http://lod.bco-dmo.org/id/dataset/929764
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
2024-06-13
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Log file from AUV Clio taken on R/V Atlantis (CliOMZ AT50-10 expedition) from Golfito Costa Rica to San Diego USA in May-June 2023.
2024-09-09
publication
2024-09-09
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2024-09-09
publication
https://doi.org/10.26008/1912/bco-dmo.929764.1
Mak A. Saito
Woods Hole Oceanographic Institution
principalInvestigator
John Breier
University of Texas Rio Grande Valley
principalInvestigator
Michael Jakuba
Woods Hole Oceanographic Institution
principalInvestigator
Allisa Dalpe
Woods Hole Oceanographic Institution
principalInvestigator
Natalia Moore
University of Texas Rio Grande Valley
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: Saito, M. A., Dalpe, A., Jakuba, M., Breier, J., Moore, N. (2024) Log file from AUV Clio taken on R/V Atlantis (CliOMZ AT50-10 expedition) from Golfito Costa Rica to San Diego USA in May-June 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-09-09 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.929764.1 [access date]
CliOMZ AT50-10 AUV Clio Data: Clio Dive Log Dataset Description: Methods and Sampling: <p>Dive log for Clio dives 031-050. In depth operation summary for each dive can be found in the Clio Operations Report (see related publications).</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
Allisa Dalpe
Woods Hole Oceanographic Institution
adalpe@whoi.edu
pointOfContact
Natalia Moore
University of Texas Rio Grande Valley
natalia.moore01@utrgv.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
CRUISE_ID
PROGRAM_ID
CLIO_DIVE_ID
UID
STATION
DEPTH_STATION_TYPE
DEPTH_STATION_ORDER
DEPTH_STATION_PARAMETERS
BAY
SUPR_UNIT
SUPR_VALVE
SUPR_FILTER_INCUBATOR
FILTERS
STOP_CONDITION_TIME_VOL_RATE
STOP_TIME
STOP_VOLUME
STOP_RATE
INCUBATOR_PURGE_TIME
INCUBATOR_FILL_TIME
SAMPLE_START_TIME_UTC
ACTUAL_DEPTH_m
VOLUME_FILTERED_L
TIME_SPENT_FILTERING_min
VEHICLE_COMMENT
SUBMERGE_TIME_UTC
SUBMERGE_LAT
SUBMERGE_LON
SURFACE_TIME_UTC
SURFACE_LAT
SURFACE_LON
LAUNCH_TIME_UTC
RECOVERY_TIME_UTC
NOTES
theme
None, User defined
Cruise identfier
project
dive_id
sample identification
station id
sample description
time_end
time_start
depth
volume of water filtered
incubation time or duration
comments
ISO_DateTime_UTC
latitude
longitude
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
-118.131032
-88.964731
-10.052473
25.094033
2023-05-04
2023-06-07
Eastern Tropical Pacific
0
BCO-DMO catalogue of parameters from Log file from AUV Clio taken on R/V Atlantis (CliOMZ AT50-10 expedition) from Golfito Costa Rica to San Diego USA in May-June 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/932265.rdf
Name: CRUISE_ID
Units: unitless
Description: <p>Cruise name</p>
http://lod.bco-dmo.org/id/dataset-parameter/932266.rdf
Name: PROGRAM_ID
Units: unitless
Description: <p>Program name</p>
http://lod.bco-dmo.org/id/dataset-parameter/932267.rdf
Name: CLIO_DIVE_ID
Units: unitless
Description: <p>Clio dive number, sequential</p>
http://lod.bco-dmo.org/id/dataset-parameter/932268.rdf
Name: UID
Units: unitless
Description: <p>Unique identifier of format dive#_SUPRsamplername_SUPRvalve# (TC = Tigerclaw; BB = Bushbaby)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932269.rdf
Name: STATION
Units: unitless
Description: <p>Cruise station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/932270.rdf
Name: DEPTH_STATION_TYPE
Units: unitless
Description: <p>Adaptive or non-adaptive sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/932271.rdf
Name: DEPTH_STATION_ORDER
Units: unitless
Description: <p>The order in which samples were collected</p>
http://lod.bco-dmo.org/id/dataset-parameter/932272.rdf
Name: DEPTH_STATION_PARAMETERS
Units: meters
Description: <p>The depth at which the vehicle was commanded to sample. Note for adaptive samples, this was the initialized depth, but may have been changed with the adaptive behavior. See actual depth column.</p>
http://lod.bco-dmo.org/id/dataset-parameter/932273.rdf
Name: BAY
Units: unitless
Description: <p>The payload bay number (1-4) on AUV Clio where the SUPR sampler that took the sample was installed</p>
http://lod.bco-dmo.org/id/dataset-parameter/932274.rdf
Name: SUPR_UNIT
Units: unitless
Description: <p>Which Supr unit took the sample (BUSHBABY or TIGERCLAW)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932275.rdf
Name: SUPR_VALVE
Units: unitless
Description: <p>Which valve the sample was pumped on</p>
http://lod.bco-dmo.org/id/dataset-parameter/932276.rdf
Name: SUPR_FILTER_INCUBATOR
Units: unitless
Description: <p>The filter number as installed in the SUPR sampler</p>
