http://lod.bco-dmo.org/id/dataset/954173
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
2025-02-21
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Chlorophyll a and flow cytometry data from bi-weekly vertical profiles in Resurrection Bay, AK from January to March of 2023 from bi-weekly vertical profiles in Resurrection Bay, AK from January to March of 2023
2025-02-21
publication
2025-02-21
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-04-10
publication
https://doi.org/10.26008/1912/bco-dmo.954173.1
Petra H. Lenz
University of Hawaiʻi at Mānoa
principalInvestigator
Lauren N Block
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: Block, L. N., Lenz, P. H. (2025) Chlorophyll a and flow cytometry data from bi-weekly vertical profiles in Resurrection Bay, AK from January to March of 2023 from bi-weekly vertical profiles in Resurrection Bay, AK from January to March of 2023. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2025-02-21 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.954173.1 [access date]
Methods and Sampling: <p>Samples were collected in Resurrection Bay within the inner basin at RES2.5 (60° 1.5’ N, 149° 21.5’ W; 298 m deep) at approximately biweekly intervals aboard the R/V Nanuq between January 5th and March 24th, 2023. Collection and sample processing are described in detail in Block (2024). Water was collected at discrete depths (surface, 10, 20, 30, 40, 50, 150, and 280 m) using 4-L Niskin Bottles. Two casts were required to collect all water samples, since only six Niskin bottles were mounted on an SBE55 rosette. Water samples were stored in dark Nalgene bottles in a cooler.</p>
<p>Chlorophyll α samples were size fractionated to estimate the chlorophyll α contribution of pico- and nano-phytoplankton (&lt; 20 µm size fraction) and larger phytoplankton (including diatoms plus larger photosynthetic dinoflagellates) (&gt; 20 µm size fraction) at 10-m intervals from the surface to 50 m for each sample time point. Polycarbonate (47-mm diameter, 20-μm pore size) and glass fiber (25-mm diameter, 0.7-μm pore size) filters were used to size fractionate 250 mL samples using a serial filtration vacuum manifold system (Strom et al., 2016). Filters were extracted in 90% acetone for 24 hours in the dark at -20°C. Fluorescence was measured using a Turner 10-AU fluorometer using the acidification method (Strom et al., 2016). Fluorescence measurements were converted to estimated chlorophyll α concentrations (µg/L) (Lorenzen, 1966). Integrated chlorophyll α (mg/m2) was calculated using trapezoidal integration (Strom et al., 2016).</p>
<p>Synechococcus, photosynthetic picoeukaryotes, and heterotrophic bacterial abundances were measured using flow cytometry at 8 depths (surface, 10, 20, 30, 40, 50, 150, and 280 m). Samples (1 ml) from each depth were preserved with paraformaldehyde to a final concentration of 0.5%, frozen initially at -40°C, and later transferred to -80°C until batch analysis. Samples were thawed, stained with Hoechst 34580 (1 μg/mL final concentration), and analyzed with a Beckman Coulter CytoFLEX S flow cytometer (Selph, 2021). Data were processed using FlowJo software (version 10.8.2). Synechococcus and picoeukaryote abundances were converted to carbon biomass using cellular carbon content estimates appropriate for the region (200 and 1,490 fg C per cell, respectively) (Strom et al., 2016).</p>
Funding provided by NSF Office of Polar Programs (formerly NSF PLR) (NSF OPP) Award Number: OCE-2222376 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2222376
Funding provided by NSF Office of Polar Programs (formerly NSF PLR) (NSF OPP) Award Number: OCE-2222592 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2222592
Funding provided by NSF Office of Polar Programs (formerly NSF PLR) (NSF OPP) Award Number: OCE-2222558 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=2222558
completed
Petra H. Lenz
University of Hawaiʻi at Mānoa
808-956-8003
Pacific Biosciences Research Center (PBRC), Bekesy Laboratory of Neurobiology 1993 East-West Road
Honolulu
HI
96822
United States
petra@hawaii.edu
pointOfContact
Lauren N Block
University of Hawaiʻi at Mānoa
lblockln7@hawaii.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
cruise
date
station
latitude
longitude
cast
niskin
depth
chla_gt_20
chla_lt_20
chla_total
phaeo_gt_20
phaeo_lt_20
phaeo_total
hbact
syn
peuk
SBE55
Beckman Coulter CytoFLEX S flow cytometer
