http://lod.bco-dmo.org/id/dataset/922268
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
2024-03-14
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Log for the samples taken using the Underway system on board of the R/V Atlantis during the CliOMZ AT50-10 expedition from Golfito, Costa Rica to San Diego, USA that occurred in May - June of 2023.
2024-04-30
publication
2024-04-30
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2024-04-30
publication
https://doi.org/10.26008/1912/bco-dmo.922268.1
Mak A. Saito
Woods Hole Oceanographic Institution
principalInvestigator
Alyson E. Santoro
University of California-Santa Barbara
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: Lopez, P. Z., Saito, M. A., Santoro, A. E. (2024) Log for the samples taken using the Underway system on board of the R/V Atlantis during the CliOMZ AT50-10 expedition from Golfito, Costa Rica to San Diego, USA that occurred in May - June of 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-04-30 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.922268.1 [access date]
Underway Sampling log AUV Clio Cruise Dataset Description: Methods and Sampling: <p>A system with a Geotech in-line acrylic filter holder (142mm diameter) connected to a flowmeter was attached to the Underway water flow on R/V Atlantis and particulates were collected for approximately one hour. The filtration system was arranged to split the water flow between two filter holders/flowmeters to achieve dual sampling from the same water mass. One side contained a combusted Glass Fiber FIlter (GFF) and the other side fractionated the sample with a 51um pore size Nitex mesh and a 0.2um pore size Supor (PES) filter. The Nitex and Supor filters were cleaned with 5% for 4 hours and neutrilized to pH6 before use. Samples were collected at station and while on transit (between stations).</p>
<p>A Geotech in-line acrylic filter holder 142mm diameter was used along with a flowmeter for this dataset.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1924554 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1924554
completed
Mak A. Saito
Woods Hole Oceanographic Institution
508-289-2393
266 Woods Hole Rd. MS #51 Watson Lab
Woods Hole
MA
02543
USA
msaito@whoi.edu
pointOfContact
Alyson E. Santoro
University of California-Santa Barbara
805-893-5318
2155 Marine Biotech Lab
Santa Barbara
CA
93106
USA
asantoro@ucsb.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise_ID
Station_number
Start_Date_UTC
Start_Time_UTC
End_Date_UTC
End_Time_UTC
Start_Lat
Start_Long
End_Lat
End_Long
Depth
Sampling_device
At_station_or_transit
Filter_type
Volume_filtered
DEPLOYMENT_COMMENTS
SAMPLE_PRFEIX
SUPOR_0_2_PROTEIN1
SUPOR_0_2_PROTEIN2
SUPOR_0_2_DNA1
SUPOR_0_2_DNA2
SUPOR_0_2_eDNA
SUPOR_0_2_pMetal
SUPOR_0_2_POS
NITEX_51_PROTEIN1
NITEX_51_DNA1
NITEX_51_pMetal
GFF_PROTEIN1
GFF_CA
GFF_PIGS
GFF_POC
GFF_HG
SAMPLE_COMMENTS
theme
None, User defined
Cruise identfier
station
date_start
time_start
date end
time_end
latitude at start time of measurement
longitude at start time of measurement
latitude at end time of measurement
longitude at end time of measurement
depth
instrument
sample description
volume of water filtered
comments
featureType
BCO-DMO Standard Parameters
Flow Meter
instrument
BCO-DMO Standard Instruments
AT50-10
service
Deployment Activity
Eastern Tropical and Subtropical Pacific Ocean
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.
Collaborative Research: Underexplored Connections between Nitrogen and Trace Metal Cycling in Oxygen Minimum Zones Mediated by Metalloenzyme Inventories
https://osprey.bco-dmo.org/project/806565
Collaborative Research: Underexplored Connections between Nitrogen and Trace Metal Cycling in Oxygen Minimum Zones Mediated by Metalloenzyme Inventories
<p><em>NSF abstract:</em><br />
Though scarce and largely insoluble, trace metals are key components of sophisticated enzymes (protein molecules that speed up biochemical reactions) involved in biogeochemical cycles in the dark ocean (below 1000m). For example, metalloenzymes are involved in nearly every reaction in the nitrogen cycle. Yet, despite direct connections between trace metal and nitrogen cycles, the relationship between trace metal distributions and biological nitrogen cycling processes in the dark ocean have rarely been explored, likely due to the technical challenges associated with their study. Availability of the autonomous underwater vehicle (AUV) Clio, a sampling platform capable of collecting high-resolution vertical profile samples for biochemical and microbial measurements by large volume filtration of microbial particulate material, has overcome this challenge. Thus, this research project plans an interdisciplinary chemistry, biology, and engineering effort to test the hypothesis that certain chemical reactions, such as nitrite oxidation, could become limited by metal availability within the upper mesopelagic and that trace metal demands for nitrite-oxidizing bacteria may be increased under low oxygen conditions. Broader impacts of this study include the continued development and application of the Clio Biogeochemical AUV as a community resource by developing and testing its high-resolution and adaptive sampling capabilities. In addition, metaproteomic data will be deposited into the recently launched Ocean Protein Portal to allow oceanographers and the metals in biology community to examine the distribution of proteins and metalloenzymes in the ocean. Undergraduate students will be supported by this project at all three institutions, with an effort to recruit minority students. The proposed research will also be synergistic with the goals of early community-building efforts for a potential global scale microbial biogeochemistry program modeled after the success of the GEOTRACES program, provisionally called "Biogeoscapes: Ocean metabolism and nutrient cycles on a changing planet".</p>
