http://lod.bco-dmo.org/id/dataset/916288
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
2023-12-06
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Abundances of phytoplankton and non-pigmented bacteria determined by flow cytometry from water samples collected on R/V Roger Revelle cruise RR2201 in the Eastern Indian Ocean during February and March 2022
2024-01-09
publication
2024-01-09
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2024-01-09
publication
https://doi.org/10.26008/1912/bco-dmo.916288.1
Karen E. Selph
University of Hawaiʻi at Mānoa
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: Selph, K. E. (2024) Abundances of phytoplankton and non-pigmented bacteria determined by flow cytometry from water samples collected on R/V Roger Revelle cruise RR2201 in the Eastern Indian Ocean during February and March 2022. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2024-01-09 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.916288.1 [access date]
BLOOFINZ-IO Flow Cytometry Abundance Dataset Description: Methods and Sampling: <p>Flow cytometry samples were collected from each CTD rosette or individual Go-Flo bottles. All samples were analyzed on board the ship with a Beckman Coulter CytoFlex S flow cytometer, equipped with 4 lasers (375 nanometers (nm), 405 nm, 488 nm, and 536 nm) and CytExpert software. Preserved (0.5% paraformaldehyde final) samples (500 microliters (µL)) were stained with Hoechst 34580 (1 microgram per milliliter (µg mL⁻¹)) and run (50 microliters per minute (µl min⁻¹)) within 3 hours of collection (Selph 2021). The data presented here for all populations, except heterotrophic eukaryotes (HEUK) and potential mixotrophs (MEUK), are from these preserved samples. At many stations, a live sample (500 µL) was also analyzed after staining with Hoechst (1 µg mL⁻¹ final) and Lysotracker Green (LTG, acidic vacuole stain, 75 nanomolar (nM) final, Rose et al. 2004) to obtain estimates of HEUK and MEUK. Data files (Lismode 3.0) were generated and analyzed using FlowJo software (Tree Star, Inc.).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851381 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851381
completed
Karen E. Selph
University of Hawaiʻi at Mānoa
808-956-7941
Department of Oceanography 1000 Pope Road, MSB 205
Honolulu
HI
96822
USA
selph@hawaii.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Cruise
Station
ISO_DateTime_UTC
Date
Latitude
Longitude
CTD_Number
Depth
PRO
SYN
PEUK
HBACT
HEUK
MEUK
Beckman Coulter CytoFlex S
Go-Flo bottles
Niskin Bottles
theme
None, User defined
Cruise identfier
station
ISO_DateTime_UTC
date
latitude
longitude
cast
depth
abundance
featureType
BCO-DMO Standard Parameters
Flow Cytometer
GO-FLO Bottle
Niskin bottle
instrument
BCO-DMO Standard Instruments
RR2201
service
Deployment Activity
Eastern Indian Ocean (Argo Basin)
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.
Second International Indian Ocean Expedition
https://web.whoi.edu/iioe2/
Second International Indian Ocean Expedition
Description from the program website:
The Second International Indian Ocean Expedition (IIOE-2) is a major global scientific program which will engage the international scientific community in collaborative oceanographic and atmospheric research from coastal environments to the deep sea over the period 2015-2020, revealing new information on the Indian Ocean (i.e. its currents, its influence upon the climate, its marine ecosystems) which is fundamental for future sustainable development and expansion of the Indian Ocean's blue economy. A large number of scientists from research institutions from around the Indian Ocean and beyond are planning their involvement in IIOE-2 in accordance with the overarching six scientific themes of the program. Already some large collaborative research projects are under development, and it is anticipated that by the time these projects are underway, many more will be in planning or about to commence as the scope and global engagement in IIOE-2 grows.
Focused research on the Indian Ocean has a number of benefits for all nations. The Indian Ocean is complex and drives the region's climate including extreme events (e.g. cyclones, droughts, severe rains, waves and storm surges). It is the source of important socio-economic resources (e.g. fisheries, oil and gas exploration/extraction, eco-tourism, and food and energy security) and is the background and focus of many of the region's human populations around its margins. Research and observations supported through IIOE-2 will result in an improved understanding of the ocean's physical and biological oceanography, and related air-ocean climate interactions (both in the short-term and long-term). The IIOE-2's program will complement and harmonise with other regional programs underway and collectively the outcomes of IIOE-2 will be of huge benefit to individual and regional sustainable development as the information is a critical component of improved decision making in areas such as maritime services and safety, environmental management, climate monitoring and prediction, food and energy security.