theme
None, User defined
Cruise identfier
date_local
station
latitude
longitude
cast
bottle
depth
chlorophyll a
total phaeopigment
heterotrophic bacteria abundance from flow cytometry
synechococcus abundance
pico_euks
featureType
BCO-DMO Standard Parameters
CTD - profiler
Flow Cytometer
Niskin bottle
Turner Designs Fluorometer 10-AU
instrument
BCO-DMO Standard Instruments
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: Zooplankton restarts in a high-latitude marine ecosystem: species-specific recruitment and development in early spring
https://osprey.bco-dmo.org/project/908803
Collaborative Research: Zooplankton restarts in a high-latitude marine ecosystem: species-specific recruitment and development in early spring
<p><strong>NSF Award Abstract</strong><br />
Global climate change and associated extreme weather events are increasingly impacting marine communities at all trophic levels and leading to shifts in the timing of life history events. This project is investigating the annual restart of the spring zooplankton community in the Gulf of Alaska in order to determine the timing of species-specific recruitment and growth. Zooplankton are small pelagic animals that are a critical link between microalgae and protozoans and higher levels in the food web including economically important fishes, birds and marine mammals. While their abundances and species composition have been documented over part of the annual cycle between late spring and fall, this project focuses on winter and early spring. The project integrates traditional methods with modern molecular approaches to characterize the diversity, development, feeding and physiology of zooplankton, especially the early developmental stages of copepods (small crustaceans). The goal is to determine which species are there, how many are present and where they are in the water column, and to reveal indicators of their health. Broader impacts include research training for three graduate students and at least four undergraduates in biological oceanography and physiological ecology. Outreach activities are focusing on broadening the public’s understanding of plankton ecology. An illustrated zooplankton guide for the Gulf of Alaska and plankton module for school teachers and students is being produced in collaboration with the Center for Alaskan Coastal Studies. Other plans include sponsorship of nature-drawing workshops on zooplankton and the production of an Art & Science traveling exhibit.</p>
<p>This project is tracking zooplankton population abundances, species composition and developmental stages through the spring restart in a high-latitude fjord in the northern Gulf of Alaska. While the entire zooplankton community is being characterized, the main focus is on the difficult-to-assess early developmental stages of copepods, which dominate the late spring biomass in the region. Three central hypotheses guide the research: 1) high abundances of copepod nauplii are present before any measurable increases in food in surface waters; 2) species diversity increases between winter and spring, with nauplii from large lipid-rich capital-breeding species appearing first, followed by those from income- and hybrid-strategy species and finally nauplii that emerge from dormant eggs; 3) prior to the appearance of food resources, nauplii from capital-breeding species conserve resources by delaying development and entering a state of dormancy in the second and third naupliar stages. The project entails intensive depth-stratified field sampling to characterize the wild community, in combination with laboratory experiments on nauplii to determine their responsiveness to food. The prey are being characterized by measuring chlorophyll a, dietary and prey community DNA sequencing and flow cytometry to establish diversity and abundances. Size-fractionated zooplankton samples are being analyzed using microscopy and community DNA sequencing to ascertain species diversity, developmental stage distribution and abundances. Feeding activity is being measured using dietary DNA sequencing of nauplii followed by comparisons with the prey field. Dormancy in nauplii is being determined by differential gene expression of target genes (RT-qPCR) and high-throughput sequencing of mRNA of individuals (transcriptomics) and community samples (meta-transcriptomics). Short-term and long-term effects of food availability on dormancy, development and growth are being quantified in laboratory experiments. Broader impacts are focused on training of students in interdisciplinary research and state-of-art techniques, and public outreach to introduce plankton ecology to broader audiences.</p>
