http://lod.bco-dmo.org/id/dataset/865757
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
2021-12-03
ISO 19115-2 Geographic Information - Metadata - Part 2: Extensions for Imagery and Gridded Data
ISO 19115-2:2009(E)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tows during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011 and R/V New Horizon cruise NH1208 in the northeast Pacific in 2012 and imaged in 2021-2022
2021-12-03
publication
2021-12-03
revision
BCO-DMO Linked Data URI
2021-12-03
creation
http://lod.bco-dmo.org/id/dataset/865757
Leocadio Blanco-Bercial
Bermuda Institute of Ocean Sciences
principalInvestigator
Amy Maas
Bermuda Institute of 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: Blanco-Bercial, L., Maas, A., Gossner, H. (2021) ZooSCAN images of zooplankton collected during OAPS MOCNESS tows during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011 and R/V New Horizon cruise NH1208 in the northeast Pacific in 2012 and imaged in 2021-2022. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-12-03 [if applicable, indicate subset used]. http://lod.bco-dmo.org/id/dataset/865757 [access date]
Methods and Sampling: <div>
<p><strong>Location:&nbsp;</strong> 35 and 50 degrees North in the northwest Atlantic and northeast Pacific</p>
<p><strong>Methodology: </strong>To obtain samples, a 1 m Multiple Opening/Closing Net and Environmental Sensing System &nbsp;(MOCNESS; Wiebe et al., 1985) equipped with 150 m nets was deployed during the mid-day and mid-night on cruises carried out as described in &nbsp;<a href="https://www.bco-dmo.org/dataset/3546"><u>https://www.bco-dmo.org/dataset/3546</u></a>&nbsp;. Briefly, sampling was at consistent intervals including 1000-800, 800-600, 600-400, 400-200, 200-100, 100-50, 50-25, 25-0m at day/night stations from 35 to 50 N in the northwest Atlantic in 2011, and from 35 and 50N along CLIVAR line P17N &nbsp;in 2012.</p>
<p>Upon retrieval, the catch from each of the eight discrete nets were divided into splits. One-half of a sample was preserved in 95% ethanol, &nbsp;was preserved in 5% buffered formalin, and was used for live viewing and picking, and then preserved in 70% ethanol.</p>
<p>A representative subsample of the formalin-preserved zooplankton community from each net were imaged using a ZooSCAN ver. 3 at 4,800 dpi (following the methods in: Gorsky et al., 2010, Vandromme et al., 2012 as detailed in Maas et al. 2021). In order to better represent all size classes in the images, the original sample was divided into three size categories. All individuals larger than 2 cm were selected by eye and scanned separately from all the others. The remainder of the sample was sieved through a 1-mm mesh sieve, and both size fractions were individually scanned. From these smaller size fractions, at least 1500 particles were scanned after subsampling using a Motoda splitter (Motoda, 1959), requiring generation of two separate scans for both size classes. This resulted in a total of five images per net.</p>
</div>
<div>
<p><span style="font-size:13px"><strong>Image names</strong><br />
<br />
Image names include:</span><br />
cruise#_mocnessID_net#_sizefraction_ and _a|b if a replicate and end in _1.tif<br />
<br />
<span style="font-size:13px">Multiple images of the same size fraction were sometimes taken to obtain a sufficient number of particles. These replicates are named a or b. If there is no replicate they don’t have a letter in the image name. An a and b scan were always done for size classes d2 and d3.&nbsp; This was important because the split size is for the sum of a+b (e.g. if a is ¼ and b is ¼, the acq_sub_part will be 0.5).<br />
<br />
Example of image names:</span></p>
<p><span style="font-size:13px">ae1830_m13_n4_d3_a_1.tif&nbsp; [a replicate]<br />
ae1830_m13_n4_d3_b_1.tif&nbsp;&nbsp;</span>[a replicate]<br />
<span style="font-size:13px">ae1830_m13_n5_d1_1.tif&nbsp; &nbsp; &nbsp; </span>[no&nbsp;replicate]<br />
<br />
Related Datasets may contain the "object_id" (the particle/organism id) which is constructed the same way as the image name except it as an additional _#&nbsp;at the end.&nbsp; This additional number in the object_id is added by the Zooprocess software (Hydroptic, 2016).<br />
e.g.<br />
object_id:&nbsp; &nbsp; &nbsp; &nbsp;ae1614_m3_n1_d2_a_1<strong>_100</strong><br />
image_name: ae1614_m3_n1_d2_a_1.tif</p>
<p><span style="font-size:13px"><strong>Problem report</strong>: None</span></p>
</div>
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1041068 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1041068
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1829318 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1829318
