http://lod.bco-dmo.org/id/dataset/948735
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
2025-01-17
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Sinking Organic Particle fluxes and stable C isotopes (collected with sediment traps) from the Eastern Tropical North Pacific on the R/V Sikuliaq cruise SKQ201617S in January 2017
2025-01-17
publication
2025-01-17
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-02-04
publication
https://doi.org/10.26008/1912/bco-dmo.948735.1
Richard Keil
University of Washington
principalInvestigator
Allan Devol
University of Washington
principalInvestigator
Clara Fuchsman
University of Washington
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: Fuchsman, C., Duffy, M. E., Devol, A., Keil, R., Neibauer, J. A. (2025) Sinking Organic Particle fluxes and stable C isotopes (collected with sediment traps) from the Eastern Tropical North Pacific on the R/V Sikuliaq cruise SKQ201617S in January 2017. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-01-17 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.948735.1 [access date]
Methods and Sampling: <p>Free floating, unpoisoned surface tethered sediment traps were used to quantify fluxes of sinking particles at St P2&nbsp;&nbsp;(16.5ºN&nbsp;107ºW)&nbsp;in January 2017, deployed from the R/V Sikuliaq on cruise SKQ201617S. Trap depths ranged between 69 m and 965 m, and trap deployments ranged between 21 and 91 hours with deeper traps deployed for longer. Traps were deployed in arrays of two traps per line. Two types of traps were deployed: 1) in shallow waters (&lt;150 m), traps with a solid plastic cone top (0.46 m<sup>2</sup> opening area) were used, 2) in deep waters (&gt;150 m), net traps (1.24 m<sup>2</sup> opening area) modeled from (Peterson et al., 2005) were used. For both types of trap, the cod end had bottoms that were open during deployment and during an 8 hour equilibration period at the target depth performed to remove oxygen contamination. Cod ends were closed with a gate valve, using a pre-programmed electronic dissolving link (burn wire) system controlled by an onboard Arduino microcontroller to start collection at the correct depth, and a second gate valve that closed the top of the cod end before retrieval. The aspect ratio, or height/trap mouth diameter, of the net traps was 2.5 while the aspect ratio of the cone traps was 0.6. These two types of traps have been shown to collect material with similar efficiency when normalized by opening area&nbsp;(Cram et al., 2022).&nbsp;No salt solution was used with these traps and no poisons were used in any chamber.</p>
<p>Some trap deployments functioned as simple sediment traps, and some deployments were combined trap and in situ incubators. The combined trap incubators consisted of upper and lower chambers. The material used to calculate fluxes reported here was collected from the upper chamber and was not incubated.&nbsp; Sinking material was collected in the lower incubation chamber, then isolated by closed a gate valve and injected with <sup>15</sup>N-NO<sub>2</sub><sup>-</sup> . While the incubation occurred (in situ), sinking material was collected in an upper chamber that never encountered the spiked material. However, we do not report d<sup>15</sup>N natural stable isotopes for the sediment trap material here due to proximity to the incubation.&nbsp;</p>
<p>After every deployment, sediment trap material was filtered onto pre-combusted GF-75 filters (0.3 µm nominal pore size). To conform to community standards, zooplankton carcasses were not included in the measurements of carbon and nitrogen flux.&nbsp;Filter samples (particles only) were wafted with HCl overnight to remove carbonate, dried at 40°C, packed into silver foil cups, and sent to the University of Washington Isolab facility in the Department of Earth and Space Sciences (Seattle, WA) for C and N analysis utilizing an Costech elemental analyzer &nbsp;attached to an isotope ratio mass spectrometer (ThermoFinnegan MAT 253).</p>
Funding provided by NSF Division of Environmental Biology (NSF DEB) Award Number: DEB-1542240 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1542240
completed
Richard Keil
University of Washington
206-685-9994
School of Oceanography Box 355351
Seattle
WA
98195
USA
keil@u.washington.edu
pointOfContact
Allan Devol
University of Washington
206-543-1292
School of Oceanography University of Washington, Box 355351
Seattle
WA
98195
USA
devol@u.washington.edu
pointOfContact
Clara Fuchsman
University of Washington
P. O. Box 775 2020 Horns Point Rd
Cambridge
MD
21613
USA
cfuchsman@umces.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Station
latitude
longitude
Date_deployed
Duration
Depth
TrapID
TrapType
Incubator
Trap_Area
Flux_C
Flux_N
C_to_N
d13C_VPDB
ThermoFinnigan MAT 253
theme
None, User defined
station
latitude
longitude
date
time_elapsed
depth
Sensor/Instrument identifier
type of sediment trap
sample description
No BCO-DMO term
Carbon to Nitrogen ratio (C:N)
d13C
featureType
BCO-DMO Standard Parameters
Costech International Elemental Combustion System (ECS) 4010
Isotope-ratio Mass Spectrometer
instrument
BCO-DMO Standard Instruments
SKQ201617S
service
Deployment Activity
Eastern Tropical North 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.
