http://lod.bco-dmo.org/id/dataset/809670
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
2020-04-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Microbial abundance of phytoplankton and bacteria from RV/Tangaroa cruise TAN1810SALP to Chatham Rise vicinity, east of New Zealand, Oct - Nov. 2018
2020-04-20
publication
2020-04-20
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-04-30
publication
https://doi.org/10.26008/1912/bco-dmo.809670.1
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) Microbial abundance of phytoplankton and bacteria from RV/Tangaroa cruise TAN1810SALP to Chatham Rise vicinity, east of New Zealand, Oct - Nov. 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2020-04-20 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.809670.1 [access date]
Microbial abundance Dataset Description: Methods and Sampling: <p><strong>Sampling and analytical procedures:</strong> Samples (15 mL) were collected from hydrographic casts with Niskin bottles on a CTD-rosette for live ship-board and preserved shore-based flow cytometry analyses for profiles of phytoplankton and heterotrophic (non-pigmented) bacteria abundance.&nbsp; Live samples (~800 uL) were analyzed within 2 hours of collection (and usually sooner), kept in the dark at room temperature prior to analysis.&nbsp; Samples (2 mL) for shore-based analyses were aliquoted into cryovials, preserved with a final concentration of 0.5% paraformaldehyde (Electron Microscopy Sciences, methanol-free), then flash frozen in liquid nitrogen.&nbsp; After freezing, samples were transferred to a -80°C freezer.&nbsp; Upon completion of the cruise, samples were transferred to a charged dry shipper for transport to the University of Hawaii.&nbsp; Samples were thawed in batches, stained with the DNA stain Hoechst 34580 for 1 hour (1 ug/ml, final concentration), then quantitatively analyzed (100 uL).</p>
<p>Offline analysis software: FlowJo Software (Mac) Version 10.6.1. Ashland, OR: Becton Dickinson and Company; 2019.Offline analysis software: FlowJo Software (Mac) Version 10.6.1. Ashland, OR: Becton Dickinson and Company; 2019.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1756465 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1756465
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1756610 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1756610
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
DATE
LAT
LONG
CAST
STATION
DEPTH
PRO
SYN
PEUK
HBACT
Becton Dickinson Accuri C6 Plus with CSampler Plus
Beckman Coulter CytoFLEX S, with Near UV (375 nm), Violet (405 nm), Blue (488 nm), and Yellow-Green (561 nm) lasers, with 96-well plate loader
theme
None, User defined
date
latitude
longitude
cast
station
depth
prochlorococcus abundance
synechococcus abundance from flow cytometry
cell_concentration
heterotrophic bacteria abundance from flow cytometry
featureType
BCO-DMO Standard Parameters
Flow Cytometer
Flow Cytometer
instrument
BCO-DMO Standard Instruments
TAN1810
service
Deployment Activity
Chatham Rise (Subtropical and Sub-Antarctic waters off of New Zealand)
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.
Collaborative Research: Quantifying trophic roles and food web ecology of salp blooms of the Chatham Rise
https://osprey.bco-dmo.org/project/754878
Collaborative Research: Quantifying trophic roles and food web ecology of salp blooms of the Chatham Rise
<p><em>NSF Award Abstract:</em><br />
Salps are unique open-ocean animals that range in size from a few millimeters to greater than twenty centimeters, have a gelatinous (jelly-like) body, and can form long chains of many connected individuals. These oceanic organisms act as oceanic vacuum cleaners, having incredibly high feeding rates on phytoplankton and, unusual for consumers of their size, smaller bacteria-sized prey. This rapid feeding and the salps' tendency to form dense blooms, allows them move substantial amounts of prey carbon from the surface into the deep ocean, leading to carbon dioxide removal from the atmosphere. However, salps are often considered a trophic dead-end, rather than a link, in the food web due to the assumption that they themselves are not consumed, since their gelatinous bodies are less nutritious than co-occurring crustacean prey. Along with this, salp populations are hypothesized to be increasing due to climate change. This proposal addresses these questions: 1) Do salps compete primarily with crustaceans (as in the prevailing paradigm) or are they competitors of single-celled protists, which are the dominant grazers of small phytoplankton? 2) Do salp blooms increase the efficiency of food-web pathways from tiny phytoplankton to fisheries production in nutrient-poor ocean regions?</p>
<p>This project will support the interdisciplinary education of a graduate student who will learn modeling and laboratory techniques in the fields of biological and chemical oceanography and stimulate international collaborations between scientists in the United States and New Zealand. Additionally, several Education and Outreach initiatives are planned, including development of a week-long immersive high school class in biological oceanography, and education modules that will serve the "scientists-in-the schools" program in Tallahassee, FL.</p>