<p>The proposed research project will test the following three hypotheses: (1) the microbial metalloenzyme distribution of the mesopelagic is spatially dynamic in response to environmental gradients in oxygen and trace metals, (2) nitrite oxidation in the Eastern Tropical Pacific Ocean can be limited by iron availability in the upper mesopelagic through an inability to complete biosynthesis of the microbial protein nitrite oxidoreductase, and (3) nitrite-oxidizing bacteria increase their metalloenzyme requirements at low oxygen, impacting the distribution of both dissolved and particulate metals within oxygen minimum zones. One of the challenges to characterizing the biogeochemistry of the mesopelagic ocean is an inability to effectively sample it. As a sampling platform, we will use the novel biogeochemical AUV Clio that enables high-resolution vertical profile samples for biochemical and microbial measurements by large volume filtration of microbial particulate material on a research expedition in the Eastern Tropical Pacific Ocean. Specific research activities will be orchestrated to test the hypotheses. Hypothesis 1 will be explored by comparison of hydrographic, microbial distributions, dissolved and particulate metal data, and metaproteomic results with profile samples collected by Clio. Hypothesis 2 will be tested by incubation experiments using 15NO2- oxidation rates on Clio-collected incubation samples. Hypothesis 3 will be tested by dividing targeted nitrite oxidoreductase protein copies by qPCR (quantitative polymerase chain reaction)-based nitrite oxidizing bacteria abundance (NOB) to determine if cellular copy number varies with oxygen distributions, and by metalloproteomic analyses of NOB cultures. The demonstration of trace metal limitation of remineralization processes, not just primary production, would transform our understanding of the role of metals in biogeochemical cycling and provide new ways with which to interpret sectional data of dissolved and particulate trace metal distributions in the ocean. The idea that oxygen may play a previously underappreciated role in controlling trace metals due not just to metals' physical chemistry, but also from changing biological demand, will improve our ability to predict trace metal distributions in the face of decreasing ocean oxygen content.</p>
<p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p>
CliOMZ
largerWorkCitation
project
eng; USA
oceans
Eastern Tropical and Subtropical Pacific Ocean
-120.279
-88.9709
-10.0643
31.2508
2023-05-04
2023-06-08
Eastern Tropical Pacific
0
BCO-DMO catalogue of parameters from Log for the samples taken using the Underway system on board of the R/V Atlantis during the CliOMZ AT50-10 expedition from Golfito, Costa Rica to San Diego, USA that occurred in May - June of 2023.
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/924292.rdf
Name: Cruise_ID
Units: unitless
Description: <p>Cruise ID AT50-10</p>
http://lod.bco-dmo.org/id/dataset-parameter/924293.rdf
Name: Station_number
Units: unitless
Description: <p>Station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/924294.rdf
Name: Start_Date_UTC
Units: UTC
Description: <p>Filtration start date</p>
http://lod.bco-dmo.org/id/dataset-parameter/924295.rdf
Name: Start_Time_UTC
Units: UTC
Description: <p>Filtration start time</p>
http://lod.bco-dmo.org/id/dataset-parameter/924296.rdf
Name: End_Date_UTC
Units: UTC
Description: <p>Filtration end date</p>
http://lod.bco-dmo.org/id/dataset-parameter/924297.rdf
Name: End_Time_UTC
Units: UTC
Description: <p>Filtration end time</p>
http://lod.bco-dmo.org/id/dataset-parameter/924298.rdf
Name: Start_Lat
Units: decimal degrees
Description: <p>Filtration start latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/924299.rdf
Name: Start_Long
Units: decimal degrees
Description: <p>Filtration start longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/924300.rdf
Name: End_Lat
Units: decimal degrees
Description: <p>FIltation end latitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/924301.rdf
Name: End_Long
Units: decimal degrees
Description: <p>Filtation end longitude</p>
http://lod.bco-dmo.org/id/dataset-parameter/924302.rdf
Name: Depth
Units: meter (m)
Description: <p>Sample depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/924303.rdf
Name: Sampling_device
Units: unitless
Description: <p>Sampling device</p>
http://lod.bco-dmo.org/id/dataset-parameter/924304.rdf
Name: At_station_or_transit
Units: unitless
Description: <p>Description of geographical location</p>
http://lod.bco-dmo.org/id/dataset-parameter/924305.rdf
Name: Filter_type
Units: unitless
Description: <p>Filter type</p>
http://lod.bco-dmo.org/id/dataset-parameter/924306.rdf
Name: Volume_filtered
Units: liters (L)
Description: <p>Volume of water filtered</p>
http://lod.bco-dmo.org/id/dataset-parameter/924307.rdf
Name: DEPLOYMENT_COMMENTS
Units: unitless
