http://lod.bco-dmo.org/id/dataset/962594
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
2025-05-27
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
In situ prokaryotic and viral abundance from hydrothermal vent site Tica samples from R/V Falkor (too) cruise FKt230629, East Pacific Rise in July of 2023
2025-05-27
publication
2025-05-27
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-05-29
publication
https://doi.org/10.26008/1912/bco-dmo.962594.1
Christian Winter
University of Vienna
principalInvestigator
Monika Bright
University of Vienna
principalInvestigator
Tinkara Tinta
National Institute of Biology, Slovenia
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: Bright, M., Winter, C., Tinta, T., Krause, N. (2025) In situ prokaryotic and viral abundance from hydrothermal vent site Tica samples from R/V Falkor (too) cruise FKt230629, East Pacific Rise in July of 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-05-27 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.962594.1 [access date]
Methods and Sampling: <p>Samples were collected using a suction-sampler operated onboard the remotely-operated vehicle (ROV) SuBastian. Samples for the enumeration of prokaryotic cells and viruses were immediately fixed with glutaraldehyde at a final concentration of 0.5% at room temperature for 10 minutes, flash-frozen in liquid nitrogen, and stored at -80°C until analysis by flow cytometry (Brussaard et al. 2010). Upon thawing samples were stained with SYBR Green I for 10 minutes at room temperature for prokaryotes or at 80°C for viruses. The samples were then analyzed using a FACSAria III flow cytometer (Becton Dickinson), and prokaryotes and viruses were enumerated on cytograms of side scatter versus green fluorescence (Brussaard et al. 2010).</p>
Funding provided by Schmidt Ocean Institute (SOI) Award Number: FKt230627
completed
Christian Winter
University of Vienna
Althanstr. 14
Vienna
Austria
christian.winter@univie.ac.at
pointOfContact
Monika Bright
University of Vienna
+43 1 4277 76430
Department of Functional and Evolutionary Ecology Djerassiplatz 1
Vienna
Austria
monika.bright@univie.ac.at
pointOfContact
Tinkara Tinta
National Institute of Biology, Slovenia
tinkara.tinta@nib.si
pointOfContact
asNeeded
Dataset Version: 1
Unknown
subsample_id
habitat
latitude
longitude
date
time
ISO_DateTime_UTC
depth
prokaryotes
viruses
FACSAria III flow cytometer (Becton Dickinson)
theme
None, User defined
sample identification
site description
latitude
longitude
date_local
time_local
ISO_DateTime_UTC
depth
cell_concentration
featureType
BCO-DMO Standard Parameters
Flow Cytometer
ROV SuBastian
instrument
BCO-DMO Standard Instruments
FKt230629
service
Deployment Activity
East Pacific Rise 9°N 104°W
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.
The Underworld of Hydrothermal Vents
https://schmidtocean.org/cruise/underworld-of-hydrothermal-vents/
The Underworld of Hydrothermal Vents
<p>Since the discovery of deep-sea hydrothermal vents in 1977, scientists realize that life exists above and below the seafloor. The extent to which they are interconnected, however, remains poorly understood. We propose to characterize subsurface biosphere diversity, from viruses to animals, at deep-sea hydrothermal vents to elucidate the nature and extent of connectivity between the surficial and subsurface biospheres. We will test the hypotheses that 1) eukaryotic life is also an integral component of the subseafloor biosphere; 2) the subseafloor is inhabited by both cosmopolitan and endemic protists and fungi; and 3) the subseafloor habitats harbor larvae -and perhaps adult life stages- of vent endemic animals. This research will transform our understanding of the ecology/evolution of subseafloor habitats and our thinking about animal recruitment at deep-sea vents. Consistent with SOI's mission, we will expand our knowledge of limits of eukaryotic life. During a three-week cruise with R/V Falkor and ROV SuBastian to "East Pacific Rise" vents at the 9º50'N region, we will use in situ and lab experiments, molecular identification with amplicon sequencing, Illumina NextSeq 500 technology, 2bRAD population genetic analyses, and RT qPCR for functional analyses. Our data management plan includes deposition of metadata/samples to long-term repositories. Outreach includes inquiry-learning telepresence programs for children from USA and Europe.</p>
Vent Underworld
largerWorkCitation
project
eng; USA
oceans
East Pacific Rise 9°N 104°W
-104.291922
-104.291555
9.839953
9.840335
2023-07-05
2023-07-22
East Pacific Rise
0
BCO-DMO catalogue of parameters from In situ prokaryotic and viral abundance from hydrothermal vent site Tica samples from R/V Falkor (too) cruise FKt230629, East Pacific Rise in July 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/962605.rdf
Name: subsample_id
Units: unitless
Description: <p>identification number of the sample during soi cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/962606.rdf