Funding provided by NSF Division of Ocean Sciences (NSF OCE) Award Number: OCE-1948162 Award URL: http://www.nsf.gov/awardsearch/showAward.do?AwardNumber=1948162
onGoing
Leocadio Blanco-Bercial
Bermuda Institute of Ocean Sciences
leocadio@asu.edu
pointOfContact
Amy Maas
Bermuda Institute of Ocean Sciences
508-289-2462
17 Biological Station Ferry Reach
St.George's GE 01
Bermuda
amy.maas@bios.edu
pointOfContact
asNeeded
Dataset Version: 1
Unknown
1m MOCNESS
ZooSCAN ver. 3
theme
None, User defined
MOCNESS
ZooSCAN
instrument
BCO-DMO Standard Instruments
OC473
NH1208
service
Deployment Activity
western North Atlantic, 35-50 degrees North
transect between 35 and 50N along CLIVAR line P17N
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.
Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES): Ocean Acidification (formerly CRI-OA)
https://www.nsf.gov/funding/pgm_summ.jsp?pims_id=503477
Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES): Ocean Acidification (formerly CRI-OA)
NSF Climate Research Investment (CRI) activities that were initiated in 2010 are now included under Science, Engineering and Education for Sustainability NSF-Wide Investment (SEES). SEES is a portfolio of activities that highlights NSF's unique role in helping society address the challenge(s) of achieving sustainability. Detailed information about the SEES program is available from NSF (https://www.nsf.gov/funding/pgm_summ.jsp?pims_id=504707).
In recognition of the need for basic research concerning the nature, extent and impact of ocean acidification on oceanic environments in the past, present and future, the goal of the SEES: OA program is to understand (a) the chemistry and physical chemistry of ocean acidification; (b) how ocean acidification interacts with processes at the organismal level; and (c) how the earth system history informs our understanding of the effects of ocean acidification on the present day and future ocean.
Solicitations issued under this program:NSF 10-530, FY 2010-FY2011NSF 12-500, FY 2012NSF 12-600, FY 2013NSF 13-586, FY 2014
NSF 13-586 was the final solicitation that will be released for this program.
PI Meetings:1st U.S. Ocean Acidification PI Meeting(March 22-24, 2011, Woods Hole, MA)2nd U.S. Ocean Acidification PI Meeting(Sept. 18-20, 2013, Washington, DC)
3rd U.S. Ocean Acidification PI Meeting (June 9-11, 2015, Woods Hole, MA – Tentative)
NSF media releases for the Ocean Acidification Program:
Press Release 10-186 NSF Awards Grants to Study Effects of Ocean Acidification
Discovery Blue Mussels "Hang On" Along Rocky Shores: For How Long?
Discovery nsf.gov - National Science Foundation (NSF) Discoveries - Trouble in Paradise: Ocean Acidification This Way Comes - US National Science Foundation (NSF)
Press Release 12-179 nsf.gov - National Science Foundation (NSF) News - Ocean Acidification: Finding New Answers Through National Science Foundation Research Grants - US National Science Foundation (NSF)
Press Release 13-102 World Oceans Month Brings Mixed News for Oysters
Press Release 13-108 nsf.gov - National Science Foundation (NSF) News - Natural Underwater Springs Show How Coral Reefs Respond to Ocean Acidification - US National Science Foundation (NSF)
Press Release 13-148 Ocean acidification: Making new discoveries through National Science Foundation research grants
Press Release 13-148 - Video nsf.gov - News - Video - NSF Ocean Sciences Division Director David Conover answers questions about ocean acidification. - US National Science Foundation (NSF)
Press Release 14-010 nsf.gov - National Science Foundation (NSF) News - Palau's coral reefs surprisingly resistant to ocean acidification - US National Science Foundation (NSF)
Press Release 14-116 nsf.gov - National Science Foundation (NSF) News - Ocean Acidification: NSF awards $11.4 million in new grants to study effects on marine ecosystems - US National Science Foundation (NSF)
SEES-OA
largerWorkCitation
program
Ocean Carbon and Biogeochemistry
http://us-ocb.org/
Ocean Carbon and Biogeochemistry
The Ocean Carbon and Biogeochemistry (OCB) program focuses on the ocean's role as a component of the global Earth system, bringing together research in geochemistry, ocean physics, and ecology that inform on and advance our understanding of ocean biogeochemistry. The overall program goals are to promote, plan, and coordinate collaborative, multidisciplinary research opportunities within the U.S. research community and with international partners. Important OCB-related activities currently include: the Ocean Carbon and Climate Change (OCCC) and the North American Carbon Program (NACP); U.S. contributions to IMBER, SOLAS, CARBOOCEAN; and numerous U.S. single-investigator and medium-size research projects funded by U.S. federal agencies including NASA, NOAA, and NSF.