Dimensions of Biodiversity
http://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503446
Dimensions of Biodiversity
(adapted from the NSF Synopsis of Program)
Dimensions of Biodiversity is a program solicitation from the NSF Directorate for Biological Sciences. FY 2010 was year one of the program. [MORE from NSF]
The NSF Dimensions of Biodiversity program seeks to characterize biodiversity on Earth by using integrative, innovative approaches to fill rapidly the most substantial gaps in our understanding. The program will take a broad view of biodiversity, and in its initial phase will focus on the integration of genetic, taxonomic, and functional dimensions of biodiversity. Project investigators are encouraged to integrate these three dimensions to understand the interactions and feedbacks among them. While this focus complements several core NSF programs, it differs by requiring that multiple dimensions of biodiversity be addressed simultaneously, to understand the roles of biodiversity in critical ecological and evolutionary processes.
Dimensions of Biodiversity
largerWorkCitation
program
Dimensions: Diversity, assembly and function of microbial communities on suspended and sinking particles in a marine Oxygen Deficient Zone
https://osprey.bco-dmo.org/project/665101
Dimensions: Diversity, assembly and function of microbial communities on suspended and sinking particles in a marine Oxygen Deficient Zone
<p><em>Extracted from the NSF award abstract:</em></p>
<p>Marine oxygen deficient zones (ODZs) are waters that are functionally devoid of oxygen. Without oxygen, some microbes are capable of converting nitrogen in the water into N2 gas, which then leaves the ocean and enters the atmosphere. This loss of an important nutrient from the ocean has impacts on phytoplankton growth and marine food webs. While oxygen deficient zones occupy a very small percentage of the ocean, they account for as much as half of the oceanic loss of N as N2. Moreover, the size of these regions is predicted to expand during this century due to climate change. The microbes that are capable of producing N2 gas are extremely diverse, and use several different biochemical pathways to carry out this process. They may occur both free-floating in the water and attached to small particles that are suspended or sinking from the surface waters and providing them a carbon source. However the importance of these two lifestyles (free-living vs particle attached) in terms of contributions to N loss from the oceans is not well understood. This project will identify the major organisms that result in N2 gas production on both suspended and sinking particles, the chemical reactions they carry out, and the rates at which this occurs. This information will be used to improve global climate models to better predict rates of N loss in a future ocean. Elementary and middle school teachers enrolled in a Masters in Science for Science Teachers program will be involved in the project and the graduate students and post-doctoral researchers supported by the project will have opportunities to participate in their classrooms. Underserved populations will also be integrated into the research at the undergraduate and middle school level through a series of summer internships.</p>
<p>ODZs have very complex elemental cycles, implying great microbial diversity. Intertwined with the microbial complexity of ODZ regions is the relatively unexplored interplay between free-living bacteria and those living on either suspended or sinking particles. Determining how these communities and niches interact and relate is one of the most challenging components of ODZ system studies today. Current climate models portray the dynamics of particles in the ODZs and throughout the deep ocean through prescribed functions based on sparse data from the oxic ocean with microbes represented only by the net chemical reactions of the community. However, in reality a phylogenetically and metabolically diverse group of microbes, likely acting in consortia, are responsible for the nitrogen transformations that ultimately result in the production of N2. To explore the processes maintaining the genetic diversity and functional redundancy in N loss processes, four research areas will be integrated: the community phylogenetic diversity (both taxonomic and genomic diversity) the genetic diversity of the proteins that carry out key N transformation processes (as seen through quantitative proteomics), the resulting biogeochemical functions (15N labeled nitrogen