http://lod.bco-dmo.org/id/dataset/904204
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
2023-07-11
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
VPR images and log files from cruise RR2004 in the Pacific Sector of the Southern Ocean and cruise TN376 in the South Indian Ocean (Jan 2020 to Feb 2021)
2023-07-11
publication
2023-07-11
revision
BCO-DMO Linked Data URI
2023-07-11
creation
http://lod.bco-dmo.org/id/dataset/904204
William M. Balch
Bigelow Laboratory for Ocean Sciences
principalInvestigator
Nicholas R. Bates
Bermuda Institute of Ocean Sciences
principalInvestigator
Matthew H. Long
University Corporation for Atmospheric Research
principalInvestigator
Dennis J. McGillicuddy
Woods Hole Oceanographic Institution
principalInvestigator
Peter L. Morton
Florida State University
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: (2023) VPR images and log files from cruise RR2004 in the Pacific Sector of the Southern Ocean and cruise TN376 in the South Indian Ocean (Jan 2020 to Feb 2021). Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2023-07-11 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/904204 [access date]
Methods and Sampling: <p>Location:&nbsp;</p>
<p>R/V Thomas G. Thompson cruise&nbsp; TN376: South Indian Ocean<br />
R/V Roger Revelle cruise RR2004: Pacific Sector of the Southern Ocean along 150W|<br />
<br />
Methods &amp; Sampling:</p>
<p>To assess the large microplankton and small mesoplankton community alongside fine-scale measurements of temperature, salinity, and fluorescence, a Video Plankton Recorder II (VPR, from SeaScan Inc.) was towed behind the ship across the shelf break. The VPR consists of a towed body, containing a Seabird Electronics Inc. CTD (SBE 49 FastCat), oxygen sensor (SBE 43), fluorometer (ECO FLNTU-4050), ECO Triplet (ECO BBFL2-123), PAR (photosynthetically active radiation; Biospherical Instruments Inc. QCP-200L), and a synchronized video camera and xenon strobe (Davis et al., 2005). The VPR was towed at 10 knots (5.1 m s-1), undulating between depths as shallow as 5m and as deep as 120m approximately every 6 minutes. This provided a minimum horizontal resolution of 1.8 km throughout the tow.</p>
<p>Description of package contents within the&nbsp;"Data Files" and "Supplemetnal Files" sections:<br />
<br />
VPR data presented in two types: images (tif format, *.tif) and log files for the hydrographic, bio-optical and navigation data (text format, *.combo). The images come in at 30 frames per second and the log files are 1 second averages. So there is not 1-to-1 mapping.</p>
<p>Each VPR tow (vpr1, vpr2, vpr3, etc.) has subdirectories&nbsp;called d### (year day #), then h## (hour), then the roi tifs collected during that hour and the ctd.dat file of corresponding physical data.&nbsp;<br />
<br />
Example relative storage path within a tif image file zip:<br />
RR2004/vpr/rois/vpr1/d362/h23/roi3.8594409700.tif<br />
&lt;cruise_id&gt;/vpr/rois/d&lt;year day #&gt;/h&lt;hour&gt;/roiN.timestamp.tif</p>
<p>ROI naming convention is roiN.timestamp.tif&nbsp; where timestamp is milliseconds since midnight.<br />
Tif file name example:&nbsp;roi0.4565601000.tif</p>
<p>N is the thread number in the processing stream, taking on values 0 through 3.&nbsp; This is a remnant from a prior incarnation of the software, not relevant to science use.&nbsp; Please ignore.</p>
<p>File name format: mmddhhminss.combo where mmddhhminss is VPR tow start date/time.</p>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1736375 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1736375
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1840381 Award URL: https://www.nsf.gov/awardsearch/show-award?AWD_ID=1840381
onGoing
William M. Balch
Bigelow Laboratory for Ocean Sciences
207-315-2567
60 Bigelow Drive
East Boothbay
ME
04544
USA
bbalch@bigelow.org
pointOfContact
Nicholas R. Bates
Bermuda Institute of Ocean Sciences
1-441-297-1880
17 Biological Lane GE 01
St. Georges
Bermuda
nick.bates@bios.edu
pointOfContact
Matthew H. Long
University Corporation for Atmospheric Research
508-289-2798
Department of Marine Chemistry and Geochemistry MS #25, 266 Woods Hole Rd.
