http://lod.bco-dmo.org/id/dataset/670706
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
2016-12-20
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
Transmission electron micrographs of virions from Pleurochrysis carterae CCMP645 culture supernatant from laboratory experiments at the Bigelow Laboratory for Ocean Sciences, Maine from 2015-2016
2016-12-20
publication
2016-12-20
revision
BCO-DMO Linked Data URI
2016-12-20
creation
http://lod.bco-dmo.org/id/dataset/670706
Joaquín Martínez Martínez
Bigelow Laboratory for Ocean Sciences
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: Martínez Martínez, J. (2016) Transmission electron micrographs of virions from Pleurochrysis carterae CCMP645 culture supernatant from laboratory experiments at the Bigelow Laboratory for Ocean Sciences, Maine from 2015-2016. Biological and Chemical Oceanography Data Management Office (BCO-DMO). Version Date 2016-12-20 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/670706 [access date]
Transmission electron micrographs of virions from P. carterae CCMP 645 culture supernatant Dataset Description: <p>This dataset contains&nbsp;images&nbsp;of coccolithophorid algae (<em>Pleurochrysis carterae</em>)&nbsp;virions using a Transmission Electron Microscope (TEM). &nbsp;Image metadata such as magnification and cell_id are also included.</p>
<p>The supernatant images were taken on 19 June 2015.</br>
The following zip files contain the supernatant images in TIF and JPG format. Metadata for these images are available by clicking the "Get Data" on this page.</br>
<a href="http://dmoserv3.whoi.edu/data_docs/Marine_Chronic_Viruses/Images/zip/TEM_supernatant_tifs.zip">TIF format(78MB)</a>
<a href="http://dmoserv3.whoi.edu/data_docs/Marine_Chronic_Viruses/Images/zip/TEM_supernatant_jpgs.zip">JPG format(24MB)</a>
</p>
<p><strong>Related datasets:</strong><br />
*&nbsp;<a href="https://www.bco-dmo.org/dataset/670431" target="_blank">Pleurochrysis carterae growth</a><br />
*&nbsp;<a href="https://www.bco-dmo.org/dataset/670442">Pleurochrysis carterae virus production</a><br />
*&nbsp;&nbsp;<a href="https://www.bco-dmo.org/dataset/670450" target="_blank">Virus dPCR assay primers</a><br />
*&nbsp;<a href="https://www.bco-dmo.org/dataset/670912">Accession numbers (P. carterae viruses and field samples)</a><br />
*&nbsp;<a href="https://www.bco-dmo.org/dataset/670714" target="_blank">TEM Pleurochrysis carterae thin section images</a></p> Methods and Sampling: <p>A one-liter culture of <em>P. carterae </em>CCMP 645 in late exponential growth phase, grown in F/2 medium, was filtered through a 0.2 um PES membrane under sterile conditions. The filtrate was then initially concentrated down to approximately 25 ml by tangential flow filtration using a Vivaflow 50 cartridge (Sartorius) and further concentrated down to approximately 2 ml using a 30 kDa MWCO AmiconUltra-15 column (Millipore). Aliquots of the concentrate (2-20 ul) were spotted onto 200-mesh formvar/ carbon coated copper electron microscopy grids (Polysciences) and allowed to dry. Grids were then positively stained with filtered (0.2 um) 2% (wt/ vol) uranyl acetate (SPI) in de-ionized water (&gt; 18 &nbsp;milliohm cm-2) for 2 min followed by removal of excess liquid via filter paper and a de-ionized water rinse. Grids were allowed to air-dry and were stored at room temperature prior to analysis. Imaging analysis was performed at the Applied Medical Sciences department at the University of Southern Maine, Portland, ME, USA using an FEI Technai TEM at magnifications 6,000x – 250,000x at 100 kV. Photographs were taken at magnifications between 11,000x and 180,000x. &nbsp;</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1346272 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1346272
completed
Joaquín Martínez Martínez
Bigelow Laboratory for Ocean Sciences
410-221-1819
2020 Horns Point Road AREL 239
Cambridge
MD
21613
USA
jmartinez@umces.edu
pointOfContact
asNeeded
Unknown
imagename
print_mag
direct_mag
date
time
sample_type
comment
thumbnail
Transmission Electron Microscope (TEM)
theme
None, User defined
dataset_id
sample description
date
time of day
sample type
comments
file_link
featureType
BCO-DMO Standard Parameters
Electron Microscope
instrument
BCO-DMO Standard Instruments
Bigelow_Martinez_2015-2016
service
Deployment Activity
Bigelow Laboratory for Ocean Sciences, Maine
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.