transformation rate measurements) and predictions about how this diversity and corresponding function may change in response to climate change (biogeochemical modeling). The approach will be to assay both phylogenetic (16S rRNA tag sequencing) and functional genetic diversity (genomics) on sinking particles collected using large-volume sediment traps. Phylogenetic and genomic studies will be intimately tied to measurements of activity - who is doing key biogeochemical transformations (proteomics) and what are the in situ rates at which they are doing them (using novel incubation systems). Data will then be used to model how diversity and corresponding function change on a range of time and space scales, from the sinking of a single particle to seasonal cycles. To understand the relationship of community diversity and function on suspended and sinking particles, a series of three cruises will be conducted in the Eastern Tropical North Pacific ODZ.</p>
ETNP_ParticleOmics
largerWorkCitation
project
eng; USA
oceans
Eastern Tropical North Pacific Ocean
-107.14
-106.97
16.52
16.56
2017-01-07
2017-01-14
Eastern Tropical North Pacific
0
BCO-DMO catalogue of parameters from Sinking Organic Particle fluxes and stable C isotopes (collected with sediment traps) from the Eastern Tropical North Pacific on the R/V Sikuliaq cruise SKQ201617S in January 2017
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/950100.rdf
Name: Station
Units: unitless
Description: <p>station sampled</p>
http://lod.bco-dmo.org/id/dataset-parameter/950101.rdf
Name: latitude
Units: decimal degrees
Description: <p>location sampled (latitude)</p>
http://lod.bco-dmo.org/id/dataset-parameter/950102.rdf
Name: longitude
Units: decimal degrees
Description: <p>location sampled (longitude)</p>
http://lod.bco-dmo.org/id/dataset-parameter/950103.rdf
Name: Date_deployed
Units: unitless
Description: <p>date deployed (ISO 8601 format)</p>
http://lod.bco-dmo.org/id/dataset-parameter/950104.rdf
Name: Duration
Units: hours (hr)
Description: <p>Length of time for organic matter collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/950105.rdf
Name: Depth
Units: meters (m)
Description: <p>depth of trap</p>
http://lod.bco-dmo.org/id/dataset-parameter/950106.rdf
Name: TrapID
Units: unitless
Description: <p>Unique number for trap array</p>
http://lod.bco-dmo.org/id/dataset-parameter/950107.rdf
Name: TrapType
Units: unitless
Description: <p>trap type (cone or net trap)</p>
http://lod.bco-dmo.org/id/dataset-parameter/950108.rdf
Name: Incubator
Units: unitless
Description: <p>Did an insitu incubation occur as part of this deployment (Yes or No).</p>
http://lod.bco-dmo.org/id/dataset-parameter/950109.rdf
Name: Trap_Area
Units: meters squared (m2)
Description: <p>The area of the trap opening</p>
http://lod.bco-dmo.org/id/dataset-parameter/950110.rdf
Name: Flux_C
Units: micromols per meters squared per day umol/m2-d
Description: <p>The sinking flux of organic C</p>
http://lod.bco-dmo.org/id/dataset-parameter/950111.rdf
Name: Flux_N
Units: micromols per meters squared per day umol/m2-d
Description: <p>The sinking flux of organic N</p>
http://lod.bco-dmo.org/id/dataset-parameter/950112.rdf
Name: C_to_N
Units: unitless
Description: <p>ratio of molar carbon to nitrogen concentrations (C:N)</p>
http://lod.bco-dmo.org/id/dataset-parameter/950113.rdf
Name: d13C_VPDB
Units: permil (0/00)
Description: <p>isotopic composition of C (d13C). Reference standard VPDB="Vienna Pee Dee Belemnite"</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
1024
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/a612ac20-a862-4955-849d-81b8b84e4e95/content
download
https://doi.org/10.26008/1912/bco-dmo.948735.1
download
onLine
dataset
<p>Free floating, unpoisoned surface tethered sediment traps were used to quantify fluxes of sinking particles at St P2&nbsp;&nbsp;(16.5ºN&nbsp;107ºW)&nbsp;in January 2017, deployed from the R/V Sikuliaq on cruise SKQ201617S. Trap depths ranged between 69 m and 965 m, and trap deployments ranged between 21 and 91 hours with deeper traps deployed for longer. Traps were deployed in arrays of two traps per line. Two types of traps were deployed: 1) in shallow waters (&lt;150 m), traps with a solid plastic cone top (0.46 m<sup>2</sup> opening area) were used, 2) in deep waters (&gt;150 m), net traps (1.24 m<sup>2</sup> opening area) modeled from (Peterson et al., 2005) were used. For both types of trap, the cod end had bottoms that were open during deployment and during an 8 hour equilibration period at the target depth performed to remove oxygen contamination. Cod ends were closed with a gate valve, using a pre-programmed electronic dissolving link (burn wire) system controlled by an onboard Arduino microcontroller to start collection at the correct depth, and a second gate valve that closed the top of the cod end before retrieval. The aspect ratio, or height/trap mouth diameter, of the net traps was 2.5 while the aspect ratio of the cone traps was 0.6. These two types of traps have been shown to collect material with similar efficiency when normalized by opening area&nbsp;(Cram et al., 2022).&nbsp;No salt solution was used with these traps and no poisons were used in any chamber.</p>