Zooplankton recruitment
largerWorkCitation
project
eng; USA
oceans
-149.3583
-149.3583
60.025
60.025
2023-01-05
2023-03-24
Sub-arctic marine ecosystem, Gulf of Alaska
0
BCO-DMO catalogue of parameters from Chlorophyll a and flow cytometry data from bi-weekly vertical profiles in Resurrection Bay, AK from January to March of 2023 from bi-weekly vertical profiles in Resurrection Bay, AK from January to March 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/954648.rdf
Name: cruise
Units: unitless
Description: <p>description</p>
http://lod.bco-dmo.org/id/dataset-parameter/954649.rdf
Name: date
Units: unitless
Description: <p>Date (Local time) in ISO 8601 format yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/954650.rdf
Name: station
Units: unitless
Description: <p>Station ID</p>
http://lod.bco-dmo.org/id/dataset-parameter/954651.rdf
Name: latitude
Units: decimal degrees
Description: <p>Station latitude, north is positive</p>
http://lod.bco-dmo.org/id/dataset-parameter/954652.rdf
Name: longitude
Units: decimal degrees
Description: <p>Station latitude, west is negative</p>
http://lod.bco-dmo.org/id/dataset-parameter/954653.rdf
Name: cast
Units: unitless
Description: <p>Sequential cast number per cruise</p>
http://lod.bco-dmo.org/id/dataset-parameter/954654.rdf
Name: niskin
Units: unitless
Description: <p>Niskin bottle used for sample collection</p>
http://lod.bco-dmo.org/id/dataset-parameter/954655.rdf
Name: depth
Units: Meters (m)
Description: <p>Target water collection depth</p>
http://lod.bco-dmo.org/id/dataset-parameter/954656.rdf
Name: chla_gt_20
Units: Micrograms per liter (ug/L)
Description: <p>Size fractionated chlorophyll-a concentration greater than 20 um</p>
http://lod.bco-dmo.org/id/dataset-parameter/954657.rdf
Name: chla_lt_20
Units: Micrograms per liter (ug/L)
Description: <p>Size fractionated chlorophyll-a concentration less than 20 um</p>
http://lod.bco-dmo.org/id/dataset-parameter/954658.rdf
Name: chla_total
Units: Micrograms per liter (ug/L)
Description: <p>Total chlorophyll-a concentration (>20 um + <20 um)</p>
http://lod.bco-dmo.org/id/dataset-parameter/954659.rdf
Name: phaeo_gt_20
Units: Micrograms per liter (ug/L)
Description: <p>Size fractionated phaeopigment concentration greater than 20 um</p>
http://lod.bco-dmo.org/id/dataset-parameter/954660.rdf
Name: phaeo_lt_20
Units: Micrograms per liter (ug/L)
Description: <p>Size fractionated phaeopigment concentration less than 20 um</p>
http://lod.bco-dmo.org/id/dataset-parameter/954661.rdf
Name: phaeo_total
Units: Micrograms per liter (ug/L)
Description: <p>Total phaeopigment concentration (>20 um + <20 um)</p>
http://lod.bco-dmo.org/id/dataset-parameter/954662.rdf
Name: hbact
Units: Number per milliliter (#/mL)
Description: <p>Heterotrophic bacterial abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/954663.rdf
Name: syn
Units: Number per milliliter (#/mL)
Description: <p>Synechococcus abundance</p>
http://lod.bco-dmo.org/id/dataset-parameter/954664.rdf
Name: peuk
Units: Number per milliliter (#/mL)
Description: <p>Photosynthetic 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
4830
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/aca0c9d4-9d4e-424a-8b1e-7212c261ca8b/content
download
https://doi.org/10.26008/1912/bco-dmo.954173.1
download
onLine
dataset
<p>Samples were collected in Resurrection Bay within the inner basin at RES2.5 (60° 1.5’ N, 149° 21.5’ W; 298 m deep) at approximately biweekly intervals aboard the R/V Nanuq between January 5th and March 24th, 2023. Collection and sample processing are described in detail in Block (2024). Water was collected at discrete depths (surface, 10, 20, 30, 40, 50, 150, and 280 m) using 4-L Niskin Bottles. Two casts were required to collect all water samples, since only six Niskin bottles were mounted on an SBE55 rosette. Water samples were stored in dark Nalgene bottles in a cooler.</p>
