, and Time.
- Sorted by station number and depth.
- Renamed fields to comply with BCO-DMO naming conventions.
- Created date-time fields in ISO 8601 format (UTC and local).
- Saved the final file as "936596_v1_amazon_plume_poc_biomarkers.csv"
Specified by BCO-DMO Data Managers
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
Accelerated Solvent Extraction (ASE 350)
Accelerated Solvent Extraction (ASE 350)
PI Supplied Instrument Name: Accelerated Solvent Extraction (ASE 350) Instrument Name: Accelerated Solvent Extractor Instrument Short Name:ASE Instrument Description: Accelerated solvent extraction (ASE) is a method for extracting various chemicals from a complex solid or semisolid sample matrix. The process uses high temperature and pressure, which results in the extraction taking less time and requiring less solvent, and possibly also giving better analyte recovery, than traditional methods that use less extreme conditions.
Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS)
Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS)
PI Supplied Instrument Name: Agilent 6890 gas chromatograph interfaced with an Agilent 5975 mass selective detector (GC-MS) Instrument Name: Agilent 6850 networked gas chromatograph Instrument Short Name:Agilent 6850 Instrument Description: A single channel, networked, gas chromatograph that separates and analyses compounds into separate components and can be used for chemical, petrochemical and petroleum analyses. The sample is introduced into the injector and then vaporised in the instrument. A chemically inert gas (e.g. helium and nitrogen) carries the vaporised solute into the column that is maintained in a temperature controlled oven. As the solute elutes from the column, it enters the heated detector. An electronic signal is generated upon interaction of the solute with the detector. The Agilent 6850 has a similar performance to the Agilent 6890N GC, but is half as wide. The local interface provides run control and status information and the instrument comes network-ready with a built-in LAN communications interface. There is a choice of detectors available, the Flame Ionization Detector (FID), Thermal Conductivity Detector (TCD) or Mass Selective Detector (MSD). There is an option of split/splitless or packed inlets, a variety of automated sample introduction systems and products available for headspace analysis. This model is no longer in production.
911+ Rosette 24-position, 10-liter bottle Rosette with dual T/C sensors for collection
911+ Rosette 24-position, 10-liter bottle Rosette with dual T/C sensors for collection
PI Supplied Instrument Name: 911+ Rosette 24-position, 10-liter bottle Rosette with dual T/C sensors for collection 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/
Cruise: KN197-08
KN197-08
R/V Knorr
Community Standard Description
International Council for the Exploration of the Sea
R/V Knorr
vessel
KN197-08
Patricia L. Yager
University of Georgia
http://bcodata.whoi.edu/ANACONDAS/ANACONDAS1-FullCruiseReport.pdf
Report describing KN197-08
Cruise: MV1110
MV1110
R/V Melville
Community Standard Description
International Council for the Exploration of the Sea
R/V Melville
vessel
MV1110
Patricia L. Yager
University of Georgia
R/V Knorr
Community Standard Description
International Council for the Exploration of the Sea
R/V Knorr
vessel
R/V Melville
Community Standard Description
International Council for the Exploration of the Sea
R/V Melville
vessel