http://lod.bco-dmo.org/id/dataset-parameter/932277.rdf
Name: FILTERS
Units: unitless
Description: <p>The type of filter installed</p>
http://lod.bco-dmo.org/id/dataset-parameter/932278.rdf
Name: STOP_CONDITION_TIME_VOL_RATE
Units: minutes (time), liters (volume), liters per minute (rate)
Description: <p>What triggers sampling to stop: time, volume, or rate</p>
http://lod.bco-dmo.org/id/dataset-parameter/932279.rdf
Name: STOP_TIME
Units: minutes
Description: <p>The duration at which the SUPR sampler is set to stop pumping (unit = minutes) when time is used as the stop criterion.</p>
http://lod.bco-dmo.org/id/dataset-parameter/932280.rdf
Name: STOP_VOLUME
Units: liters
Description: <p>The volume at which the SUPR sampler is set to stop pumping (unit = liters) when volume is used as the stop criterion.</p>
http://lod.bco-dmo.org/id/dataset-parameter/932281.rdf
Name: STOP_RATE
Units: liters per minute
Description: <p>The minimum flow rate below which the SUPR sampler is set to stop pumping (unit = liters per minute) when flow rate is used as the stop criterion.</p>
http://lod.bco-dmo.org/id/dataset-parameter/932282.rdf
Name: INCUBATOR_PURGE_TIME
Units: minute
Description: <p>The duration set for the incubator to perform its purge sequence</p>
http://lod.bco-dmo.org/id/dataset-parameter/932283.rdf
Name: INCUBATOR_FILL_TIME
Units: minute
Description: <p>The duration set for the incubator to fill</p>
http://lod.bco-dmo.org/id/dataset-parameter/932284.rdf
Name: SAMPLE_START_TIME_UTC
Units: UTC
Description: <p>The time at which pumping started for the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/932285.rdf
Name: ACTUAL_DEPTH_m
Units: meters
Description: <p>The actual depth the sample was taken at. This value is the average depth over time time period spent sampling.</p>
http://lod.bco-dmo.org/id/dataset-parameter/932286.rdf
Name: VOLUME_FILTERED_L
Units: liters
Description: <p>The amount of seawater pumped during the sample</p>
http://lod.bco-dmo.org/id/dataset-parameter/932287.rdf
Name: TIME_SPENT_FILTERING_min
Units: minutes
Description: <p>Actual time spent pumping (should match stop time)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932288.rdf
Name: VEHICLE_COMMENT
Units: unitless
Description: <p>Vehicle comment</p>
http://lod.bco-dmo.org/id/dataset-parameter/932289.rdf
Name: SUBMERGE_TIME_UTC
Units: unitless
Description: <p>Time of last Iridium update before submerging</p>
http://lod.bco-dmo.org/id/dataset-parameter/932290.rdf
Name: SUBMERGE_LAT
Units: decimal degrees
Description: <p>Latitude of last Iridium update before submerging</p>
http://lod.bco-dmo.org/id/dataset-parameter/932291.rdf
Name: SUBMERGE_LON
Units: decimal degrees
Description: <p>Longitude of last Iridium update before submerging</p>
http://lod.bco-dmo.org/id/dataset-parameter/932292.rdf
Name: SURFACE_TIME_UTC
Units: unitless
Description: <p>Time of first Iridium update after surfacing (note that Clio could be on surface for a significant amount of time due to other ship operations before recovery)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932293.rdf
Name: SURFACE_LAT
Units: decimal degrees
Description: <p>Latitude of first Iridium update after surfacing (note that Clio could be on surface for a significant amount of time due to other ship operations before recovery)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932294.rdf
Name: SURFACE_LON
Units: decimal degrees
Description: <p>Longitude of first Iridium update after surfacing (note that Clio could be on surface for a significant amount of time due to other ship operations before recovery)</p>
http://lod.bco-dmo.org/id/dataset-parameter/932295.rdf
Name: LAUNCH_TIME_UTC
Units: unitless
Description: <p>Vehicle released from ship</p>
http://lod.bco-dmo.org/id/dataset-parameter/932296.rdf
Name: RECOVERY_TIME_UTC
Units: unitless
Description: <p>Vehicle back on deck</p>
http://lod.bco-dmo.org/id/dataset-parameter/932297.rdf
Name: NOTES
Units: unitless
Description: <p>Dive notes</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
110334
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/6ee10c9c-ae1f-41a6-b877-3786c520684f/content
download
https://doi.org/10.26008/1912/bco-dmo.929764.1
download
onLine
dataset
<p>Dive log for Clio dives 031-050. In depth operation summary for each dive can be found in the Clio Operations Report (see related publications).</p>
Specified by the Principal Investigator(s)
* Removed headers that were diving up the dive plan file
* Remove total volume calculation at bottom of dive plan file
* Converted dates to ISO format
* Converted lat/lon to decimal degrees
* Removed empty fields from diveplan [DATE TIME RECOVERY] - redundant
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