The scientific mission of OCB is to study the evolving role of the ocean in the global carbon cycle, in the face of environmental variability and change through studies of marine biogeochemical cycles and associated ecosystems.
The overarching OCB science themes include improved understanding and prediction of: 1) oceanic uptake and release of atmospheric CO2 and other greenhouse gases and 2) environmental sensitivities of biogeochemical cycles, marine ecosystems, and interactions between the two.
The OCB Research Priorities (updated January 2012) include: ocean acidification; terrestrial/coastal carbon fluxes and exchanges; climate sensitivities of and change in ecosystem structure and associated impacts on biogeochemical cycles; mesopelagic ecological and biogeochemical interactions; benthic-pelagic feedbacks on biogeochemical cycles; ocean carbon uptake and storage; and expanding low-oxygen conditions in the coastal and open oceans.
OCB
largerWorkCitation
program
Horizontal and Vertical Distribution of Thecosome Pteropods in Relation to Carbonate Chemistry in the Northwest Atlantic and Northeast Pacific
https://www.bco-dmo.org/project/2154
Horizontal and Vertical Distribution of Thecosome Pteropods in Relation to Carbonate Chemistry in the Northwest Atlantic and Northeast Pacific
<p>Modified version of the NSF award abstract:<br />
The impact of ocean acidification on marine ecosystems represents a vital question facing both marine scientists and managers of ocean resources. Thecosome pteropods are a group of calcareous planktonic molluscs widely distributed in coastal and open ocean pelagic ecosystems of the world¡¦s oceans. These animals secrete an aragonite shell, and thus are highly sensitive to ocean acidification due to the water column's changing carbonate chemistry, and particularly the shoaling of the aragonite compensation depth at which seawater becomes corrosive to aragonite. In many regions, however, relatively little is known about the abundance, distribution, vertical migratory behavior, and ecological importance of pteropods. Assessing the likely ecosystem consequences of changes in pteropod dynamics resulting from ocean acidification will require a detailed understanding of pteropod distribution and abundance relative to changing aragonite saturation in the water column.</p>
<p>The primary objective of this project is to quantify the distribution, abundance, species composition, shell condition, and vertical migratory behavior of oceanic thecosome pteropods in the northwest Atlantic and northeast Pacific, and correlate these quantities to hydrography and concurrent measurements of carbonate chemistry, including vertical and horizontal distributions of aragonite saturation. In particular, the project will capitalize on present-day variability in the depth distribution of aragonite saturation levels within and between the Atlantic and Pacific Oceans as a "natural experiment" to address the hypotheses that pteropod vertical distribution, species composition, and abundance vary as the compensation depth becomes shallower. Secondary objectives are to develop acoustic protocols for the remote quantification of pteropod abundance for future integration into ocean acidification monitoring networks, and to characterize carbonate chemistry and nutrients along portions of two WOCE/CLIVAR Repeat Hydrography transects (A20 in the Atlantic and P17N in the Pacific) to identify decadal-scale changes in the carbonate system. These hypotheses and objectives will be addressed through two cruises along survey transects between 35 and 50 degrees North in the northwest Atlantic and northeast Pacific involving a combination of station-work and underway measurements, and a comprehensive array of instruments, including acoustic, optical, towed net, hydrographic, and carbonate chemistry sensors and sampling systems.</p>
<p>This highly inter-disciplinary project, combines expertise in zooplankton ecology, acoustics, and marine chemistry. The proposed work will result in a detailed baseline understanding of variability in the horizontal and vertical distribution, as well as species composition, of thecosome pteropods in the northwest Atlantic and northeast Pacific, making a key contribution to zooplankton ecology generally. In addition, by quantifying the response to current spatial variability within and between the Atlantic and Pacific Oceans, the project will provide important information on the likely response of pteropod distribution to future changes in the vertical distribution of aragonite saturation levels, a necessary component in modeling the impacts of ocean acidification on marine ecosystem function, services, and resources.</p>
