http://lod.bco-dmo.org/id/dataset/1008244
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
2026-09-24
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Processed CTD depth profile data from Saanich and Tofino inlets in British Columbia, collected in July 2025 from the R/V Rachel Carson (RC0140)
2026-09-24
publication
2026-09-24
revision
BCO-DMO Linked Data URI
2026-09-24
creation
http://lod.bco-dmo.org/id/dataset/1008244
Robert Morris
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: Morris, R. (2026) Processed CTD depth profile data from Saanich and Tofino inlets in British Columbia, collected in July 2025 from the R/V Rachel Carson (RC0140). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2026-09-24 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/1008244 [access date]
Methods and Sampling: <p>Two anoxic fjords off the coast of Vancouver Island in British Columbia were visited as part of a project investigating the diversity and activity of marine bacteria and their viruses in low dissolved oxygen and anoxic waters. Sampling was conducted in Saanich Inlet and Tofino Inlet in 2025 aboard the R/V Rachel Carson from July 15th through July 27th. Water collection and environmental/oceanographic measurements were performed using a CTD rosette equipped with a SeaBird SBE-911 plus CTD, twelve 10 Liter Niskin bottles, and sensors to measure oxygen (Sea-Bird SBE 43), pH (Sea-Bird SBE 18), fluorescence (WETLabs ECO-FL-RTD), and beam transmission (SeaBird C-Star CST-25-DR). Sampling was done throughout the water column from the surface down to ~300 meters. Samples for chemical analyses (e.g. carbon, nitrogen, phosphorus), bacteria, and viruses were also collected for laboratory analysis.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2333925 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2333925
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2333926 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2333926
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2333927 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2333927
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-2333928 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2333928
onGoing
Robert Morris
University of Washington
206-221-7228
School of Oceanography Box 357940
Seattle
WA
98195-7940
USA
morrisrm@uw.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cast
Station
Lat
Lon
Bottle
Date
PrDM
DepSM
T090C
Potemp090C
Sal00
Sbox0MmKg
FlECOAFL
CStarTr0
Ph
SeaBird SBE-911 plus CTD
Sea-Bird SBE 18
Sea-Bird SBE 43
WETLabs ECO-FL-RTD
SeaBird C-Star CST-25-DR
theme
None, User defined
cast
station
latitude
longitude
bottle
date
water pressure
depth
water temperature at measurement depth
potential temperature
practical salinity
dissolved Oxygen
fluorescence
transmission
pH
featureType
BCO-DMO Standard Parameters
CTD Sea-Bird 911
Sea-Bird SBE 18 pH Sensor
Sea-Bird SBE 43 Dissolved Oxygen Sensor
Sea-Bird WETLabs ECO FLNTU(RT)D combined fluorometer and turbidity sensor
WET Labs {Sea-Bird WETLabs} C-Star transmissometer
instrument
BCO-DMO Standard Instruments
RC0140
service
Deployment Activity
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: The effects of SUP05 cells and virocells on nitrogen cycling in marine oxygen minimum zones
https://www.ocean.washington.edu/story/show/19810
Collaborative Research: The effects of SUP05 cells and virocells on nitrogen cycling in marine oxygen minimum zones
<p><em>NSF Award Abstract:</em><br />
Bacteria and the viruses that infect them (phages) play a major role in marine ecosystems. Their host-virus interactions can alter community structure, preserve genetic diversity, and impact nutrient cycling. Up to a third of the bacteria that dominate marine oxygen minimum zones (OMZs) are infected with phages, yet the consequences of the host-virus interactions are unknown. Environmental DNA sequence data suggest that a dominant lineage of OMZ bacteria (SUP05) is comprised of species and subspecies that carry out different steps in marine nitrogen cycling and that these cells are often infected by viruses. The nitrogen cycling capacity of diverse SUP05 cells can drive the accumulation of nitrogen cycle intermediates in the oceans or lead directly to significant nitrogen loss. The outcome may be driven in part by phages, by causing cell death, metabolic rewiring of infected cells (virocells), or through the expression of phage-encoded auxiliary metabolic genes (AMGs). This project is testing the overarching hypothesis that SUP05 populations are comprised of diverse nitrogen respiring cell types and that their interactions with phages can determine the fate of fixed