http://lod.bco-dmo.org/id/dataset/514757
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
2014-05-09
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Results from laboratory experiments testing autoinduction in marine diatoms, Thalassiosira pseudonana and Phaeodactylum tricornutum (PhytoplanktonQS project)
2014-05-09
publication
2014-05-09
revision
Marine Biological Laboratory/Woods Hole Oceanographic Institution Library (MBLWHOI DLA)
2025-01-13
publication
https://doi.org/10.26008/1912/bco-dmo.514757.1
Dr Maria Vernet
University of California-San Diego Scripps
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: Vernet, M. (2025) Results from laboratory experiments testing autoinduction in marine diatoms, Thalassiosira pseudonana and Phaeodactylum tricornutum (PhytoplanktonQS project). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2014-05-09 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.514757.1 [access date]
Results from laboratory experiments testing autoinduction in marine diatoms, Thalassiosira pseudonana and Phaeodactylum tricornutum Dataset Description: <p>Data from laboratory experiments testing the effect of auto-induction on the marine diatorms <em>Thalassiosira pseudonana</em> and <em>Phaeodactylum tricornutum</em>.&nbsp;</p> Methods and Sampling: <p>Laboratory experiments were conducted to test auto-induction in marine diatoms. Experiments were conducted including initial tests to establish a reliable and repeatable protocol at each step of the experimental design. All findings are based on triplicate experiments, i.e. each treatment in triplicate.</p>
<p>For further details of Methods and Analytical Methodology, please contact the PI.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1140042 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1140042
completed
Dr Maria Vernet
University of California-San Diego Scripps
1-858-534-5322
9500 Gilman Drive Mail Code 0218
La Jolla
California
92093-0218
USA
mvernet@ucsd.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
species
expt_num
date_local
samp_name
cell_conc
OD_blank
OD_blank_avg
OD
OD_avg_corr
avg_OD_triple
OD_std_dev
pH
Percival models LT-36VL and LT-41VLX
ThermoScientific Orion Star LogR
Cary-100 UV-Visible spectrophotometer
theme
None, User defined
species scientific name (binomial)
experiment id
date_local
sample identification
cell_concentration
instrument_blank
optical_density
pH
featureType
BCO-DMO Standard Parameters
In-situ incubator
pH Sensor
Spectrophotometer
instrument
BCO-DMO Standard Instruments
Lab_UCSD_Vernet
service
Deployment Activity
on land
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.
Cell to cell communication in marine phytoplankton: population density control of cellular processes
https://osprey.bco-dmo.org/project/512794
Cell to cell communication in marine phytoplankton: population density control of cellular processes
<p><em>Description from NSF award abstract:</em><br />
Recent discoveries have shown that cell-cell communication extends from the intra-species to the inter-kingdom level and play pivotal roles in population-wide biological events such as changes in morphology, metabolic state and population structure. Quorum sensing (QS) is a communication process that allows single cells to cooperatively function as a decentralized network. Studies in prokaryotes and, more recently, fungi have demonstrated that QS regulates the timing of key biological processes such as colony formation, sporulation, morphological changes, pathogenicity and sexual reproduction. In the marine environment, QS has been demonstrated in bacteria however, this level of mutual cooperation has not been considered for phytoplankton populations. In view of the emerging literature on the critical role of cell-cell communication, it is timely to reconsider how we regard marine phytoplankton.</p>
<p>Thus far marine phytoplankton cell-cell interaction studies have primarily focused on chemical signals for competition against other species (e.g. allelopathy), predation deterrence and warning systems for environmental stress. There are several lines of circumstantial evidence to support QS in phytoplankton such as the timing of cell division, density dependent allelopathy and programmed cell death. However, to our knowledge there has been no direct experimentation to determine if phytoplankton can function in a cooperative consortium. Do they have a quorum sensing-type of communication to regulate intra-species processes as well as modulates inter-species interactions? Are recurrent phytoplankton communities established because these species are able to communicate with each member serving a specific role to maintain the population? These are difficult questions to address but have far reaching implications in our understanding of phytoplankton ecology.</p>
<p>This project will test whether phytoplankton have a QS system by examining the process of autoinduction (a basic tenant for QS) for specific biological events. The PIs will test this by examining two specific areas using phytoplankton ecological and physiological measurements coupled with state of the art bio-informatic and genomic tools:</p>
<p>1. Perform an extensive search for candidate phytoplankton QS-related genes in existing genomic and gene expression databases, based on homology with QS-related genes from other organisms. The PIs will conduct a detailed analysis to definitively map homologs of these QS regulatory pathways in their entirety as well as the few known biosynthetic pathways of QS compounds and transcriptional/translational regulators onto phytoplankton genomes. The results will be included as part of a comparative genomics study on cell-to-cell communication in phytoplankton, and the possible role of any candidate genes in QS will be tested by the experiments detailed below (2).</p>
<p>2. Establish autoinduction of cellular processes in a diatom species using an experimental approach. The PIs will focus on the autoinduction of growth, cell morphology, allelopathy and biofilm formation using axenic cultures using two model diatom species, Phaeodactylum tricornutum Bohlin and Thalassiosira pseudonana.</p>