<p>Ocean acidification is increasingly appreciated as an urgent societal concern. Thecosome pteropods are key prey for a variety of commercially-exploited fish species, and the improved understanding the PIs seek of pteropod distribution and likely response to changing water column carbonate chemistry will have important implications for our understanding of potential effects of ocean acidification on marine resources.<br />
</p>
OAPS
largerWorkCitation
project
Collaborative Research: Diel physiological rhythms in a tropical oceanic copepod
https://www.bco-dmo.org/project/764114
Collaborative Research: Diel physiological rhythms in a tropical oceanic copepod
<p><em>NSF Award Abstract:</em><br />
The daily vertical migration (DMV) of zooplankton and fish across hundreds of meters between shallow and deep waters is a predominant pattern in pelagic ecosystems. This migration has consequences for biogeochemical cycling as it moves a substantial portion of fixed carbon and nitrogen (an estimated 15 to 40 % of the total global organic export) from the surface directly to depth where it feeds the midwater food chain and sequesters nutrients away from atmospheric mixing. Estimates and predictions of these fluxes are, however, poorly understood at present. New observations have shown that one source of uncertainty is due to the assumption that metabolic rates and processes do not vary over the course of the day, except based on changes in temperature and oxygen availability. Rates are, however, also driven by differences in feeding, swimming behavior, and underlying circadian cycles. The objective of this project is to improve the ability of scientists to understand and predict zooplankton contributions to the movement of carbon and nitrogen in the ocean by detailing daily changes in physiological processes of these organisms. By producing a set of respiration and excretion measurements over a daily time series, paired with simultaneously collected gene and protein expression patterns for an abundant vertically migratory species, the investigators will provide unprecedented and predictive insight into how changes in the environment affect the contribution of zooplankton to biogeochemical fluxes. The sampling design of the project will advance discovery and understanding by providing hands-on training opportunities to at least two undergraduate researchers. The project will broaden dissemination of the research via development of an educational module, focusing on rhythms in the ocean. The module will initially be piloted with the Bermuda Institute of Ocean Sciences (BIOS) summer camp students and then disseminated through the BIOS Explorer program, the Teacher Resources Page on the BIOS website, and published in a peer-reviewed educational journal.</p>
<p>This project will characterize the metabolic consequences of daily physiological rhythms and DVM for a model zooplankton species, the abundant subtropical copepod Pleuromamma xiphias. Flux processes (oxygen consumption, carbon dioxide production, production of ammonium and fecal pellet production) will be interrogated using directed experiments testing the effects of temperature, feeding and circadian cycle. Circadian cycling will further be examined using transcriptomic and proteomic profiling. These experiments will be related to field samples taken at 6-h intervals over the course of the diel migration using an integrated suite of molecular and organismal metrics. Combined organismal, transcriptomic and proteomic profiles will provide an understanding of which metabolic pathways and associated flux products vary in relation to particular environmental variables (food, light cycle, temperature). Diel variation in metabolic rates will also be assessed across seasons and species using other important migratory groups (pteropod, euphausiid, and another copepod). The metabolic data will then be contextualized with abundance estimates from archived depth-stratified tows to allow scaling to community-level patterns and will be used to improve calculations of zooplankton contribution to particulate organic carbon, nitrogen and respiratory active flux. The results of this study will both improve our flux estimates and provide predictive insight into how various environmental variables influence the underlying physiological pathways generating carbon and nitrogen flux.</p>
<p><strong>Cruise reports are available from the completed cruises:</strong><br /><a href="https://www.bco-dmo.org/deployment/764871" target="_blank">SD031019</a><br /><a href="https://www.bco-dmo.org/deployment/772516" target="_blank">AE1910</a><br /><a href="https://www.bco-dmo.org/deployment/781440" target="_blank">AE1918</a></p>