nitrogen. The investigators are studying SUP05 cells and viruses from OMZs to detail their combined effects on nitrogen cycling and loss processes in OMZs. The project is providing graduate and undergraduate students with hands-on collaborative field and laboratory research experiences, with a focus on broadening participation in oceanography. Through local science festivals, open houses, and interactive classroom lessons, K-12 students are learning about OMZs, nitrogen cycling, and viral infection. Results are being presented at national and international conferences and published in peer-reviewed journals, and all sequence and biogeochemical data, as well as new cultures of SUP05 and phage isolates are being made available to the broader scientific community.</p>
<p>Up to 25% of the fixed nitrogen in the ocean is lost as gaseous products through denitrification and other microbial processes in OMZs. These regions are also hotspots for nitrous oxide (N2O) production and emission to the atmosphere. While sulfur oxidizing chemoautotrophs from the SUP05 clade of marine bacteria and their viruses are abundant in marine OMZs, the roles of host-virus interactions in biogeochemical processes are largely unknown. This interdisciplinary study is evaluating SUP05 cells and phages in stable OMZ fjord systems using a combination of in situ measurements, DNA and RNA sequencing, and laboratory experiments to link the metabolic activities of SUP05 with the underlying nitrogen transformations they mediate in the ocean. The collective expertise of team members using field approaches to study microbial and viral diversity in nature, cultivation studies to test genomic predictions under controlled laboratory conditions, and isotope analyses to identify the rates and mechanisms underlying microbial nitrogen cycling and loss are being combined to provide new information about the conditions and activities that regulate SUP05 nitrogen cycling and loss in marine OMZs. Ultimately, this multi-faceted approach is filling critical gaps in our understanding of SUP05 cells and phages and how they collectively influence the marine nitrogen cycle.</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>
SUP05, Viruses, and Nitrogen
largerWorkCitation
project
eng; USA
oceans
-125.693333
-122.449667
47.711667
49.225333
2025-07-15
2025-07-26
North Pacific Anoxic Fjords
0
BCO-DMO catalogue of parameters from Processed CTD depth profile data from Saanich and Tofino inlets in British Columbia, collected in July 2025 from the R/V Rachel Carson (RC0140)
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/1008346.rdf
Name: Cast
Units: unitless
Description: <p>Sequential CTD cast number.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008347.rdf
Name: Station
Units: unitless
Description: <p>Sampling locations (MB=Puget Sound main basin, SI=Saanich Inlet, TI=Tofino Inlet).</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008348.rdf
Name: Lat
Units: decimal degrees
Description: <p>Latitude of CTD measurements and Niskin sampling in decimal degrees; a positive value indicates a northern coordinate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008350.rdf
Name: Lon
Units: decimal degrees
Description: <p>Longitude of CTD measurements and Niskin sampling; a negative value indicates a western coordinate.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008352.rdf
Name: Bottle
Units: unitless
Description: <p>Niskin bottle number associated with the sample cast.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008353.rdf
Name: Date
Units: unitless
Description: <p>Date of sampling.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008354.rdf
Name: PrDM
Units: decibar (dB)
Description: <p>Pressure from the Digiquartz pressure sensor.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008355.rdf
Name: DepSM
Units: meters (m)
Description: <p>Depth derived from pressure using latitude-dependent conversion.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008357.rdf
Name: T090C
Units: degrees Celsius
Description: <p>Temperature from CTD primary temperature sensor.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008358.rdf
Name: Potemp090C
Units: degrees Celsius
Description: <p>Potential temperature referenced to surface pressure.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008359.rdf
Name: Sal00
Units: PSU
Description: <p>Practical salinity derived from conductivity, temperature, and pressure.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008360.rdf
Name: Sbox0MmKg
Units: umol/kg
Description: <p>Dissolved oxygen concentration from the SBE 43 sensor.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008361.rdf