Woods Hole
MA
02543
USA
mlong@whoi.edu
pointOfContact
Dennis J. McGillicuddy
Woods Hole Oceanographic Institution
508-289-2683
266 Woods Hole Road Bigelow 209B, Mail Stop 11
Woods Hole
MA
02543
USA
dmcgillicuddy@whoi.edu
pointOfContact
Peter L. Morton
Florida State University
757-375-2904
Eller O&M 609
College Station
TX
77843
USA
pete.morton@tamu.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
Video Plankton Recorder II (VPR II, from SeaScan Inc.)
theme
None, User defined
Video Plankton Recorder
instrument
BCO-DMO Standard Instruments
TN376
RR2004
service
Deployment Activity
South Indian Ocean
Pacific Sector of the Southern Ocean along 150W
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.
Collaborative Research: Biogeochemical and Physical Conditioning of Sub-Antarctic Mode Water in the Southern Ocean
https://osprey.bco-dmo.org/project/738118
Collaborative Research: Biogeochemical and Physical Conditioning of Sub-Antarctic Mode Water in the Southern Ocean
<p><em>NSF Award Abstract:</em><br />
Cold surface water in the southern Indian Ocean sinks to about 500 meters and travels in the dark for thousands of miles before it resurfaces some 40 years later near the equator in the other ocean basins. This major water mass is named the Sub-Antarctic Mode Water (SAMW). Nutrients it contains when it warms and rises into the sunlit subtropical and tropical waters are estimated to fuel up to 75% of the microscopic plant growth there. Before it sinks, the chemical properties of the SAMW are modified by the growth and distinct physiology of two common phytoplankton; diatoms with shells made of silica, and coccolithophores with carbonate shells. Local physical dynamics influence where and how fast these two phytoplankton classes grow. Consequently, differing nutrient and trace chemical fingerprints are established at the point of SAMW formation. This project is an exceptionally detailed field and modeling effort that will document and quantify the remarkable, interconnected processes that chemically connect two important oceanic ecosystems half a world apart. The scientists leading the project will study the complexity of the biological and chemical conditioning of the SAMW and thus provide critical data about the large-scale oceanic controls of the biological carbon pump that removes atmospheric carbon dioxide to the deep ocean over millennial timescales. Scientific impact from this project will stem from significant peer-reviewed publications and improved predictive models. Societal benefits will develop from training of a range of scholars, including high school, undergraduate, and graduate students, as well as technical and post-doctoral participants. A high school teacher and science communication specialist will go to sea with the project and share experiences from the ship with students on shore via social media and scheduled web interactions.</p>
<p>To examine how SAMW formation and subduction controls the productivity of global waters well to the north, two January expeditions to the SE Indian Ocean will identify, track, and study the unique mesoscale eddies that serve as discrete water parcels supporting rich populations of either coccolithophores or diatoms plus their associated microbial communities. The eddies will be tracked with Lagrangian Argo drifters and observations will be made of exactly how SAMW is chemically conditioned (i.e. Si, N, P, Fe, and carbonate chemistry) over time scales of months. Using data obtained on the feedback between ecological processes and nutrient, trace metal, and carbonate chemistry in these eddies and on related transect cruises, the project will have three main goals: (1) determine the rates at which SAMW coccolithophores and diatoms condition the carbonate chemistry plus nutrient and trace metal concentrations, as well as assess taxonomic and physiological diversity in the study area with traditional methods plus next-generation sequence DNA/RNA profiling, (2) explore growth limitations by iron, silicate and/or nitrate in controlling algal assemblages and genetic diversity, and (3) combine these findings with the Ekman- and eddy-driven subduction of SAMW to examine biogeochemical impact on a basin scale, using both observations and global numerical models. A meridional survey from 30 to 60 degrees south latitude will be used to characterize the larger-scale variability of carbonate chemistry, nutrient distributions, productivity, genetics and biomass of various plankton groups as SAMW is subducted and proceeds northward.</p>
