http://lod.bco-dmo.org/id/dataset/922260
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)
Amended Rolling Deck to Repository (R2R) event log application (ELOG) taken on the R/V Atlantis 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.922260.1
Mak A. Saito
Woods Hole Oceanographic Institution
principalInvestigator
John Breier
University of Texas Rio Grande Valley
principalInvestigator
Michael Jakuba
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., Breier, J., Jakuba, M., McIlvin, M. R. (2024) Amended Rolling Deck to Repository (R2R) event log application (ELOG) taken on the R/V Atlantis 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.922260.1 [access date]
Amended Elog - AT50-10 cruise, AUV Clio Dataset Description: Methods and Sampling: <p>Metadata for all cruise activities was recorded using the&nbsp;Rolling Deck to Repository (R2R) event log application (ELOG) during the cruise. Each activity was added to the ELOG platform either at the moment of activity or retroactively with the correct date and time. Several cruise participants (described in the Authors column) participated with the addition of activities during the cruise.</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
John Breier
University of Texas Rio Grande Valley
jbreier@whoi.edu
pointOfContact
Michael Jakuba
Woods Hole Oceanographic Institution
508-289-2582
266 Woods Hole Rd
Woods Hole
MA
02543
United States
mjakuba@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
Message_ID
Date
Event
R2R_Event
Instrument
Action
Transect
Station
Cast
Latitude
Longitude
Seafloor
Author
Comment
Cruise
dateTimeUTC
GPS_Time
dateTime8601
Revisions
theme
None, User defined
number
Date and time
R2R event number
instrument
action
transect
station
cast
latitude
longitude
depth
author name (publication)
activity and comments
Cruise identfier
event code
comments
featureType
BCO-DMO Standard Parameters
AUV Clio
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
-83.167
-10.106
32.7067
2023-05-02
2023-06-09
Eastern Tropical Pacific
0
BCO-DMO catalogue of parameters from Amended Rolling Deck to Repository (R2R) event log application (ELOG) taken on the R/V Atlantis 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/924269.rdf
Name: Message_ID
Units: unitless
Description: <p>Log ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/924270.rdf
Name: Date
Units: unitless
Description: <p>Date event was created</p>
http://lod.bco-dmo.org/id/dataset-parameter/924271.rdf
Name: Event
Units: unitless
Description: <p>Event identification number</p>
http://lod.bco-dmo.org/id/dataset-parameter/924272.rdf
Name: R2R_Event
Units: unitless
Description: <p>Event identification number generated by ELOG</p>
http://lod.bco-dmo.org/id/dataset-parameter/924273.rdf
Name: Instrument
Units: unitless
Description: <p>Instrument used for activity</p>
http://lod.bco-dmo.org/id/dataset-parameter/924274.rdf
Name: Action
Units: unitless
Description: <p>Begining of end of activity</p>
http://lod.bco-dmo.org/id/dataset-parameter/924275.rdf
Name: Transect
Units: unitless
Description: <p>Transect name</p>
http://lod.bco-dmo.org/id/dataset-parameter/924276.rdf
Name: Station
Units: unitless
Description: <p>Station number where activity was performed at</p>
http://lod.bco-dmo.org/id/dataset-parameter/924277.rdf
Name: Cast
Units: unitless
Description: <p>Cast number if applicable</p>
http://lod.bco-dmo.org/id/dataset-parameter/924278.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude where activity was performed, south is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/924279.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude where activity was performed, west is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/924280.rdf
Name: Seafloor
Units: meter (m)
Description: <p>Depth of seafloor</p>
http://lod.bco-dmo.org/id/dataset-parameter/924281.rdf
Name: Author
Units: unitless
Description: <p>Author of the logging of the event</p>
http://lod.bco-dmo.org/id/dataset-parameter/924282.rdf
Name: Comment
Units: unitless
Description: <p>Comments</p>
http://lod.bco-dmo.org/id/dataset-parameter/924283.rdf
Name: Cruise
Units: unitless
Description: <p>Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/924284.rdf
Name: dateTimeUTC
Units: unitless
Description: <p>Event DateTime in format yyyymmdd.hhmm</p>
http://lod.bco-dmo.org/id/dataset-parameter/924285.rdf
Name: GPS_Time
Units: unitless
Description: <p>Event DateTime from GPS</p>
http://lod.bco-dmo.org/id/dataset-parameter/924286.rdf
Name: dateTime8601
Units: unitless
Description: <p>Event DateTime in ISO format</p>
http://lod.bco-dmo.org/id/dataset-parameter/924287.rdf
Name: Revisions
Units: unitless
Description: <p>Dates of event revisions</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
78891
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/f629ab27-ae46-4c73-a458-cec2702db125/content
download
https://doi.org/10.26008/1912/bco-dmo.922260.1
download
onLine
dataset
<p>Metadata for all cruise activities was recorded using the&nbsp;Rolling Deck to Repository (R2R) event log application (ELOG) during the cruise. Each activity was added to the ELOG platform either at the moment of activity or retroactively with the correct date and time. Several cruise participants (described in the Authors column) participated with the addition of activities during the cruise.</p>
Specified by the Principal Investigator(s)
<p>Two McLane pump deployments were not added to the ELOG before the end of the cruise (McLane-20 and McLane-21), therefore, added manually after the "endCruise" cruise activity. Coordinates for those two activities were added based on the corresponding Clio deployment at the same station (CLIO049 and CLIO050 respectively).</p>
Specified by the Principal Investigator(s)
* Set NaN to blank
* Took out m out of seafloor depth column and added unit to parameter section
* Adjusted parameter names to comply with database requirements
* Capitalized cruise name
* Removed stn/station/Station from station column and added to parameter section
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
PI Supplied Instrument Name: Instrument Name: AUV Clio Instrument Short Name: Instrument Description: Clio is an autonomous underwater vehicle (AUV) created to accomplish the dual goals of global ocean mapping and biochemistry sampling. The ability to sample dissolved and particulate seawater biochemistry across ocean basins while capturing fine-scale biogeochemical processes sets it apart from other AUVs. Clio is designed to efficiently and precisely move vertically through the ocean, drift laterally to observe water masses, and integrate with research vessel operations to map large horizontal scales up to a depth of 6,000 meters. More information is available at https://www2.whoi.edu/site/deepsubmergencelab/clio/
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