<p>Chlorophyll α samples were size fractionated to estimate the chlorophyll α contribution of pico- and nano-phytoplankton (&lt; 20 µm size fraction) and larger phytoplankton (including diatoms plus larger photosynthetic dinoflagellates) (&gt; 20 µm size fraction) at 10-m intervals from the surface to 50 m for each sample time point. Polycarbonate (47-mm diameter, 20-μm pore size) and glass fiber (25-mm diameter, 0.7-μm pore size) filters were used to size fractionate 250 mL samples using a serial filtration vacuum manifold system (Strom et al., 2016). Filters were extracted in 90% acetone for 24 hours in the dark at -20°C. Fluorescence was measured using a Turner 10-AU fluorometer using the acidification method (Strom et al., 2016). Fluorescence measurements were converted to estimated chlorophyll α concentrations (µg/L) (Lorenzen, 1966). Integrated chlorophyll α (mg/m2) was calculated using trapezoidal integration (Strom et al., 2016).</p>
<p>Synechococcus, photosynthetic picoeukaryotes, and heterotrophic bacterial abundances were measured using flow cytometry at 8 depths (surface, 10, 20, 30, 40, 50, 150, and 280 m). Samples (1 ml) from each depth were preserved with paraformaldehyde to a final concentration of 0.5%, frozen initially at -40°C, and later transferred to -80°C until batch analysis. Samples were thawed, stained with Hoechst 34580 (1 μg/mL final concentration), and analyzed with a Beckman Coulter CytoFLEX S flow cytometer (Selph, 2021). Data were processed using FlowJo software (version 10.8.2). Synechococcus and picoeukaryote abundances were converted to carbon biomass using cellular carbon content estimates appropriate for the region (200 and 1,490 fg C per cell, respectively) (Strom et al., 2016).</p>
Specified by the Principal Investigator(s)
<p>Flow cytometry data were processed using FlowJo software (version 10.8.2). Synechococcus and picoeukaryote abundances were converted to carbon biomass using cellular carbon content estimates appropriate for the region (200 and 1,490 fg C per cell, respectively) (O’Hara, 2023, Strom et al. 2016).</p>
Specified by the Principal Investigator(s)
* Sheet 1 of submitted file "NaupProj2023_chla_flowc_BCODMO.csv
" was imported into the BCO-DMO data system for this dataset. Values "NA" imported as missing data values. Table will appear as Data File: 954173_v1_chl-a-flow-cyto.csv (along with other download format options).
Missing Data Identifiers:
* In the BCO-DMO data system missing data identifiers are displayed according to the format of data you access. For example, in csv files it will be blank (null) values. In Matlab .mat files it will be NaN values. When viewing data online at BCO-DMO, the missing value will be shown as blank (null) values.
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
SBE55
SBE55
PI Supplied Instrument Name: SBE55 PI Supplied Instrument Description:SBE55 rosette with 6 4-L Niskin Bottles Instrument Name: CTD - profiler Instrument Short Name: Instrument Description: The Conductivity, Temperature, Depth (CTD) unit is an integrated instrument package designed to measure the conductivity, temperature, and pressure (depth) of the water column. The instrument is lowered via cable through the water column. It permits scientists to observe the physical properties in real-time via a conducting cable, which is typically connected to a CTD to a deck unit and computer on a ship. The CTD is often configured with additional optional sensors including fluorometers, transmissometers and/or radiometers. It is often combined with a Rosette of water sampling bottles (e.g. Niskin, GO-FLO) for collecting discrete water samples during the cast.
This term applies to profiling CTDs. For fixed CTDs, see https://www.bco-dmo.org/instrument/869934. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/130/
Beckman Coulter CytoFLEX S flow cytometer
Beckman Coulter CytoFLEX S flow cytometer
PI Supplied Instrument Name: Beckman Coulter CytoFLEX S flow cytometer 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:SBE55 rosette with 6 4-L Niskin Bottles 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/
PI Supplied Instrument Name: Instrument Name: Turner Designs Fluorometer 10-AU Instrument Short Name:Turner Fluorometer 10-AU Instrument Description: The Turner Designs 10-AU Field Fluorometer is used to measure Chlorophyll fluorescence. The 10AU Fluorometer can be set up for continuous-flow monitoring or discrete sample analyses. A variety of compounds can be measured using application-specific optical filters available from the manufacturer (read more from Turner Designs, turnerdesigns.com, Sunnyvale, CA, USA). Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/TOOL0393/