http://lod.bco-dmo.org/id/dataset/835414
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
2021-01-05
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Phytoplankton and bacteria abundance from flow cytometry from samples collected in the Gulf of Mexico on R/V Nancy Foster cruises NF1704 and NF1802 in May 2017 and May 2018
2021-01-05
publication
2021-01-05
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-01-12
publication
https://doi.org/10.26008/1912/bco-dmo.835414.1
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. (2021) Phytoplankton and bacteria abundance from flow cytometry from samples collected in the Gulf of Mexico on R/V Nancy Foster cruises NF1704 and NF1802 in May 2017 and May 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-01-05 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.835414.1 [access date]
Dataset Description: <p>This dataset is being discussed in Selph <em>et al. </em>2021.</p> Methods and Sampling: <p>This dataset is from CTD-based water collections of samples for phytoplankton and non-pigmented bacteria in the Gulf of Mexico on R/V Nancy Foster cruises in May 2017 and May 2018, which were part of a NOAA RESTORE project (aka: BLOOFINZ-GoM) led by Dr. John Lamkin to investigate the epipelagic marine nitrogen cycle, plankton dynamics, and impacts on growth and survival of larval Atlantic Bluefin Tuna (ABT).&nbsp; These data are meant to be used in inter-species, interregional comparisons to data from the BLOOFIN-IO study of larval larval Southern Bluefin Tuna in the Indian Ocean spawning region.&nbsp; Flow cytometry results include abundances of phytoplankton taxa (<em>Prochlorococcus</em>, <em>Synechococcus</em>, Photosynthetic Eukaryotes) and non-pigmented bacteria (HBACT).</p>
<p>Flow cytometry samples were collected at sea from each CTD rosette on the NOAA Ship Nancy Foster (NF) from cruises from 30 April to 19 May 2017 and from 11 May to 30 May 2018.&nbsp; For phytoplankton and heterotrophic bacteria enumeration, 2 ml sample volumes are collected, preserved (0.5% paraformaldehyde, final concentration) and flash frozen in liquid nitrogen.&nbsp; On shore, the samples are transferred to a –80°C freezer for storage until analysis on the flow cytometer.&nbsp; Samples are thawed in batches, then stained with Hoechst 34442 (1 µg/ml, final concentration) (Monger and Landry, 1993; Campbell and Vaulot, 1993; Campbell et al., 1994).</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1851558 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1851558
Funding provided by National Oceanic and Atmospheric Administration (NOAA) Award Number: NA16NMF4320058 Award URL: https://grantsonline.rdc.noaa.gov/flows/publicSearch/showAwardDetails.do?awdNum=NA16NMF4320058
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
Date
Longitude
Latitude
CTD_Number
Depth
Prochlorococcus
Synechococcus
Photosynthetic_eukaryotes
Heterotrophic_bacteria
Beckman-Coulter Altra
theme
None, User defined
Cruise identfier
station
date
longitude
latitude
sample description
depth
count
featureType
BCO-DMO Standard Parameters
Flow Cytometer
instrument
BCO-DMO Standard Instruments
NF1802
NF1704
service
Deployment Activity
Gulf of Mexico
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
Gulf of Mexico
-90.1775
-84.434
24.96
28.3358
2017-05-11
2018-05-19
Eastern Indian Ocean, Indonesian Throughflow area, and the Gulf of Mexico
0
BCO-DMO catalogue of parameters from Phytoplankton and bacteria abundance from flow cytometry from samples collected in the Gulf of Mexico on R/V Nancy Foster cruises NF1704 and NF1802 in May 2017 and May 2018
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/835461.rdf
Name: Cruise
Units: unitless
Description: <p>Cruise ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/835462.rdf
Name: Station
Units: unitless
Description: <p>Station number</p>
http://lod.bco-dmo.org/id/dataset-parameter/835463.rdf
Name: Date
Units: unitless
Description: <p>Sampling date</p>
http://lod.bco-dmo.org/id/dataset-parameter/835464.rdf
Name: Longitude
Units: decimal degrees
Description: <p>Station longitude, west is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/835465.rdf
Name: Latitude
Units: decimal degrees
Description: <p>Station latitude, south is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/835468.rdf
Name: CTD_Number
Units: unitless
Description: <p>CTD cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/835470.rdf
Name: Depth