IIOE-2 activities will also include a significant focus on building the capacity of all nations around the Indian Ocean to understand and apply observational data or research outputs for their own socio-economic requirements and decisions. IIOE-2 capacity building programs will therefore be focused on the translation of the science and information outputs for societal benefit and training of relevant individuals from surrounding nations in these areas.
A Steering Committee was established to support U.S. participation in IIOE-2. More information is available on their website at https://web.whoi.edu/iioe2/.
IIOE-2
largerWorkCitation
program
Collaborative Research: Mesoscale variability in nitrogen sources and food-web dynamics supporting larval southern bluefin tuna in the eastern Indian Ocean
https://osprey.bco-dmo.org/project/819488
Collaborative Research: Mesoscale variability in nitrogen sources and food-web dynamics supporting larval southern bluefin tuna in the eastern Indian Ocean
<p><em>NSF Award Abstract:</em><br />
The small area between NW Australia and Indonesia in the eastern Indian Ocean (IO) is the only known spawning ground of Southern Bluefin Tuna (SBT), a critically endangered top marine predator. Adult SBT migrate thousands of miles each year from high latitude feeding areas to lay their eggs in these tropical waters, where food concentrations on average are below levels that can support optimal feeding and growth of their larvae. Many critical aspects of this habitat are poorly known, such as the main source of nitrogen nutrient that sustains system productivity, how the planktonic food web operates to produce the unusual types of zooplankton prey that tuna larvae prefer, and how environmental differences in habitat quality associated with ocean fronts and eddies might be utilized by adult spawning tuna to give their larvae a greater chance for rapid growth and survival success. This project investigates these questions on a 38-day expedition in early 2021, during the peak time of SBT spawning. This project is a US contribution to the 2nd International Indian Ocean Expedition (IIOE-2) that advances understanding of biogeochemical and ecological dynamics in the poorly studied eastern IO. This is the first detailed study of nitrogen and carbon cycling in the region linking Pacific and IO waters. The shared dietary preferences of SBT larvae with those of other large tuna and billfish species may also make the insights gained broadly applicable to understanding larval recruitment issues for top consumers in other marine ecosystems. New information from the study will enhance international management efforts for SBT. The shared larval dietary preferences of large tuna and billfish species may also extend the insights gained broadly to many other marine top consumers, including Atlantic bluefin tuna that spawn in US waters of the Gulf of Mexico. The end-to-end study approach, highlights connections among physical environmental variability, biogeochemistry, and plankton food webs leading to charismatic and economically valuable fish production, is the theme for developing educational tools and modules through the "scientists-in-the-schools" program of the Center for Ocean-Atmospheric Prediction Studies at Florida State University, through a program for enhancing STEM learning pathways for underrepresented students in Hawaii, and through public outreach products for display at the Birch Aquarium in San Diego. The study also aims to support an immersive field experience to introduce talented high school students to marine research, with the goal of developing a sustainable marine-related educational program for underrepresented students in rural northwestern Florida.</p>
<p>Southern Bluefin Tuna (SBT) migrate long distances from high-latitude feeding grounds to spawn exclusively in a small oligotrophic area of the tropical eastern Indian Ocean (IO) that is rich in mesoscale structures, driven by complex currents and seasonally reversing monsoonal winds. To survive, SBT larvae must feed and grow rapidly under environmental conditions that challenge conventional understanding of food-web structure and functional relationships in poor open-ocean systems. The preferred prey of SBT larvae, cladocerans and Corycaeidae copepods, are poorly studied and have widely different implications for trophic transfer efficiencies to larvae. Differences in nitrogen sources - N fixation vs deep nitrate of Pacific origin - to sustain new production in the region also has implications for conditions that may select for prey types (notably cladocerans) that enhance transfer efficiency and growth rates of SBT