Name: habitat
Units: unitless
Description: <p>sample location, either surface vent, subsurface vent, or deep sea (vent, non vent, subvent)</p>
http://lod.bco-dmo.org/id/dataset-parameter/962607.rdf
Name: latitude
Units: decimal degrees
Description: <p>geographic latitude, GPS position</p>
http://lod.bco-dmo.org/id/dataset-parameter/962608.rdf
Name: longitude
Units: decimal degrees
Description: <p>geographic longitude, GPS position</p>
http://lod.bco-dmo.org/id/dataset-parameter/962609.rdf
Name: date
Units: unitless
Description: <p>date of sampling</p>
http://lod.bco-dmo.org/id/dataset-parameter/962610.rdf
Name: time
Units: unitless
Description: <p>sampling time (Time zone GMT-6)</p>
http://lod.bco-dmo.org/id/dataset-parameter/962611.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Datetime with timezone of sampling (ISO 8601 format)</p>
http://lod.bco-dmo.org/id/dataset-parameter/962612.rdf
Name: depth
Units: meters (m)
Description: <p>depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/962613.rdf
Name: prokaryotes
Units: 10000 prokaryotic cells per milliliter (10^4 mL^-1)
Description: <p>prokaryotic cell concentration</p>
http://lod.bco-dmo.org/id/dataset-parameter/962614.rdf
Name: viruses
Units: 10000 viruses per milliliter (10^4 mL^-1)
Description: <p>virus concentration</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
976
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/eba0e985-041a-4a23-869f-20a1be4fa346/content
download
https://doi.org/10.26008/1912/bco-dmo.962594.1
download
onLine
dataset
<p>Samples were collected using a suction-sampler operated onboard the remotely-operated vehicle (ROV) SuBastian. Samples for the enumeration of prokaryotic cells and viruses were immediately fixed with glutaraldehyde at a final concentration of 0.5% at room temperature for 10 minutes, flash-frozen in liquid nitrogen, and stored at -80°C until analysis by flow cytometry (Brussaard et al. 2010). Upon thawing samples were stained with SYBR Green I for 10 minutes at room temperature for prokaryotes or at 80°C for viruses. The samples were then analyzed using a FACSAria III flow cytometer (Becton Dickinson), and prokaryotes and viruses were enumerated on cytograms of side scatter versus green fluorescence (Brussaard et al. 2010).</p>
Specified by the Principal Investigator(s)
* Sheet 1 of submitted file "insituAbundances.xls" was imported into the BCO-DMO data system for this dataset. Table will appear as Data File: 962594_v1_insitu_abundances.csv (along with other download format options).
* Column names adjusted to conform to BCO-DMO naming conventions designed to support broad re-use by a variety of research tools and scripting languages. [Only numbers, letters, and underscores. Can not start with a number]
* ISO DateTime with timezone (UTC) column added in ISO 8601 format.
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
FACSAria III flow cytometer (Becton Dickinson)
FACSAria III flow cytometer (Becton Dickinson)
PI Supplied Instrument Name: FACSAria III flow cytometer (Becton Dickinson) PI Supplied Instrument Description:FACS Aria III flow cytometer: The instrument was used to enumerate prokarytes and viruses after staining with the dsDNA-specific stain SYBR Green I. Instrument Name: Flow Cytometer Instrument Short Name:Flow Cytometer Instrument Description: Flow cytometers (FC or FCM) are automated instruments that quantitate properties of single cells, one cell at a time. They can measure cell size, cell granularity, the amounts of cell components such as total DNA, newly synthesized DNA, gene expression as the amount messenger RNA for a particular gene, amounts of specific surface receptors, amounts of intracellular proteins, or transient signalling events in living cells.
(from: http://www.bio.umass.edu/micro/immunology/facs542/facswhat.htm) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB37/
PI Supplied Instrument Name: PI Supplied Instrument Description:ROV SuBastian and its Multi-Chamber Suction Sampler: Water samples were collected with ROV SuBastian suction sampler at the vent sites. Instrument Name: ROV SuBastian Instrument Short Name: Instrument Description: ROV SuBastian is operated from the research vessel Falkor and the R/V Falkor(too). The ROV is outfitted with a suite of sensors and scientific equipment to support scientific data and sample collection, as well as interactive research, experimentation, and technology development. More information available at https://schmidtocean.org/technology/robotic-platforms/4500-m-remotely-operated-vehicle-rov/
Cruise: FKt230629
FKt230629
R/V Falkor (too)
Community Standard Description
International Council for the Exploration of the Sea
R/V Falkor (too)
vessel
FKt230629
Monika Bright
University of Vienna
https://service.rvdata.us/data/cruise/FKt230629/doc/FKt230629_expedition_report.pdf
Report describing FKt230629
R/V Falkor (too)
Community Standard Description
International Council for the Exploration of the Sea
R/V Falkor (too)
vessel