http://lod.bco-dmo.org/id/dataset/684883
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
2017-03-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project)
2017-03-20
publication
2017-03-20
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2019-04-03
publication
https://doi.org/10.1575/1912/bco-dmo.684883.1
Suzanne Strom
Western Washington University - Shannon Point Marine Center
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: Strom, S. (2017) Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2017-03-20 [if applicable, indicate subset used]. doi:10.1575/1912/bco-dmo.684883.1 [access date]
Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi. Dataset Description: <p>Cell size and chemical characteristics (H2O2 production, DMSP content) of five strains of coccolithophore <em>Emiliania huxleyi</em>, grown in laboratory culture</p> Methods and Sampling: <p>Cultures of&nbsp;&nbsp;Emiliania&nbsp;huxleyi&nbsp;were obtained from the National Center for Marine Algae and Microbiota at Bigelow Laboratories (all CCMP strains), or from Dr. D. Iglesias-Rodriguez at UC Santa Barbara (strain NEZH) and maintained in the Strom laboratory at Shannon Point Marine Center.</p>
<p>Batch cultures were grown in 50-100 ml volumes of seawater (salinity = 30) amended with f/50 nutrients, at a temperature of 15 deg C and an irradiance of 140-300 umol photons m-2&nbsp;s-1&nbsp;on a 12L:12D light cycle. Replicate cultures (n=3) were subsampled for chemical measurements at cell densities of 1.4 to 2.7 x 10^5&nbsp;cells ml-1&nbsp;(DMSP) and 3.6 to 12.8 x 10^5&nbsp;cells ml-1&nbsp;(H2O2). Different chemical and size measurements reported for a given strain were made over the course of several separate experiments.</p>
<p>Dimethylsulfoniopropionate (DMSP) contained within&nbsp;E.&nbsp;huxleyi&nbsp;cells was measured using a Shimadzu GC-14A gas chromatograph and flame photometric detection, following the methods of Wolfe et al. (2002 J.&nbsp;Phycol.&nbsp;38:&nbsp;948-960).&nbsp; Cells were captured on 25 mm glass fiber filters (effective pore size 0.7 um) and placed into 3 ml 5N NaOH for hydrolysis.&nbsp;Method&nbsp;was standardized using ultrapure DMSP-Cl (standard range 0.625 to 50 nM; r2&nbsp;≥0.998).</p>
<p>Hydrogen peroxide (H2O2) released into the dissolved phase by&nbsp;E.&nbsp;huxleyi&nbsp;was measured using the Amplex Red – horseradish peroxidase method, using a kit from Molecular Probes (now part of Thermo Fisher Scientific) according to kit directions and to Suggett et al. (2008 J&nbsp;Phycol&nbsp;44:&nbsp;948-956).&nbsp;Fluorescent&nbsp;reaction product was quantified in a BioTek Synergy M plate reader (565 nm excitation, 585 nm emission). True reagent blanks were obtained by catalase treatment of&nbsp;E.&nbsp;huxleyi&nbsp;culture filtrate (50 U ml-1, 45 min, room temperature) following Shaked et al. (2010 Environ Sci Technol&nbsp;44:&nbsp;3238-3244). Method was standardized using ultrapure H2O2&nbsp;(standard range 0.025 to 0.5 uM; r2&nbsp;= 0.98)</p>
<p>E.&nbsp;huxleyi&nbsp;cell size was obtained by imaging live cells (n = 23-29) at 1000x magnification on a Leica DM5500 B microscope, and sizing them with associated image analysis software. Calcification (i.e. whether a strain harbored coccoliths) was also confirmed&nbsp;during&nbsp;microscopy. Note that the sample of strain CCMP3266 used for size measurement comprised a mixture of calcifying and non-calcifying cells.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1434842 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1434842
completed
Suzanne Strom
Western Washington University - Shannon Point Marine Center
360-293-2188
Shannon Point Marine Center 1900 Shannon Point Rd
Anacortes
WA
98221
USA
suzanne.strom@wwu.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
data_type
CCMP1516
CCMP3268
CCMP3266
CCMP2668
NEZH
Shimadzu GC-14A gas chromatograph
Leica DM5500 B microscope
BioTek Synergy M plate reader
theme
None, User defined
datatype
sample identification
featureType
BCO-DMO Standard Parameters
Gas Chromatograph
Microscope - Optical
plate reader
instrument
BCO-DMO Standard Instruments
Strom_2014
service
Deployment Activity
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.