larvae. The relative importance of these N sources for the IO ecosystem may affect SBT resiliency to projected increased ocean stratification. This research expedition investigates how mesoscale variability in new production, food-web structure and trophic fluxes affects feeding and growth conditions for SBT larvae. Sampling across mesoscale features tests hypothesized relationships linking variability in SBT larval feeding and prey preferences (gut contents), growth rates (otolith analyses) and trophic positions (TP) to the environmental conditions of waters selected by adult spawners. Trophic Positions of larvae and their prey are determined using Compound-Specific Isotope Analyses of Amino Acids (CSIA-AA). Lagrangian experiments investigate underlying process rates and relationships through measurements of water-column 14C productivity, N2 fixation, 15NO3- uptake and nitrification; community biomass and composition (flow cytometry, pigments, microscopy, in situ imaging, genetic analyses); and trophic fluxes through micro- and mesozooplankton grazing, remineralization and export. Biogeochemical and food web elements of the study are linked by CSIA-AA (N source, TP), 15N-constrained budgets and modeling. The project elements comprise an end-to-end coupled biogeochemistry-trophic study as has not been done previously for any pelagic ecosystem.</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>
BLOOFINZ-IO
largerWorkCitation
project
eng; USA
oceans
Eastern Indian Ocean (Argo Basin)
114.13514
121.49767
-17.12632
-13.174
2022-02-03
2022-03-02
Eastern Indian Ocean, Indonesian Throughflow area, and the Gulf of Mexico
0
BCO-DMO catalogue of parameters from Abundances of phytoplankton and non-pigmented bacteria determined by flow cytometry from water samples collected on R/V Roger Revelle cruise RR2201 in the Eastern Indian Ocean during February and March 2022
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/916392.rdf
Name: Cruise
Units: unitless
Description: <p>R/V Revelle cruise ID number</p>
http://lod.bco-dmo.org/id/dataset-parameter/916393.rdf
Name: Station
Units: unitless
Description: <p>Station designation incorporating date and UTC time</p>
http://lod.bco-dmo.org/id/dataset-parameter/916394.rdf
Name: ISO_DateTime_UTC
Units: unitless
Description: <p>Date and time (UTC) in ISO 8601 format</p>
http://lod.bco-dmo.org/id/dataset-parameter/916395.rdf
Name: Date
Units: unitless
Description: <p>Date</p>
http://lod.bco-dmo.org/id/dataset-parameter/916396.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Latitude; negative values = South</p>
http://lod.bco-dmo.org/id/dataset-parameter/916397.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Longitude; positive values = East</p>
http://lod.bco-dmo.org/id/dataset-parameter/916398.rdf
Name: CTD_Number
Units: unitless
Description: <p>Sequential CTD number on the cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/916399.rdf
Name: Depth
Units: meters (m)
Description: <p>Depth of water collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/916400.rdf
Name: PRO
Units: cells per milliliter
Description: <p>Prochlorococcus abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/916401.rdf
Name: SYN
Units: cells per milliliter
Description: <p>Synechococcus abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/916402.rdf
Name: PEUK
Units: cells per milliliter
Description: <p>Photosynthetic Eukaryote abundance (includes MEUK abundance)</p>
http://lod.bco-dmo.org/id/dataset-parameter/916403.rdf
Name: HBACT
Units: cells per milliliter
Description: <p>Heterotrophic bacteria abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/916404.rdf
Name: HEUK
Units: cells per milliliter
Description: <p>Heterotrophic eukaryote abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/916405.rdf
Name: MEUK
Units: cells per milliliter
Description: <p>Mixotrophic eukaryote abundance</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
15903
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/6dc8947f-2780-4c8b-8a59-3f1fbf293764/content
download
https://doi.org/10.26008/1912/bco-dmo.916288.1
download
onLine
dataset
<p>Flow cytometry samples were collected from each CTD rosette or individual Go-Flo bottles. All samples were analyzed on board the ship with a Beckman Coulter CytoFlex S flow cytometer, equipped with 4 lasers (375 nanometers (nm), 405 nm, 488 nm, and 536 nm) and CytExpert software. Preserved (0.5% paraformaldehyde final) samples (500 microliters (µL)) were stained with Hoechst 34580 (1 microgram per milliliter (µg mL⁻¹)) and run (50 microliters per minute (µl min⁻¹)) within 3 hours of collection (Selph 2021). The data presented here for all populations, except heterotrophic eukaryotes (HEUK) and potential mixotrophs (MEUK), are from these preserved samples. At many stations, a live sample (500 µL) was also analyzed after staining with Hoechst (1 µg mL⁻¹ final) and Lysotracker Green (LTG, acidic vacuole stain, 75 nanomolar (nM) final, Rose et al. 2004) to obtain estimates of HEUK and MEUK. Data files (Lismode 3.0) were generated and analyzed using FlowJo software (Tree Star, Inc.).</p>