<p>It is commonly assumed that salps are a trophic sink. However, this idea was developed before the discovery that protists (rather than crustaceans) are the dominant grazers in the open ocean and was biased by the difficulty of recognizing gelatinous salps in fish guts. More recent studies show that salps are found in guts of a diverse group of fish and seabirds and are a readily available prey source when crustacean abundance is low. This proposal seeks to quantify food web flows through contrasting salp-dominated and salp-absent water parcels near the Chatham Rise off western New Zealand where salp blooms are a predictable phenomenon. The proposal will leverage previously obtained data on salp abundance, bulk grazing impact, and biogeochemical significance during Lagrangian experiments conducted by New Zealand-based collaborators. The proposal will determine 1) taxon- and size-specific phytoplankton growth rate measurements, 2) taxon- and size-specific protozoan and salp grazing rate measurements, 3) compound specific isotopic analysis of the amino acids of mesozooplankton to quantify the trophic position of salps, hyperiid amphipods, and other crustaceans, 4) sediment traps to quantify zooplankton carcass sinking rates, and 5) linear inverse ecosystem modeling syntheses. Secondary production and trophic flows from this well-constrained ecosystem model will be compared to crustacean-dominated and microbial loop-dominated ecosystems in similarly characterized regions (California Current, Costa Rica Dome, and Gulf of Mexico).</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>
Salp Food Web Ecology
largerWorkCitation
project
eng; USA
biota
oceans
Chatham Rise (Subtropical and Sub-Antarctic waters off of New Zealand)
174.1138
179.9428
-45.5557
-42.6622
2018-10-25
2018-11-18
East of New Zealand, Chatham Rise area
0
BCO-DMO catalogue of parameters from Microbial abundance of phytoplankton and bacteria from RV/Tangaroa cruise TAN1810SALP to Chatham Rise vicinity, east of New Zealand, Oct - Nov. 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/809719.rdf
Name: DATE
Units: unitless
Description: <p>Date collected; formatted as yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/809720.rdf
Name: LAT
Units: decimal degrees
Description: <p>Latitude; north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/809721.rdf
Name: LONG
Units: decimal degrees
Description: <p>Longitude; east is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/809722.rdf
Name: CAST
Units: unitless
Description: <p>Cruise-based cast number</p>
http://lod.bco-dmo.org/id/dataset-parameter/809723.rdf
Name: STATION
Units: unitless
Description: <p>Station number as recorded by the bridge</p>
http://lod.bco-dmo.org/id/dataset-parameter/809724.rdf
Name: DEPTH
Units: meters (m)
Description: <p>Depth of water collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/809725.rdf
Name: PRO
Units: cells/milliliter
Description: <p>Prochlorococcus abundance determined via preserved shore-based flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/809726.rdf
Name: SYN
Units: cells/milliliter
Description: <p>Synechococcus abundance determined via preserved shore-based flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/809727.rdf
Name: PEUK
Units: cells/milliliter
Description: <p>Photosynthetic eukaryotes determined via live ship-board flow cytometry</p>
http://lod.bco-dmo.org/id/dataset-parameter/809728.rdf
Name: HBACT
Units: cells/milliliter
Description: <p>Heterotrophic (non-pigmented) bacteria determined via preserved shore-based flow cytometry</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
11971
https://darchive.mblwhoilibrary.org/bitstream/1912/27033/1/dataset-809670_microbial-abundance__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.809670.1
download
onLine
dataset
<p><strong>Sampling and analytical procedures:</strong> Samples (15 mL) were collected from hydrographic casts with Niskin bottles on a CTD-rosette for live ship-board and preserved shore-based flow cytometry analyses for profiles of phytoplankton and heterotrophic (non-pigmented) bacteria abundance.&nbsp; Live samples (~800 uL) were analyzed within 2 hours of collection (and usually sooner), kept in the dark at room temperature prior to analysis.&nbsp; Samples (2 mL) for shore-based analyses were aliquoted into cryovials, preserved with a final concentration of 0.5% paraformaldehyde (Electron Microscopy Sciences, methanol-free), then flash frozen in liquid nitrogen.&nbsp; After freezing, samples were transferred to a -80°C freezer.&nbsp; Upon completion of the cruise, samples were transferred to a charged dry shipper for transport to the University of Hawaii.&nbsp; Samples were thawed in batches, stained with the DNA stain Hoechst 34580 for 1 hour (1 ug/ml, final concentration), then quantitatively analyzed (100 uL).</p>
<p>Offline analysis software: FlowJo Software (Mac) Version 10.6.1. Ashland, OR: Becton Dickinson and Company; 2019.Offline analysis software: FlowJo Software (Mac) Version 10.6.1. Ashland, OR: Becton Dickinson and Company; 2019.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing Notes:</strong><br />
- added conventional header with dataset name, PI name, version date<br />
- modified parameter names to conform with BCO-DMO naming conventions<br />
- reformatted date from m/d/yy to yyyy-mm-dd&nbsp;<br />
- converted latitude and longitude to decimal degrees</p>
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
Becton Dickinson Accuri C6 Plus with CSampler Plus
Becton Dickinson Accuri C6 Plus with CSampler Plus
PI Supplied Instrument Name: Becton Dickinson Accuri C6 Plus with CSampler Plus PI Supplied Instrument Description:Used for cell counts on board ship. 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/
Beckman Coulter CytoFLEX S, with Near UV (375 nm), Violet (405 nm), Blue (488 nm), and Yellow-Green (561 nm) lasers, with 96-well plate loader
Beckman Coulter CytoFLEX S, with Near UV (375 nm), Violet (405 nm), Blue (488 nm), and Yellow-Green (561 nm) lasers, with 96-well plate loader
PI Supplied Instrument Name: Beckman Coulter CytoFLEX S, with Near UV (375 nm), Violet (405 nm), Blue (488 nm), and Yellow-Green (561 nm) lasers, with 96-well plate loader PI Supplied Instrument Description:Used for shore-based cell counts 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: TAN1810
TAN1810
Community Standard Description
International Council for the Exploration of the Sea
R/V Tangaroa
vessel
TAN1810
Moira Decima
New Zealand National Institute of Water and Atmospheric Research
Community Standard Description
International Council for the Exploration of the Sea
R/V Tangaroa
vessel