Conditioning_SAMW
largerWorkCitation
project
eng; USA
oceans
South Indian Ocean; Pacific Sector of the Southern Ocean along 150W
2023-07-11
0
BCO-DMO catalogue of parameters from VPR images and log files from cruise RR2004 in the Pacific Sector of the Southern Ocean and cruise TN376 in the South Indian Ocean (Jan 2020 to Feb 2021)
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
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
https://osprey.bco-dmo.org/dataset/904204/data/download
download
onLine
dataset
<p>Location:&nbsp;</p>
<p>R/V Thomas G. Thompson cruise&nbsp; TN376: South Indian Ocean<br />
R/V Roger Revelle cruise RR2004: Pacific Sector of the Southern Ocean along 150W|<br />
<br />
Methods &amp; Sampling:</p>
<p>To assess the large microplankton and small mesoplankton community alongside fine-scale measurements of temperature, salinity, and fluorescence, a Video Plankton Recorder II (VPR, from SeaScan Inc.) was towed behind the ship across the shelf break. The VPR consists of a towed body, containing a Seabird Electronics Inc. CTD (SBE 49 FastCat), oxygen sensor (SBE 43), fluorometer (ECO FLNTU-4050), ECO Triplet (ECO BBFL2-123), PAR (photosynthetically active radiation; Biospherical Instruments Inc. QCP-200L), and a synchronized video camera and xenon strobe (Davis et al., 2005). The VPR was towed at 10 knots (5.1 m s-1), undulating between depths as shallow as 5m and as deep as 120m approximately every 6 minutes. This provided a minimum horizontal resolution of 1.8 km throughout the tow.</p>
<p>Description of package contents within the&nbsp;"Data Files" and "Supplemetnal Files" sections:<br />
<br />
VPR data presented in two types: images (tif format, *.tif) and log files for the hydrographic, bio-optical and navigation data (text format, *.combo). The images come in at 30 frames per second and the log files are 1 second averages. So there is not 1-to-1 mapping.</p>
<p>Each VPR tow (vpr1, vpr2, vpr3, etc.) has subdirectories&nbsp;called d### (year day #), then h## (hour), then the roi tifs collected during that hour and the ctd.dat file of corresponding physical data.&nbsp;<br />
<br />
Example relative storage path within a tif image file zip:<br />
RR2004/vpr/rois/vpr1/d362/h23/roi3.8594409700.tif<br />
&lt;cruise_id&gt;/vpr/rois/d&lt;year day #&gt;/h&lt;hour&gt;/roiN.timestamp.tif</p>
<p>ROI naming convention is roiN.timestamp.tif&nbsp; where timestamp is milliseconds since midnight.<br />
Tif file name example:&nbsp;roi0.4565601000.tif</p>
<p>N is the thread number in the processing stream, taking on values 0 through 3.&nbsp; This is a remnant from a prior incarnation of the software, not relevant to science use.&nbsp; Please ignore.</p>
<p>File name format: mmddhhminss.combo where mmddhhminss is VPR tow start date/time.</p>
Specified by the Principal Investigator(s)
<p>Calibrations:<br />
* column numbers are relative to .combo files.&nbsp;<br />
<br />
-------------<br />
Column 11 fluorescence (ug / L)<br />
TN376: fluo=6*((fluo/1000)-0.068); %SN FLNTURD-4050 Cal 2015-07-27<br />
RR2004: fluo=6*(fluo/1000-0.073);%SN FLNTURTD-4050 Cal 2020-05-15<br />
-------------<br />
Column 12 PAR<br />
light=sqrt(counts)*0.02;<br />
-------------<br />
Column 13 turbidity (NTU)<br />
TN376: obs=2*(obs/1000-0.067); %SN FLNTURD-4050 Cal 2015-07-27<br />
RR2004: obs=2*(obs/1000-0.069);%SN FLNTURTD-4050 Cal 2020-05-15<br />
-------------<br />
Column 18 Eco-triplet Bb<br />
TN376: Bb=(lambda-66)*0.000007738;%TN376<br />
RR2004 Bb=4.098e-06*(lambda-68);%SN BBFL2-123 Cal 2020-05-15<br />
-------------<br />
Column 20 Eco-triplet fluorescence<br />
TN376: ecochl=(ecochl_counts-67)*0.0119;%%TN376<br />
RR2004: ecochl=0.0109*(ecochl_counts-65);%SN BBFL2-123 Cal 2020-05-06<br />
-------------<br />
Column 22 Eco-triplet CDOM<br />
TN376: cdom=(cdom_counts-61)*0.2207;%TN376<br />
RR2004: cdom=0.1536*(cdom_counts-69);%SN BBFL2-123 Cal 2020-05-06</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
Video Plankton Recorder II (VPR II, from SeaScan Inc.)