Environmental stress and signaling based on reactive oxygen species among planktonic protists
https://www.bco-dmo.org/project/614838
Environmental stress and signaling based on reactive oxygen species among planktonic protists
<p><em>Description from NSF proposal:</em><br />
This proposal arises from the central premise that the oxidative stress response is an emergent property of phototrophic cellular systems, with implications for nearly every aspect of a phytoplankton cell’s life in the upper ocean. Oxidative stress (OS) arises from the uncompensated production of reactive oxygen species (ROS) within a cell, which can occur in response to a myriad of environmental stressors (e.g. nutrient limitation, temperature extremes, toxins, variable light exposure). In addition to the biochemical damage and physiological impairment that OS can cause, the phytoplankton OS response also includes increased net production and extracellular release of ROS, osmolytes, and other compounds that are known or suspected to be potent signals regulating protist behavior. We hypothesize that, through chemical signaling, oxidative stress acts to govern relationships among environmental variability, phytoplankton condition, and protist predation. Our proposed study of these integrated signaling and response processes has three overarching objectives: 1) Create and characterize oxidatively stressed phytoplankton. We will use light stress (variable exposure to visible light and UV) to create oxidatively stressed phytoplankton in the laboratory. Common coastal taxa with contrasting stress responses will be characterized using an array of fluorescent probes, biochemical measurements, and physiological assays. In addition, intracellular production and extracellular release of ROS and the associated chemical signal DMSP will be quantified. Use of <em>Phaeodactylum tricornutum</em> light stress mutants will add an independent means of connecting OS to signal production and predation response. 2) Examine protist predator responses to oxidatively stressed phytoplankton and associated chemical signals. Responses will be investigated by means of manipulation experiments and thorough characterization of associated signal chemistry. Assessment of predator response will be via predation rate measurements and population aggregation/dispersal behaviors in structured columns. 3) Investigate the prevalence of OS, its environmental correlates, and the microzooplankton predation response in the natural waters of a well-characterized local embayment. Application of ROS probes and OS assays to the natural environment and the design of OS manipulation experiments will be informed by the laboratory experiments using local protist species.</p>
<p>Our work will help to elucidate some of the multiple ways in which the OS response can affect phytoplankton fitness, contributing information that can be used to characterize the position of key coastal species along an OS response spectrum. Ultimately such information could be used in trait-based conceptual and numerical models in a manner analogous to cell size and other 'master traits'. Our research will also inform the relatively new and exciting field of chemical signaling in planktonic communities, exploring DMSP- and ROS-based signaling between two of the most significant groups in the plankton, the eukaryotic phytoplankton and their protist predators. Finally, findings will help elucidate the links between environmental stress, phytoplankton response, and predation in planktonic ecosystems. These links relate to central issues in biological oceanography, including the predator-prey interactions that influence bloom demise, and the mechanisms by which protists feed selectively and thereby structure prey communities. The proposed research is a cross-cutting endeavor that unites subjects usually studied in isolation through a novel conceptual framework. Thus the findings have the potential to generate broadly applicable new insights into the ecological and evolutionary regulation of this key trophic link in planktonic food webs.</p>
Protist signaling
largerWorkCitation
project
eng; USA
oceans
-122.75
-122.75
48.5
48.5
2017-03-20
Salish Sea: 48.5, -122.75
0
BCO-DMO catalogue of parameters from Cell size and chemical characteristics of five strains of coccolithophore Emiliania huxleyi (Protist signaling 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/686975.rdf
Name: data_type
Units: unitless
Description: Description of the type of data found in the corresponding row.
http://lod.bco-dmo.org/id/dataset-parameter/686976.rdf
Name: CCMP1516
Units: unitless
Description: Data for strain CCMP1516
http://lod.bco-dmo.org/id/dataset-parameter/686977.rdf
Name: CCMP3268
Units: unitless
Description: Data for strain CCMP3268
http://lod.bco-dmo.org/id/dataset-parameter/686978.rdf
Name: CCMP3266
Units: unitless
Description: Data for strain CCMP3266
http://lod.bco-dmo.org/id/dataset-parameter/686979.rdf
Name: CCMP2668
Units: unitless
Description: Data for strain CCMP2668
http://lod.bco-dmo.org/id/dataset-parameter/686980.rdf
Name: NEZH
Units: unitless
Description: Data for strain NEZH
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
3334
https://darchive.mblwhoilibrary.org/bitstream/1912/23953/1/dataset-684883_emiliania-size-and-chemical-characteristics__v1.tsv
download
https://doi.org/10.1575/1912/bco-dmo.684883.1