Name: FlECOAFL
Units: mg/m^3
Description: <p>Fluorescence from a WETS Labs ECO fluorometer.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008362.rdf
Name: CStarTr0
Units: percent transmission
Description: <p>Beam transmissometer output; measure of light transmission.</p>
http://lod.bco-dmo.org/id/dataset-parameter/1008363.rdf
Name: Ph
Units: unitless
Description: <p>Hydrogen ion activity (pH).</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
https://osprey.bco-dmo.org/dataset/1008244/data/download
download
onLine
dataset
<p>Two anoxic fjords off the coast of Vancouver Island in British Columbia were visited as part of a project investigating the diversity and activity of marine bacteria and their viruses in low dissolved oxygen and anoxic waters. Sampling was conducted in Saanich Inlet and Tofino Inlet in 2025 aboard the R/V Rachel Carson from July 15th through July 27th. Water collection and environmental/oceanographic measurements were performed using a CTD rosette equipped with a SeaBird SBE-911 plus CTD, twelve 10 Liter Niskin bottles, and sensors to measure oxygen (Sea-Bird SBE 43), pH (Sea-Bird SBE 18), fluorescence (WETLabs ECO-FL-RTD), and beam transmission (SeaBird C-Star CST-25-DR). Sampling was done throughout the water column from the surface down to ~300 meters. Samples for chemical analyses (e.g. carbon, nitrogen, phosphorus), bacteria, and viruses were also collected for laboratory analysis.</p>
Specified by the Principal Investigator(s)
<p>The data were processed according to the GO-SHIP Repeat Hydrography Manual (McTaggart et al., 2010) using Software Version Seasave V 7.26.7.107 and with the following parameters.</p>
<ul>
<li>Data Conversion</li>
<li>Align CTD – default settings</li>
<li>Bottle Summary</li>
<li>Wild Edit – default settings</li>
<li>Filter – default settings</li>
<li>Cell Thermal Mass – default settings</li>
<li>Loop Edit – default settings</li>
<li>Derive TEOS-10</li>
<li>Bin Average – 0.5-db bins and only the downcast</li>
</ul>
Specified by the Principal Investigator(s)
Curation Performed on Primary Data File:
- Loaded SUP05_Titan_Master_CTDfile.csv as table 1008244_v1_sup05titan_processed_ctd_data, treating empty strings and “nd” as missing values
- Converted Lat and Lon from degrees–decimal minutes to decimal degrees using regex-based parsing
- Standardized the Date column by replacing “Jul” with “July”
- Converted Date from text in the format %B %d %Y to a date field formatted as %Y-%m-%d
- Set column types: Bottle (integer), CStarTr0 (number), Cast (string), Date (date), DepSM (number), FlECO-AFL (number), Lat (number), Lon (number), Ph (number), Potemp090C (number), PrDM (number), Sal00 (number), Sbox0Mm/Kg (number), Station (string), and T090C (number)
- Rounded Lat and Lon to six decimal places, preserving trailing zeros
- Renamed Sbox0Mm/Kg to Sbox0MmKg
- Renamed FlECO-AFL to FlECOAFL
- Updated field metadata for all columns, including descriptions, standard name IDs, supplied units, and primary parameter designations
- Saved the final table as 1008244_v1_sup05titan_processed_ctd_data.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
SeaBird SBE-911 plus CTD
SeaBird SBE-911 plus CTD
PI Supplied Instrument Name: SeaBird SBE-911 plus CTD PI Supplied Instrument Description:Used to conduct water column sampling and environmental/oceanographic measurements throughout the water column (surface to ~300 m) in Saanich and Tofino Inlets, mounted with 12 Niskin bottles and auxiliary sensors. Instrument Name: CTD Sea-Bird 911 Instrument Short Name:CTD SBE 911 Instrument Description: The Sea-Bird SBE 911 is a type of CTD instrument package. The SBE 911 includes the SBE 9 Underwater Unit and the SBE 11 Deck Unit (for real-time readout using conductive wire) for deployment from a vessel. The combination of the SBE 9 and SBE 11 is called a SBE 911. The SBE 9 uses Sea-Bird's standard modular temperature and conductivity sensors (SBE 3 and SBE 4). The SBE 9 CTD can be configured with 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/TOOL0035/
Sea-Bird SBE 18
Sea-Bird SBE 18
PI Supplied Instrument Name: Sea-Bird SBE 18 PI Supplied Instrument Description:A Sea-Bird SBE 18 sensor, integrated as part of the SBE-911 suite, was used to measure pH. Instrument Name: Sea-Bird SBE 18 pH Sensor Instrument Short Name:SBE 18 pH Instrument Description: A pH sensor using a pressure-balanced glass-electrode Ag_AgCl-reference pH probe to provide in-situ measurements at depths up to 1200m. The replaceable pH probe is permanently sealed and is supplied with a soaker bottle attachment that prevents the reference electrode from drying out during storage.