Description: <p>Comments on deployment</p>
http://lod.bco-dmo.org/id/dataset-parameter/924308.rdf
Name: SAMPLE_PRFEIX
Units: unitless
Description: <p>Sample prefix</p>
http://lod.bco-dmo.org/id/dataset-parameter/924309.rdf
Name: SUPOR_0_2_PROTEIN1
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for global metaproteomics</p>
http://lod.bco-dmo.org/id/dataset-parameter/924310.rdf
Name: SUPOR_0_2_PROTEIN2
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for global metaproteomics</p>
http://lod.bco-dmo.org/id/dataset-parameter/924311.rdf
Name: SUPOR_0_2_DNA1
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for genomic DNA analysis, sample 1 of 2</p>
http://lod.bco-dmo.org/id/dataset-parameter/924312.rdf
Name: SUPOR_0_2_DNA2
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for genomic DNA analysis, sample 2 of 2</p>
http://lod.bco-dmo.org/id/dataset-parameter/924313.rdf
Name: SUPOR_0_2_eDNA
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for environmental DNA analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924314.rdf
Name: SUPOR_0_2_pMetal
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for particulate metal content analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924315.rdf
Name: SUPOR_0_2_POS
Units: unitless
Description: <p>Fraction of 142mm diameter 0.2um pore size Supor (PES) filter assigned for particulate organic sulfur analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924316.rdf
Name: NITEX_51_PROTEIN1
Units: unitless
Description: <p>Fraction of 142mm diameter 51um pore size Nitex filter assigned for global metaproteomics</p>
http://lod.bco-dmo.org/id/dataset-parameter/924317.rdf
Name: NITEX_51_DNA1
Units: unitless
Description: <p>Fraction of 142mm diameter 51um pore size Nitex filter assigned for genomic DNA analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924318.rdf
Name: NITEX_51_pMetal
Units: unitless
Description: <p>Fraction of 142mm diameter 51um pore size Nitex filter assigned for particulate metal content analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924319.rdf
Name: GFF_PROTEIN1
Units: unitless
Description: <p>Fraction of 142mm diameter 0.7um pore size Glass Fiber Filter (GFF) filter assigned for global metaproteomics</p>
http://lod.bco-dmo.org/id/dataset-parameter/924320.rdf
Name: GFF_CA
Units: unitless
Description: <p>Fraction of 142mm diameter 0.7um pore size Glass Fiber Filter (GFF) filter assigned for carbonic anhydrase activity analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924321.rdf
Name: GFF_PIGS
Units: unitless
Description: <p>Fraction of 142mm diameter 0.7um pore size Glass Fiber Filter (GFF) filter assigned for photosynthetic pigments analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924322.rdf
Name: GFF_POC
Units: unitless
Description: <p>Fraction of 142mm diameter 0.7um pore size Glass Fiber Filter (GFF) filter assigned for particulate organic carbon analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924323.rdf
Name: GFF_HG
Units: unitless
Description: <p>Fraction of 142mm diameter 0.7um pore size Glass Fiber Filter (GFF) filter assigned for mercury content analysis</p>
http://lod.bco-dmo.org/id/dataset-parameter/924324.rdf
Name: SAMPLE_COMMENTS
Units: unitless
Description: <p>Comments on sample taken</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
18867
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/38cfdbb8-5c4a-4de0-9573-64079e58fb04/content
download
https://doi.org/10.26008/1912/bco-dmo.922268.1
download
onLine
dataset
<p>A system with a Geotech in-line acrylic filter holder (142mm diameter) connected to a flowmeter was attached to the Underway water flow on R/V Atlantis and particulates were collected for approximately one hour. The filtration system was arranged to split the water flow between two filter holders/flowmeters to achieve dual sampling from the same water mass. One side contained a combusted Glass Fiber FIlter (GFF) and the other side fractionated the sample with a 51um pore size Nitex mesh and a 0.2um pore size Supor (PES) filter. The Nitex and Supor filters were cleaned with 5% for 4 hours and neutrilized to pH6 before use. Samples were collected at station and while on transit (between stations).</p>
<p>A Geotech in-line acrylic filter holder 142mm diameter was used along with a flowmeter for this dataset.</p>
Specified by the Principal Investigator(s)
<p>All geographic locations presented here were taken from the ship's R2R elog. The volume filtered was calculated from the difference between end and start flow meter readings.</p>
<p>&nbsp;</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:A Geotech in-line acrylic filter holder 142mm diameter was used along with a flowmeter for this dataset. Instrument Name: Flow Meter Instrument Short Name:Flow Meter Instrument Description: General term for a sensor that quantifies the rate at which fluids (e.g. water or air) pass through sensor packages, instruments, or sampling devices. A flow meter may be mechanical, optical, electromagnetic, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/388/
Cruise: AT50-10
AT50-10
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel
AT50-10
Mak A. Saito
Woods Hole Oceanographic Institution
https://www.rvdata.us/search/cruise/AT50-10
Report describing AT50-10
R/V Atlantis
Community Standard Description
International Council for the Exploration of the Sea
R/V Atlantis
vessel