Specified by the Principal Investigator(s)
<p>Gating analyses of the listmode files followed those in Selph 2021 for the Hoechst-stained samples. For samples stained with Hoechst and LTG, the gating involved many steps as follows. LTG positive and negative particles were separated assuming that the maximum negative signal was that of co-occurring prokaryotes (Prochlorococcus, Synechococcus, and non-pigmented bacteria). Thus, all particles that had LTG signals greater than that of prokaryotes were designated LTG POS. LTG POS particles were further separated by the signal of the forward light scatter (FSC) of a 1 micrometer (µm) yellow-green fluorescent plastic beads (Polysciences, Inc.). Those particles with less FSC than a 1 µm bead were designated "PICO" sized particles and plotted as chlorophyll vs. phycoerythrin to eliminate any cyanobacteria, whereas the remaining cells were designated as potential mixotrophic cells. Those with more scatter than a 1 µm bead were designated "NANO+" sized particles and plotted as a single parameter chlorophyll histogram, where those with more chlorophyll than Prochlorococcus were considered potential mixotrophic eukaryotic cells. LTG POS PICO and NANO+ particles comprise the MEUK category reported. NANO+ (LTG POS) particles with less chlorophyll than Prochlorococcus were designated as heterotrophic eukaryotes (HEUK).</p>
Specified by the Principal Investigator(s)
- Imported original file "Selph FCM IO.xlsx" into the BCO-DMO system.
- Flagged "nd" as a missing data value (missing data are blank/empty in the final CSV file).
- Renamed fields to comply with BCO-DMO naming conventions.
- Corrected Station numbers where needed so dates match those in Date column, as instructed by data provider.
- Converted the Date column to YYYY-MM-DD format.
- Created the ISO 8601 date-time column by extracting date-times from the Station column.
- Saved the final data file as "916288_v1_bloofinz-io_flow_cytometry.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
Beckman Coulter CytoFlex S
Beckman Coulter CytoFlex S
PI Supplied Instrument Name: Beckman Coulter CytoFlex S PI Supplied Instrument Description:Samples were analyzed with a Beckman Coulter CytoFlex S flow cytometer with a 96-well sample plate and 4 lasers (375 nm, 405 nm, 488 nm, and 536 nm). 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/
Go-Flo bottles
Go-Flo bottles
PI Supplied Instrument Name: Go-Flo bottles PI Supplied Instrument Description:Samples were collected using a CTD-rosette with Niskin Bottles or Go-Flo bottles deployed by hand on a line. Instrument Name: GO-FLO Bottle Instrument Short Name:GO-FLO Instrument Description: GO-FLO bottle cast used to collect water samples for pigment, nutrient, plankton, etc. The GO-FLO sampling bottle is specially designed to avoid sample contamination at the surface, internal spring contamination, loss of sample on deck (internal seals), and exchange of water from different depths. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/30/
Niskin Bottles
Niskin Bottles
PI Supplied Instrument Name: Niskin Bottles PI Supplied Instrument Description:Samples were collected using a CTD-rosette with Niskin Bottles or Go-Flo bottles deployed by hand on a line. Instrument Name: Niskin bottle Instrument Short Name:Niskin bottle Instrument Description: A Niskin bottle (a next generation water sampler based on the Nansen bottle) is a cylindrical, non-metallic water collection device with stoppers at both ends. The bottles can be attached individually on a hydrowire or deployed in 12, 24, or 36 bottle Rosette systems mounted on a frame and combined with a CTD. Niskin bottles are used to collect discrete water samples for a range of measurements including pigments, nutrients, plankton, etc. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0412/
Cruise: RR2201
RR2201
R/V Roger Revelle
Community Standard Description
International Council for the Exploration of the Sea
R/V Roger Revelle
vessel
RR2201
Michael R. Landry
University of California-San Diego Scripps
http://hdl.handle.net/1834/43464
Report describing RR2201
R/V Roger Revelle
Community Standard Description
International Council for the Exploration of the Sea
R/V Roger Revelle
vessel