Zooplankton Diel Rhythm
largerWorkCitation
project
Quantifying the drivers of midwater zooplankton community structure
https://www.nsf.gov/awardsearch/showAward?AWD_ID=1948162
Quantifying the drivers of midwater zooplankton community structure
<p>NSF Award Abstract: </p>
<p>Processes in the midwater region below 200 m depth, also known as the twilight zone, represent a major unknown for the biology and chemistry of the ocean. Studies of animals drifting in the oceans, known as zooplankton, are scarce due to the difficulty and associated time and costs of sampling deep waters. The advent of automated image analysis and genetic tools is leading to a rapid increase in our knowledge of the diversity, abundances and size distribution of communities in shallow waters. However, our understanding of the deeper layers of the ocean is still in its infancy, and there are few studies that combine these three facets of the ecology of the zooplankton. The objective of this project is to leverage existing samples, obtained from previously NSF-funded research in the North Pacific and North Atlantic, to study how the abundances, diversity, and size distribution of zooplankton in the midwater vary with latitude and environmental factors. Automated image analyses provide information on abundance and size, and genetic analyses give unprecedented data on the diversity of the midwater community for the North Atlantic and the North Pacific, from subtropical to subarctic environments. This project provides high quality hands-on training opportunities for at least two undergraduate researchers and generates material for undergraduate and graduate courses. Two workshops train educators on the classroom use of the NSF-funded Biological and Chemical Oceanography Data Management Office (BCO-DMO) open access oceanographic data.</p>
<p>Recent advances in image analysis and metabarcoding of zooplankton communities via new data tools are an opportunity to generate quantitative and predictive relationships between environmental drivers and zooplankton diversity, abundances and size distribution. While this information is available for plankton in epipelagic regions, the focus of this study is on midwater communities, which remain poorly characterized. Obtaining these data is the first step towards a quantitative analysis that assesses the impact of the midwater community on biogeochemical cycles. The project uses archived samples from two cruises conducted in the N. Atlantic and N. Pacific to test hypotheses about how temperature, midwater hypoxia, primary productivity and biogeographic province shape the size class structure, biodiversity and behavior (diurnal vertical migration) of zooplankton communities. These newly-generated image and metabarcoding datasets of the mesozooplankton community from 0-1000 m are cross-comparable with other ocean regions. These data describe how migratory and midwater resident zooplankton communities are structured by environmental variables and demonstrate how this influences their biogeochemical contributions (specifically active flux and midwater attenuation of flux). Data tools generated for the image analysis in combination with metabarcoding has broad application in plankton ecology and allows metanalysis of other datasets. The project is complementary to ongoing national and international projects that seek to describe the function and structure of the midwater. In contrast to existing modeling and process projects, this project covers a moderately large geographic area and thus provides a strong comparative foundation for broader community-wide assessment of the function of zooplankton in the twilight zone.</p>
<p>This award reflects NSF's statutory mission and has been deemed worthy of support through evaluation using the Foundation's intellectual merit and broader impacts review criteria.</p>
Zooplankton Gradients
largerWorkCitation
project
eng; USA
oceans
western North Atlantic, 35-50 degrees North; transect between 35 and 50N along CLIVAR line P17N
-144.737
-41.7813
33.5052
50.0913
2011-08-13
2012-09-14
From projects that focused on the following 3 locations: 1. 35 and 50 degrees North in the northwest Atlantic and northeast Pacific 2. Bermuda 3. North Atlantic and North Pacific
0
BCO-DMO catalogue of parameters from ZooSCAN images of zooplankton collected during OAPS MOCNESS tows during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011 and R/V New Horizon cruise NH1208 in the northeast Pacific in 2012 and imaged in 2021-2022
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
71810954535