<p>Some trap deployments functioned as simple sediment traps, and some deployments were combined trap and in situ incubators. The combined trap incubators consisted of upper and lower chambers. The material used to calculate fluxes reported here was collected from the upper chamber and was not incubated.&nbsp; Sinking material was collected in the lower incubation chamber, then isolated by closed a gate valve and injected with <sup>15</sup>N-NO<sub>2</sub><sup>-</sup> . While the incubation occurred (in situ), sinking material was collected in an upper chamber that never encountered the spiked material. However, we do not report d<sup>15</sup>N natural stable isotopes for the sediment trap material here due to proximity to the incubation.&nbsp;</p>
<p>After every deployment, sediment trap material was filtered onto pre-combusted GF-75 filters (0.3 µm nominal pore size). To conform to community standards, zooplankton carcasses were not included in the measurements of carbon and nitrogen flux.&nbsp;Filter samples (particles only) were wafted with HCl overnight to remove carbonate, dried at 40°C, packed into silver foil cups, and sent to the University of Washington Isolab facility in the Department of Earth and Space Sciences (Seattle, WA) for C and N analysis utilizing an Costech elemental analyzer &nbsp;attached to an isotope ratio mass spectrometer (ThermoFinnegan MAT 253).</p>
Specified by the Principal Investigator(s)
<p>ug C and N were converted to fluxes in Microsoft Excel using the area of the trap opening and the duration of the deployment.&nbsp;</p>
Specified by the Principal Investigator(s)
* Sheet 1 of submitted file "ETNP_2017_P2_sediment_traps.xlsx" was imported into the BCO-DMO data system. Table will appear as Data File: 948735_v1_etnp-2017-sedtrap-fluxes.csv (along with other download format options).
** In the BCO-DMO data system missing data identifiers are displayed according to the format of data you access. For example, in csv files it will be blank (null) values. In Matlab .mat files it will be NaN values. When viewing data online at BCO-DMO, the missing value will be shown as blank (null) values.
* Date converted to ISO 8601 format
* Lat lon converted to decimal degrees (south and west are negative, degree symbols and directional NSEW removed)
* Supplemental reference table was attached without format changes.
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: PI Supplied Instrument Description:Carbon and Nitrogen amounts and isotopic composition was measured with a Costech Elemental Analyzer attached to ThermoFinnigan MAT 253 isotope ratio mass spectrometer at the University of Washington Isolab facility in the Department of Earth and Space Sciences (Seattle, WA). Instrument Name: Costech International Elemental Combustion System (ECS) 4010 Instrument Short Name:Costech ECS 4010 Instrument Description: The ECS 4010 Nitrogen / Protein Analyzer is an elemental combustion analyser for CHNSO elemental analysis and Nitrogen / Protein determination. The GC oven and separation column have a temperature range of 30-110 degC, with control of +/- 0.1 degC.
ThermoFinnigan MAT 253
ThermoFinnigan MAT 253
PI Supplied Instrument Name: ThermoFinnigan MAT 253 PI Supplied Instrument Description:Carbon and Nitrogen amounts and isotopic composition was measured with a Costech Elemental Analyzer attached to ThermoFinnigan MAT 253 isotope ratio mass spectrometer at the University of Washington Isolab facility in the Department of Earth and Space Sciences (Seattle, WA). 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: SKQ201617S
SKQ201617S
R/V Sikuliaq
Community Standard Description
International Council for the Exploration of the Sea
R/V Sikuliaq
vessel
SKQ201617S
Gabrielle Rocap
University of Washington
R/V Sikuliaq
Community Standard Description
International Council for the Exploration of the Sea
R/V Sikuliaq
vessel