http://lod.bco-dmo.org/id/dataset/637720
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
2016-02-02
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Flow cytometry results for naupliar grazing laboratory experiments conducted from 2012-2013 (EAGER: Copepod nauplii project)
2016-02-04
publication
2016-02-04
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2021-01-19
publication
https://doi.org/10.26008/1912/bco-dmo.637720.1
Erica Goetze
University of Hawaiʻi at Mānoa
principalInvestigator
Petra H. Lenz
University of Hawaiʻi at Mānoa
principalInvestigator
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: Goetze, E., Lenz, P., Selph, K. E. (2021) Flow cytometry results for naupliar grazing laboratory experiments conducted from 2012-2013 (EAGER: Copepod nauplii project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2016-02-04 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.637720.1 [access date]
Flow cytometry results for naupliar grazing experiments (laboratory) Dataset Description: <p>These data report initial and final measurements of prey abundances in bottle incubation experiments to measure naupliar grazing.</p> Methods and Sampling: <p>All samples were collected from surface water in Southern Kaneohe Bay, Oahu, Hawaii (21°25’56.7”N, 157°46’47.1”W).</p>
<p><u>Pro, Syn, Peuk, PE+Peuk, HBact data: </u>These data were collected and analyzed by flow cytometry as described in Selph et al. (2011).&nbsp; Briefly, samples were preserved (0.05% paraformaldehyde, final concentration), and frozen to -80°C within 1 h.&nbsp; Batches of samples were thawed, stained with Hoechst 34442 (1 µg/mL final concentration) and analyzed on a flow cytometer (Beckman Coulter Altra) with dual laser excitation (UV range and 488 nm, 200 mW and 1 W, respectively), mated to a Harvard Apparatus syringe pump for quantitative delivery (100 µl at 50 µl min<sup>-1</sup>).&nbsp; Resulting listmode files were analyzed off-line using FlowJo software (Treestar).&nbsp; Populations determined, based on red fluorescence (chlorophyll, 680±20 nm), orange fluorescence (phycoerythrin, 575±20 nm), blue fluorescence (DNA, 450±40 nm), and light scatter signals (forward and 90°).&nbsp; Distinguishable populations were <em>Prochlorococcus</em>, <em>Synechococcus</em>, Photosynthetic Eukaryotes (PEUK), High phycoerythrin-containing PEUK (PE+Peuk), and non-pigmented prokaryotes (a.k.a. heterotrophic bacteria, HBACT).&nbsp;&nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1255697 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1255697
completed
Erica Goetze
University of Hawaiʻi at Mānoa
808-956-7156
Department of Oceanography, University of Hawaii at Manoa 1000 Pope Road
Honolulu
HI
96822
United States
egoetze@hawaii.edu
pointOfContact
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
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
experiment
date_local
sample
abund_Syn
abund_Peuk
abund_PE_Peuk
abund_Hbact
theme
None, User defined
experiment id
date_local
sample identification
abundance
featureType
BCO-DMO Standard Parameters
Flow Cytometer
instrument
BCO-DMO Standard Instruments
Goetze_2012-2013
service
Deployment Activity
Kaneohe Bay, HI
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.
EAGER: New molecular methods for studying copepod nauplii in the field
https://osprey.bco-dmo.org/project/473049
EAGER: New molecular methods for studying copepod nauplii in the field
<p><em>Description from NSF Award Abstract:</em><br />
The most abundant metazoans in the open sea are often the earliest developmental stages of copepods, their nauplii. Nauplii remain under-studied due to the limitations of conventional techniques and an historical emphasis on studying the larger mesozooplankton. However, there is increasing recognition that nauplii play important roles in food web dynamics, and considerable evidence that nauplii may be important trophic intermediaries between microbial and classical food webs due to their high abundance, high weight-specific ingestion rates, and ability to feed on relatively small particles. This team of investigators is developing a novel molecular approach to studying diverse populations of nauplii in mixed field samples based on quantitative Polymerase Chain Reaction (qPCR). They propose to complete development and validation of this qPCR-based technique for enumeration of nauplii, and evaluate its utility in the field. The specific objectives of this research are to identify and reduce technical and biological sources of error in the methodology, determine the accuracy of the method across a range of environmental conditions, and complete one paired field experiment that compares the grazing impact of naupliar and protozoan micro-grazers in a model subtropical coastal ecosystem.</p>