ZooSCAN images Cruise OC473 (mocness_id: m7)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m7 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
71621382017
ZooSCAN images Cruise OC473 (mocness_id: m6)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m6 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
62837535110
ZooSCAN images Cruise OC473 (mocness_id: m5)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m5 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
71748880479
ZooSCAN images Cruise OC473 (mocness_id: m4)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m4 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
72203992655
ZooSCAN images Cruise OC473 (mocness_id: m17)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m17 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
72235406951
ZooSCAN images Cruise OC473 (mocness_id: m16)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m16 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
72128861765
ZooSCAN images Cruise OC473 (mocness_id: m13)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m13 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
72206223962
ZooSCAN images Cruise OC473 (mocness_id: m12)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m12 during R/V Oceanus cruise OC473 in the northwest Atlantic in 2011. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
72123814670
ZooSCAN images Cruise NH1208 (mocness_id: m9)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m9 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
71894728414
ZooSCAN images Cruise NH1208 (mocness_id: m8)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m8 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
71815304763
ZooSCAN images Cruise NH1208 (mocness_id: m7)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m7 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
68323435063
ZooSCAN images Cruise NH1208 (mocness_id: m26)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m26 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
68412978669
ZooSCAN images Cruise NH1208 (mocness_id: m25)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m25 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
64821679622
ZooSCAN images Cruise NH1208 (mocness_id: m10)
ZooSCAN images of zooplankton collected during OAPS MOCNESS tow m10 during R/V New Horizon cruise NH1208 in the northeast Pacific in 2012. Images from this tow were bundled and compressed in a tar.gz file bundle.
download
https://www.bco-dmo.org/dataset/865757/data/download
download
onLine
dataset
<div>
<p><strong>Location:&nbsp;</strong> 35 and 50 degrees North in the northwest Atlantic and northeast Pacific</p>
<p><strong>Methodology: </strong>To obtain samples, a 1 m Multiple Opening/Closing Net and Environmental Sensing System &nbsp;(MOCNESS; Wiebe et al., 1985) equipped with 150 m nets was deployed during the mid-day and mid-night on cruises carried out as described in &nbsp;<a href="https://www.bco-dmo.org/dataset/3546"><u>https://www.bco-dmo.org/dataset/3546</u></a>&nbsp;. Briefly, sampling was at consistent intervals including 1000-800, 800-600, 600-400, 400-200, 200-100, 100-50, 50-25, 25-0m at day/night stations from 35 to 50 N in the northwest Atlantic in 2011, and from 35 and 50N along CLIVAR line P17N &nbsp;in 2012.</p>
<p>Upon retrieval, the catch from each of the eight discrete nets were divided into splits. One-half of a sample was preserved in 95% ethanol, &nbsp;was preserved in 5% buffered formalin, and was used for live viewing and picking, and then preserved in 70% ethanol.</p>
<p>A representative subsample of the formalin-preserved zooplankton community from each net were imaged using a ZooSCAN ver. 3 at 4,800 dpi (following the methods in: Gorsky et al., 2010, Vandromme et al., 2012 as detailed in Maas et al. 2021). In order to better represent all size classes in the images, the original sample was divided into three size categories. All individuals larger than 2 cm were selected by eye and scanned separately from all the others. The remainder of the sample was sieved through a 1-mm mesh sieve, and both size fractions were individually scanned. From these smaller size fractions, at least 1500 particles were scanned after subsampling using a Motoda splitter (Motoda, 1959), requiring generation of two separate scans for both size classes. This resulted in a total of five images per net.</p>
</div>
<div>
<p><span style="font-size:13px"><strong>Image names</strong><br />
<br />
Image names include:</span><br />
cruise#_mocnessID_net#_sizefraction_ and _a|b if a replicate and end in _1.tif<br />
<br />