<p>The establishment of a QS-like communication system will bring in a new perspective to our views on phytoplankton ecology beyond our current paradigm of bottom-up and top-down controls or competitive interactions. Results from this study will also influence our views on the factors controlling phytoplankton population diversity, as we will now have to consider the role of inter-species communication. Funding through an EAGER proposal will provide support for exploratory, high-risk research to obtain a minimum set of data as proof of concept of QS in phytoplankton.</p>
PhytoplanktonQS
largerWorkCitation
project
eng; USA
oceans
on land
2012-01-04
2013-11-12
0
BCO-DMO catalogue of parameters from Results from laboratory experiments testing autoinduction in marine diatoms, Thalassiosira pseudonana and Phaeodactylum tricornutum (PhytoplanktonQS 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/514897.rdf
Name: species
Units: none
Description: <p>specific taxonomic classification</p>
http://lod.bco-dmo.org/id/dataset-parameter/514898.rdf
Name: expt_num
Units: none
Description: <p>Sequential numbering system for each part of the experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514899.rdf
Name: date_local
Units: dd/mm/yy
Description: <p>day/month/year of the experiment</p>
http://lod.bco-dmo.org/id/dataset-parameter/514900.rdf
Name: samp_name
Units: none
Description: <p>FM = Fresh Medium;</p>
<p>CM = Conditioned Medium;</p>
<p>Because the display does not support '(prime) and "(double prime), those annotations were changed to 'prm' and 'dblprm'.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514902.rdf
Name: cell_conc
Units: cells per milliliter
Description: <p>concentration of cells in the sample at the beginning of the experiment.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514904.rdf
Name: OD_blank
Units: optical density units
Description: <p>Optical Density of the blank at 750 nm. This dataset has three replicate measurements of Optical density blanks: OD_blank1, OD_blank2 and OD_blank3. They correspond to three measurements of the Optical density of the diatom concentration and set the location of the instrument zero.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514905.rdf
Name: OD_blank_avg
Units: optical density units
Description: <p>Average of three blanks measured by the spectrophotometer.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514907.rdf
Name: OD
Units: optical density units
Description: <p>Optical Density (OD) of the sample at 750 nm. OD1, OD2 and OD3 are replicate measurements.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514908.rdf
Name: OD_avg_corr
Units: optical density units
Description: <p>Corrected OD average of the sample: OD sample minus OD blank</p>
http://lod.bco-dmo.org/id/dataset-parameter/514909.rdf
Name: avg_OD_triple
Units: optical density units
Description: <p>Average of the three replicate sample measurements: first, prime and doubleprime.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514910.rdf
Name: OD_std_dev
Units: optical density units
Description: <p>Standard deviation of the triples measurements.</p>
http://lod.bco-dmo.org/id/dataset-parameter/514911.rdf
Name: pH
Units: pH units
Description: <p>pH of the sample</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
404606
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/666aee71-be65-4d66-a6f3-455ea4d7548b/content
download
404606
https://darchive.mblwhoilibrary.org/server/api/core/bitstreams/cf9a86ed-bb5b-4a66-93a6-47203ac7df97/content
download
https://doi.org/10.26008/1912/bco-dmo.514757.1
download
onLine
dataset
<p>Laboratory experiments were conducted to test auto-induction in marine diatoms. Experiments were conducted including initial tests to establish a reliable and repeatable protocol at each step of the experimental design. All findings are based on triplicate experiments, i.e. each treatment in triplicate.</p>
<p>For further details of Methods and Analytical Methodology, please contact the PI.</p>
Specified by the Principal Investigator(s)
<p>Data were plotted; points above or below one standard deviation were considered outliers. Averages and Standard Deviations were calculated from Excel.</p>
<p>Quality control: Several experimental designs failed and are not included. Only data of publishable quality are included in the data file.</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
Percival models LT-36VL and LT-41VLX
Percival models LT-36VL and LT-41VLX
PI Supplied Instrument Name: Percival models LT-36VL and LT-41VLX Instrument Name: In-situ incubator Instrument Short Name:in-situ incubator Instrument Description: A device on a ship or in the laboratory that holds water samples under controlled conditions of temperature and possibly illumination. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/82/
ThermoScientific Orion Star LogR
ThermoScientific Orion Star LogR
PI Supplied Instrument Name: ThermoScientific Orion Star LogR PI Supplied Instrument Description:Accuracy to 2 decimal places. Instrument Name: pH Sensor Instrument Short Name:pH Sensor Instrument Description: An instrument that measures the hydrogen ion activity in solutions.
The overall concentration of hydrogen ions is inversely related to its pH. The pH scale ranges from 0 to 14 and indicates whether acidic (more H+) or basic (less H+).
Cary-100 UV-Visible spectrophotometer
Cary-100 UV-Visible spectrophotometer
PI Supplied Instrument Name: Cary-100 UV-Visible spectrophotometer PI Supplied Instrument Description:Accurate to 4 decimal places Instrument Name: Spectrophotometer Instrument Short Name:Spectrophotometer Instrument Description: An instrument used to measure the relative absorption of electromagnetic radiation of different wavelengths in the near infra-red, visible and ultraviolet wavebands by samples. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB20/
Deployment: Lab_UCSD_Vernet
Lab_UCSD_Vernet
UCSD Vernet
UCSD Vernet
laboratory
Lab_UCSD_Vernet
Dr Maria Vernet
University of California-San Diego Scripps
UCSD Vernet
UCSD Vernet
laboratory