Sea-Bird SBE 43
Sea-Bird SBE 43
PI Supplied Instrument Name: Sea-Bird SBE 43 PI Supplied Instrument Description:A Sea-Bird SBE 43 sensor, integrated as part of the SBE-911 suite, was used to measure dissolved oxygen. Instrument Name: Sea-Bird SBE 43 Dissolved Oxygen Sensor Instrument Short Name:SBE-43 DO Instrument Description: The Sea-Bird SBE 43 dissolved oxygen sensor is a redesign of the Clark polarographic membrane type of dissolved oxygen sensors. More information from the manufacturer: https://www.seabird.com/products/sbe-43-dissolved-oxygen-sensor Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0036/
WETLabs ECO-FL-RTD
WETLabs ECO-FL-RTD
PI Supplied Instrument Name: WETLabs ECO-FL-RTD PI Supplied Instrument Description:A WETLabs ECO-FL-RTD sensor, integrated as part of the SBE-911 suite, was used to measure fluorescence. Instrument Name: Sea-Bird WETLabs ECO FLNTU(RT)D combined fluorometer and turbidity sensor Instrument Short Name:WET Labs ECO FLNTU(RT)D Instrument Description: This optical sensor is available in combinations of backscattering, turbidity, and fluorescence measurements. It records in real-time and does not store data. ECOs feature optional active anti-fouling and internal batteries for long-term deployments. This instrument has a user-selectable sample rate up to 8 Hz The fluorometer can typically measure pigment concentrations in the range 0-75 ug/l, with a sensitivity of 0.037 ug/l, at wavelengths of 470 or 695 nm. The turbidity sensor can measure within the range 0-200 NTU, with a sensitivity of 0.098 NTU, at a wavelength of 700 nm. The instrument is stable over a temperature range of 0-30 degC and is rated to a depth of 6000 m.
SeaBird C-Star CST-25-DR
SeaBird C-Star CST-25-DR
PI Supplied Instrument Name: SeaBird C-Star CST-25-DR PI Supplied Instrument Description:A SeaBird C-Star CST-25-DR sensor, integrated as part of the SBE-911 suite, was used to measure beam transmission. Instrument Name: WET Labs {Sea-Bird WETLabs} C-Star transmissometer Instrument Short Name:WL CSTAR Trans Instrument Description: The C-Star transmissometer has a novel monolithic housing with a highly integrated opto-electronic design to provide a low cost, compact solution for underwater measurements of beam transmittance. The C-Star is capable of free space measurements or flow-through sampling when used with a pump and optical flow tubes. The sensor can be used in profiling, moored, or underway applications. Available with a 6000 m depth rating.
More information on Sea-Bird website: https://www.seabird.com/c-star-transmissometer/product?id=60762467717 Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0160/
Cruise: RC0140
RC0140
R/V Rachel Carson (UW)
Community Standard Description
International Council for the Exploration of the Sea
R/V Rachel Carson (UW)
vessel
R/V Rachel Carson (UW)
Community Standard Description
International Council for the Exploration of the Sea
R/V Rachel Carson (UW)
vessel