Persistent Virus Infections in Marine Phytoplankton
https://osprey.bco-dmo.org/project/560443
Persistent Virus Infections in Marine Phytoplankton
<p><em>Description from NSF award abstract:</em><br />
Viruses are prevalent in every part of the environment of our living planet, and yet our understanding of type, distribution, and function is the least well-known aspect of biodiversity. In recent years we have developed an increased appreciation for the role viruses play in driving host evolution in the environment, but fundamental knowledge about the mechanisms involved remain lacking. Additionally, viruses may influence diversity indirectly through "kill the winner" scenarios, as well as through cell lysis and subsequent release of dissolved nutrients, which facilitate restructuring of microbial communities. The majority of research on marine viruses to date has focused on combinations of acutely susceptible host strains with highly virulent virus isolates. However, it is likely that marine viruses also employ a persistent infection life strategy, arguably preferring it to the more widely recognized lytic cycle. The objective of this project is to demonstrate that persistent virus infections occur in marine phytoplankton, and that these are a crucial component of ocean ecosystem function and a key evolutionary driver in primary producers. Using a range of persistent virus:host systems, this project will investigate:<br />
1) how pervasive persistent virus infections are in marine systems; and<br />
2) the role of non-coding RNAs in maintaining host:virus symbiosis.</p>
<p>This is a high risk-high pay research as it involves a radically different approach to the analysis of viruses in marine systems. The investigators plan to apply a suite of molecular (transcriptomics, genomics and development of novel diagnostic markers) techniques to include the analysis of microRNAs to determine the functional importance of persistent viruses in the ocean. The results of this project will be potentially transformative for our understanding of virus-driven phytoplankton evolution and its potential impact on biodiversity in marine phytoplankton, a vital component of the global carbon cycle.</p>
<p>Note: William Wilson (Bigelow Laboratory) was the Former Principal Investigator on this project award.</p>
Marine Chronic Viruses
largerWorkCitation
project
eng; USA
oceans
Bigelow Laboratory for Ocean Sciences, Maine
2016-12-20
0
BCO-DMO catalogue of parameters from Transmission electron micrographs of virions from Pleurochrysis carterae CCMP645 culture supernatant from laboratory experiments at the Bigelow Laboratory for Ocean Sciences, Maine from 2015-2016
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/671090.rdf
Name: imagename
Units: unitless
Description: <p>Name of the image; format is PhotoDate_ExperimentLocation_SequentialNumber.tif</p>
http://lod.bco-dmo.org/id/dataset-parameter/671091.rdf
Name: print_mag
Units: unitless
Description: <p>Magnification of image</p>
http://lod.bco-dmo.org/id/dataset-parameter/671092.rdf
Name: direct_mag
Units: unitless
Description: <p>Direct magnification of instrument at time of imaging</p>
http://lod.bco-dmo.org/id/dataset-parameter/671093.rdf
Name: date
Units: unitless
Description: <p>Date in format yyyy-mm-dd</p>
http://lod.bco-dmo.org/id/dataset-parameter/671094.rdf
Name: time
Units: unitless
Description: <p>Time in format HH:MM</p>
http://lod.bco-dmo.org/id/dataset-parameter/671095.rdf
Name: sample_type
Units: unitltess
Description: <p>Two types of samples; 1) "concentrate 5-19-15" - concentrated culture supernatant and the date the sample was concentrated; 2) "concentrate optiprep band" - the band extracted from an Optiprep density gradient loaded with an aliquot of the previous concentrated sample.</p>
http://lod.bco-dmo.org/id/dataset-parameter/671096.rdf
Name: comment
Units: unitless
Description: <p>Comment</p>
http://lod.bco-dmo.org/id/dataset-parameter/671097.rdf
Name: thumbnail
Units: unitless
Description: <p>thumbnail of the image formatted as html with a link to the original tif image</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
11908
https://datadocs.bco-dmo.org/file/M77XP8zszPBAr4/TEM_super.csv
TEM_super.csv
Primary data file for dataset ID 670706
download
https://osprey.bco-dmo.org/dataset/670706/data/download
download
onLine
dataset
<p>A one-liter culture of <em>P. carterae </em>CCMP 645 in late exponential growth phase, grown in F/2 medium, was filtered through a 0.2 um PES membrane under sterile conditions. The filtrate was then initially concentrated down to approximately 25 ml by tangential flow filtration using a Vivaflow 50 cartridge (Sartorius) and further concentrated down to approximately 2 ml using a 30 kDa MWCO AmiconUltra-15 column (Millipore). Aliquots of the concentrate (2-20 ul) were spotted onto 200-mesh formvar/ carbon coated copper electron microscopy grids (Polysciences) and allowed to dry. Grids were then positively stained with filtered (0.2 um) 2% (wt/ vol) uranyl acetate (SPI) in de-ionized water (&gt; 18 &nbsp;milliohm cm-2) for 2 min followed by removal of excess liquid via filter paper and a de-ionized water rinse. Grids were allowed to air-dry and were stored at room temperature prior to analysis. Imaging analysis was performed at the Applied Medical Sciences department at the University of Southern Maine, Portland, ME, USA using an FEI Technai TEM at magnifications 6,000x – 250,000x at 100 kV. Photographs were taken at magnifications between 11,000x and 180,000x. &nbsp;</p>
from Deployment: Bigelow_Martinez_2015-2016 <p>laboratory experiment</p>
Specified by the Principal Investigator(s)
<p><strong>BCO-DMO processing notes:</strong><br />
* metadata information was extracted from information displayed in the image. &nbsp;Extracted information checked by the data manager and the principal investigator.<br />
* original TIF images served along with JPG versions created with IrfanView batch process.<br />
* thumbnails of reduced resolution created with IrfanView batch process for display on the data page.</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
Transmission Electron Microscope (TEM)
Transmission Electron Microscope (TEM)
PI Supplied Instrument Name: Transmission Electron Microscope (TEM) PI Supplied Instrument Description:FEI Technai TEM at magnifications 6,000x – 250,000x at 100 kV Instrument Name: Electron Microscope Instrument Short Name: Instrument Description: Instruments that generate enlarged images of samples using the phenomena of reflection and absorption of electrons behaving as waves. Community Standard Description: http://vocab.nerc.ac.uk/collection/L05/current/LAB07/
Deployment: Bigelow_Martinez_2015-2016
Bigelow_Martinez_2015-2016
lab Bigelow
laboratory
lab Bigelow
laboratory