<p><strong>Note:</strong> This project is funded by an NSF EAGER award.</p>
<p><em>Related publications:</em><br />
Jungbluth, M.J., Goetze, E., and Lenz, P.H. 2013. Measuring copepod naupliar abundance in a subtropical bay using quantitative PCR. Marine Biology, 160: 3125-3141. doi: <a href="http://dx.doi.org/10.1007/s00227-013-2300-y" target="_blank">10.1007/s00227-013-2300-y</a></p>
<p>Jungbluth, M.J., and Lenz, P.H. 2013. Copepod diversity in a subtropical bay based on a fragment of the mitochondrial COI gene. Journal of Plankton Research, 35(3): 630-643. doi: <a href="http://dx.doi.org/10.1093/plankt/fbt015" target="_blank">10.1093/plankt/fbt015</a></p>
EAGER: Copepod nauplii
largerWorkCitation
project
eng; USA
biota
oceans
Kaneohe Bay, HI
-157.7797
-157.7797
21.4322
21.4322
2013-05-29
2013-06-05
Kaneohe Bay, Oahu, Hawaii
0
BCO-DMO catalogue of parameters from Flow cytometry results for naupliar grazing laboratory experiments conducted from 2012-2013 (EAGER: Copepod nauplii 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
http://lod.bco-dmo.org/id/dataset-parameter/637733.rdf
Name: experiment
Units: unitless
Description: <p>experiment id</p>
http://lod.bco-dmo.org/id/dataset-parameter/637734.rdf
Name: date_local
Units: yyyy-mm-dd
Description: <p>local date</p>
http://lod.bco-dmo.org/id/dataset-parameter/637735.rdf
Name: sample
Units: unitless
Description: <p>sample id</p>
http://lod.bco-dmo.org/id/dataset-parameter/637736.rdf
Name: abund_Syn
Units: cells/mL
Description: <p>Synechococcus</p>
http://lod.bco-dmo.org/id/dataset-parameter/637737.rdf
Name: abund_Peuk
Units: cells/mL
Description: <p>Photosynthetic Eukaryotes</p>
http://lod.bco-dmo.org/id/dataset-parameter/637738.rdf
Name: abund_PE_Peuk
Units: cells/mL
Description: <p>high PhycoErythrin-containing Photosynthetic eukaryotes</p>
http://lod.bco-dmo.org/id/dataset-parameter/637739.rdf
Name: abund_Hbact
Units: cells/mL
Description: <p>non-pigmented prokaryotes (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
5436
https://darchive.mblwhoilibrary.org/bitstream/1912/26591/1/dataset-637720_lab-naupliar-grazing-prey-densities__v1.tsv
download
https://doi.org/10.26008/1912/bco-dmo.637720.1
download
onLine
dataset
<p>All samples were collected from surface water in Southern Kaneohe Bay, Oahu, Hawaii (21°25’56.7”N, 157°46’47.1”W).</p>
<p><u>Pro, Syn, Peuk, PE+Peuk, HBact data: </u>These data were collected and analyzed by flow cytometry as described in Selph et al. (2011).&nbsp; Briefly, samples were preserved (0.05% paraformaldehyde, final concentration), and frozen to -80°C within 1 h.&nbsp; Batches of samples were thawed, stained with Hoechst 34442 (1 µg/mL final concentration) and analyzed on a flow cytometer (Beckman Coulter Altra) with dual laser excitation (UV range and 488 nm, 200 mW and 1 W, respectively), mated to a Harvard Apparatus syringe pump for quantitative delivery (100 µl at 50 µl min<sup>-1</sup>).&nbsp; Resulting listmode files were analyzed off-line using FlowJo software (Treestar).&nbsp; Populations determined, based on red fluorescence (chlorophyll, 680±20 nm), orange fluorescence (phycoerythrin, 575±20 nm), blue fluorescence (DNA, 450±40 nm), and light scatter signals (forward and 90°).&nbsp; Distinguishable populations were <em>Prochlorococcus</em>, <em>Synechococcus</em>, Photosynthetic Eukaryotes (PEUK), High phycoerythrin-containing PEUK (PE+Peuk), and non-pigmented prokaryotes (a.k.a. heterotrophic bacteria, HBACT).&nbsp;&nbsp;</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Processing:</strong></p>
<p>- added conventional header with dataset name, PI name, version date, reference information<br />
- renamed parameters to BCO-DMO standard<br />
- reformatted date from m/d/yyyy to yyyy-mm-dd<br />
- replaced spaces with underscores<br />
- replaced '&lt;' with 'lt_'</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
PI Supplied Instrument Name: 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/
Deployment: Goetze_2012-2013
Goetze_2012-2013
lab UHawaii_SOEST
laboratory
Goetze_2012-2013
Erica Goetze
University of Hawaiʻi at Mānoa
lab UHawaii_SOEST
laboratory