Units: meters (m)
Description: <p>Sample depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/835472.rdf
Name: Prochlorococcus
Units: cells per milliliters (cells/ml)
Description: <p>Prochlorococcus</p>
http://lod.bco-dmo.org/id/dataset-parameter/835473.rdf
Name: Synechococcus
Units: cells per milliliters (cells/ml)
Description: <p>Synechococcus</p>
http://lod.bco-dmo.org/id/dataset-parameter/835474.rdf
Name: Photosynthetic_eukaryotes
Units: cells per milliliters (cells/ml)
Description: <p>Photosynthetic eukaryotes</p>
http://lod.bco-dmo.org/id/dataset-parameter/835475.rdf
Name: Heterotrophic_bacteria
Units: cells per milliliters (cells/ml)
Description: <p>Heterotrophic bacteria</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
12836
https://darchive.mblwhoilibrary.org/bitstream/1912/26560/1/dataset-835414_bloofinz-gom-flow-cytometry-abundance__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.835414.1
download
onLine
dataset
<p>This dataset is from CTD-based water collections of samples for phytoplankton and non-pigmented bacteria in the Gulf of Mexico on R/V Nancy Foster cruises in May 2017 and May 2018, which were part of a NOAA RESTORE project (aka: BLOOFINZ-GoM) led by Dr. John Lamkin to investigate the epipelagic marine nitrogen cycle, plankton dynamics, and impacts on growth and survival of larval Atlantic Bluefin Tuna (ABT).&nbsp; These data are meant to be used in inter-species, interregional comparisons to data from the BLOOFIN-IO study of larval larval Southern Bluefin Tuna in the Indian Ocean spawning region.&nbsp; Flow cytometry results include abundances of phytoplankton taxa (<em>Prochlorococcus</em>, <em>Synechococcus</em>, Photosynthetic Eukaryotes) and non-pigmented bacteria (HBACT).</p>
<p>Flow cytometry samples were collected at sea from each CTD rosette on the NOAA Ship Nancy Foster (NF) from cruises from 30 April to 19 May 2017 and from 11 May to 30 May 2018.&nbsp; For phytoplankton and heterotrophic bacteria enumeration, 2 ml sample volumes are collected, preserved (0.5% paraformaldehyde, final concentration) and flash frozen in liquid nitrogen.&nbsp; On shore, the samples are transferred to a –80°C freezer for storage until analysis on the flow cytometer.&nbsp; Samples are thawed in batches, then stained with Hoechst 34442 (1 µg/ml, final concentration) (Monger and Landry, 1993; Campbell and Vaulot, 1993; Campbell et al., 1994).</p>
Specified by the Principal Investigator(s)
<p>The data generated is in the form of listmode files (FCS 2.0 format) acquired from the flow cytometer using Expo32 software (Beckman-Coulter).&nbsp;&nbsp; These data are processed, designating populations from their fluorescence and scatter signals, using FlowJo software (Tree Star, Inc., www.flowjo.com), which generates excel-spreadsheet files.</p>
<p>BCO-DMO processing info:</p>
<ul>
<li>Adjusted column headers to comply with database requirements</li>
<li>Converted date to ISO format</li>
</ul>
Specified by the Principal Investigator(s)
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 Altra
Beckman-Coulter Altra
PI Supplied Instrument Name: Beckman-Coulter Altra PI Supplied Instrument Description:The flow cytometer used is a Beckman-Coulter Altra (operated by the SOEST Flow Cytometry Facility, www.soest.hawaii.edu/sfcf), mated to a Harvard Apparatus syringe pump for quantitative analyses, and it is equipped with two argon ion lasers, tuned to UV (200 mW) and 488 nm (1 W) excitation. Scatter (side and forward) and fluorescence signals are collected using filters as appropriate, including those for Hoechst-bound DNA, phycoerythrin and chlorophyll. 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/
Cruise: NF1802
NF1802
R/V Nancy Foster
Community Standard Description
International Council for the Exploration of the Sea
R/V Nancy Foster
vessel
NF1802
John Lamkin
NOAA Southeast Fisheries Science Center
https://datadocs.bco-dmo.org/docs/302/BLOOFINZ_IO/data_docs/cruise_reports/NF1802_CRUISE_REPORT.pdf
Report describing NF1802
Cruise: NF1704
NF1704
R/V Nancy Foster
Community Standard Description
International Council for the Exploration of the Sea
R/V Nancy Foster
vessel
NF1704
Estrella Malca
University of Miami
https://datadocs.bco-dmo.org/docs/302/BLOOFINZ_IO/data_docs/cruise_reports/NF1704_CRUISE_REPORT.pdf
Report describing NF1704
R/V Nancy Foster
Community Standard Description
International Council for the Exploration of the Sea
R/V Nancy Foster
vessel