download
onLine
dataset
<p>Cultures of&nbsp;&nbsp;Emiliania&nbsp;huxleyi&nbsp;were obtained from the National Center for Marine Algae and Microbiota at Bigelow Laboratories (all CCMP strains), or from Dr. D. Iglesias-Rodriguez at UC Santa Barbara (strain NEZH) and maintained in the Strom laboratory at Shannon Point Marine Center.</p>
<p>Batch cultures were grown in 50-100 ml volumes of seawater (salinity = 30) amended with f/50 nutrients, at a temperature of 15 deg C and an irradiance of 140-300 umol photons m-2&nbsp;s-1&nbsp;on a 12L:12D light cycle. Replicate cultures (n=3) were subsampled for chemical measurements at cell densities of 1.4 to 2.7 x 10^5&nbsp;cells ml-1&nbsp;(DMSP) and 3.6 to 12.8 x 10^5&nbsp;cells ml-1&nbsp;(H2O2). Different chemical and size measurements reported for a given strain were made over the course of several separate experiments.</p>
<p>Dimethylsulfoniopropionate (DMSP) contained within&nbsp;E.&nbsp;huxleyi&nbsp;cells was measured using a Shimadzu GC-14A gas chromatograph and flame photometric detection, following the methods of Wolfe et al. (2002 J.&nbsp;Phycol.&nbsp;38:&nbsp;948-960).&nbsp; Cells were captured on 25 mm glass fiber filters (effective pore size 0.7 um) and placed into 3 ml 5N NaOH for hydrolysis.&nbsp;Method&nbsp;was standardized using ultrapure DMSP-Cl (standard range 0.625 to 50 nM; r2&nbsp;≥0.998).</p>
<p>Hydrogen peroxide (H2O2) released into the dissolved phase by&nbsp;E.&nbsp;huxleyi&nbsp;was measured using the Amplex Red – horseradish peroxidase method, using a kit from Molecular Probes (now part of Thermo Fisher Scientific) according to kit directions and to Suggett et al. (2008 J&nbsp;Phycol&nbsp;44:&nbsp;948-956).&nbsp;Fluorescent&nbsp;reaction product was quantified in a BioTek Synergy M plate reader (565 nm excitation, 585 nm emission). True reagent blanks were obtained by catalase treatment of&nbsp;E.&nbsp;huxleyi&nbsp;culture filtrate (50 U ml-1, 45 min, room temperature) following Shaked et al. (2010 Environ Sci Technol&nbsp;44:&nbsp;3238-3244). Method was standardized using ultrapure H2O2&nbsp;(standard range 0.025 to 0.5 uM; r2&nbsp;= 0.98)</p>
<p>E.&nbsp;huxleyi&nbsp;cell size was obtained by imaging live cells (n = 23-29) at 1000x magnification on a Leica DM5500 B microscope, and sizing them with associated image analysis software. Calcification (i.e. whether a strain harbored coccoliths) was also confirmed&nbsp;during&nbsp;microscopy. Note that the sample of strain CCMP3266 used for size measurement comprised a mixture of calcifying and non-calcifying cells.</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO Data Processing Notes:</strong></p>
<p>-Data compiled into one table from multiple spreadsheets<br />
-Replaced all blank cells with "nd"</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
Shimadzu GC-14A gas chromatograph
Shimadzu GC-14A gas chromatograph
PI Supplied Instrument Name: Shimadzu GC-14A gas chromatograph PI Supplied Instrument Description:Used to measure Dimethylsulfoniopropionate (DMSP) Instrument Name: Gas Chromatograph Instrument Short Name:Gas Chromatograph Instrument Description: Instrument separating gases, volatile substances, or substances dissolved in a volatile solvent by transporting an inert gas through a column packed with a sorbent to a detector for assay. (from SeaDataNet, BODC) Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB02/
Leica DM5500 B microscope
Leica DM5500 B microscope
PI Supplied Instrument Name: Leica DM5500 B microscope PI Supplied Instrument Description:Used to determine cell size Instrument Name: Microscope - Optical Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of visible light. Includes conventional and inverted instruments. Also called a "light microscope". Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB05/
BioTek Synergy M plate reader
BioTek Synergy M plate reader
PI Supplied Instrument Name: BioTek Synergy M plate reader PI Supplied Instrument Description:Used to measure fluorescent reaction Instrument Name: plate reader Instrument Short Name: Instrument Description: Plate readers (also known as microplate readers) are laboratory instruments designed to detect biological, chemical or physical events of samples in microtiter plates. They are widely used in research, drug discovery, bioassay validation, quality control and manufacturing processes in the pharmaceutical and biotechnological industry and academic organizations. Sample reactions can be assayed in 6-1536 well format microtiter plates. The most common microplate format used in academic research laboratories or clinical diagnostic laboratories is 96-well (8 by 12 matrix) with a typical reaction volume between 100 and 200 uL per well. Higher density microplates (384- or 1536-well microplates) are typically used for screening applications, when throughput (number of samples per day processed) and assay cost per sample become critical parameters, with a typical assay volume between 5 and 50 µL per well. Common detection modes for microplate assays are absorbance, fluorescence intensity, luminescence, time-resolved fluorescence, and fluorescence polarization. From: http://en.wikipedia.org/wiki/Plate_reader, 2014-09-0-23.
Deployment: Strom_2014
Strom_2014
lab Strom
laboratory
Strom_2014
Suzanne Strom
Western Washington University - Shannon Point Marine Center
lab Strom
laboratory