<span style="font-size:13px">Multiple images of the same size fraction were sometimes taken to obtain a sufficient number of particles. These replicates are named a or b. If there is no replicate they don’t have a letter in the image name. An a and b scan were always done for size classes d2 and d3.&nbsp; This was important because the split size is for the sum of a+b (e.g. if a is ¼ and b is ¼, the acq_sub_part will be 0.5).<br />
<br />
Example of image names:</span></p>
<p><span style="font-size:13px">ae1830_m13_n4_d3_a_1.tif&nbsp; [a replicate]<br />
ae1830_m13_n4_d3_b_1.tif&nbsp;&nbsp;</span>[a replicate]<br />
<span style="font-size:13px">ae1830_m13_n5_d1_1.tif&nbsp; &nbsp; &nbsp; </span>[no&nbsp;replicate]<br />
<br />
Related Datasets may contain the "object_id" (the particle/organism id) which is constructed the same way as the image name except it as an additional _#&nbsp;at the end.&nbsp; This additional number in the object_id is added by the Zooprocess software (Hydroptic, 2016).<br />
e.g.<br />
object_id:&nbsp; &nbsp; &nbsp; &nbsp;ae1614_m3_n1_d2_a_1<strong>_100</strong><br />
image_name: ae1614_m3_n1_d2_a_1.tif</p>
<p><span style="font-size:13px"><strong>Problem report</strong>: None</span></p>
</div>
Specified by the Principal Investigator(s)
<p>BCO-DMO Data Manager Processing Notes (Version 1):<br />
* Images bundled for download in the Data Files section in .tar.gz bundles.<br />
* Image access&nbsp;removed and restricted upon request.&nbsp; Previous links to the .tar.gz bundles will show "Internal Server Error".&nbsp; Access will be restored upon the release date.<br />
* date format in image metadata file changed from %m/%d/%y (e.g. 9/2/12) to ISO 8601 format (e.g. 2012-09-02)</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
1m MOCNESS
1m MOCNESS
PI Supplied Instrument Name: 1m MOCNESS Instrument Name: MOCNESS Instrument Short Name:MOCNESS Instrument Description: The Multiple Opening/Closing Net and Environmental Sensing System or MOCNESS is a family of net systems based on the Tucker Trawl principle. There are currently 8 different sizes of MOCNESS in existence which are designed for capture of different size ranges of zooplankton and micro-nekton Each system is designated according to the size of the net mouth opening and in two cases, the number of nets it carries. The original MOCNESS (Wiebe et al, 1976) was a redesigned and improved version of a system described by Frost and McCrone (1974).(from MOCNESS manual) This designation is used when the specific type of MOCNESS (number and size of nets) was not specified by the contributing investigator. Community Standard Description: http://vocab.nerc.ac.uk/collection/L22/current/NETT0097/
ZooSCAN ver. 3
ZooSCAN ver. 3
PI Supplied Instrument Name: ZooSCAN ver. 3 PI Supplied Instrument Description:http://www.hydroptic.com/index.php/public/Page/product_item/ZOOSCAN Instrument Name: ZooSCAN Instrument Short Name: Instrument Description: Description excerpt from Hydroptic website
http://www.hydroptic.com/index.php/public/Page/product_item/ZOOSCAN
The ZooSCAN (CNRS patent) system makes use of scanner technology with custom lighting and a watertight scanning chamber into which liquid zooplankton samples can be placed. The scanner recovers a high-resolution, digitial image and the sample can be recovered without damage. These digital images can then be investigated by computer processing. While the resolution of the digitized zooplankton images is lower than the image obtained using a binocular microscope this technique has proved to be more than adequate for large sample sets. Identification of species is done by automatic comparison of the image (vignette) of each individual animal in the scanned image with a library data set which may be built by the investigator for each individual survey or imported from a previous survey. The latest machine learning algorithm allows high recognition levels even if we recommend complementary manual sorting to achieve a high number of taxonomic groups.
Cruise: OC473
OC473
R/V Oceanus
Community Standard Description
International Council for the Exploration of the Sea
R/V Oceanus
vessel
OC473
Gareth Lawson
Woods Hole Oceanographic Institution
http://bcodata.whoi.edu/OA_Pteropods/OC473_Cruise_Report_FINAL.pdf
Report describing OC473
Cruise: NH1208
NH1208
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel
NH1208
Gareth Lawson
Woods Hole Oceanographic Institution
http://data.bco-dmo.org/OA_Pteropods/NH1208_Cruise_Report_FINAL.pdf
Report describing NH1208
R/V Oceanus
Community Standard Description
International Council for the Exploration of the Sea
R/V Oceanus
vessel
R/V New Horizon
Community Standard Description
International Council for the Exploration of the Sea
R/V New Horizon
vessel