Video Plankton Recorder II (VPR II, from SeaScan Inc.)
PI Supplied Instrument Name: Video Plankton Recorder II (VPR II, from SeaScan Inc.) PI Supplied Instrument Description:Environmental data (temperature, salinity, turbidity, fluorescence, irradiance, dissolved oxygen) collected by sensors mounted on the Video Plankton Recorder (VPR). Instrument Name: Video Plankton Recorder Instrument Short Name:VPR Instrument Description: The Video Plankton Recorder (VPR) is a video-microscope system used for imaging plankton and other particulate matter in the size range from a few micrometers to several centimeters. The VPR is essentially an underwater microscope. It consists of four video cameras (with magnifying optics) synchronized at 60 fields per second (fps) to a red-filtered 80 W xenon strobe (pulse duration = 1 microsecond). The current lens on each camera can be adjusted to provide a field of view between 5 mm and 10 cm. Use of higher magnification lenses is currently being explored for viewing protozoans (less than 1 micrometer resolution). The four cameras are set for concentric viewing fields so that a range of up to four magnifications can be viewed simultaneously, allowing a wide size range of plankton to be sampled. Depth of field is adjusted by the lens aperture setting, and the volume sampled in each video field ranges from about 1 ml to 1 liter, depending on lens settings. The cameras have been configured for stereoscopic viewing as well.A strobe on the other arm illuminates the imaged volume and flashes 60 times per second, producing 60 images per second of the particles and plankton in the water. The images are then saved internally on a computer hard disk and later plotted.
Deployment: Most commonly, the VPR is mounted in a frame and lowered into the water from the stern of the ship. Sometimes, a CTD also is mounted next to the VPR to collect depth, temperature, and salinity information at the same time as each video image. The instrument is lowered down through the water to a maximum depth of 350 meters to generate a profile of plankton/particle abundance and taxon group along with temperature and salinity. In addition to the towed configuration for mapping plankton distributions, it is possible to deploy the VPR in a fixed position (on a mooring) for viewing plankton swimming behaviors in two or three dimensions. The VPR instrument system has been used in both configurations, and deployment on ROVs has been proposed.
This definition was taken from the WHOI Ocean Instruments Web site and from a US GLOBEC Newsletter.
Cruise: TN376
TN376
R/V Thomas G. Thompson
Community Standard Description
International Council for the Exploration of the Sea
R/V Thomas G. Thompson
vessel
TN376
William M. Balch
Cruise: RR2004
RR2004
R/V Roger Revelle
Community Standard Description
International Council for the Exploration of the Sea
R/V Roger Revelle
vessel
RR2004
William M. Balch
R/V Thomas G. Thompson
Community Standard Description
International Council for the Exploration of the Sea
R/V Thomas G. Thompson
vessel
R/V Roger Revelle
Community Standard Description
International Council for the Exploration of the Sea
R/V Roger Revelle
vessel