Dataset: ZooSCAN biovolume to biomass from imaged zooplankton collected during MOCNESS tows during various R/V Atlantic Explorer cruises and small boat deployments in the Sargasso Sea betwen 2016 to 2019

ValidatedFinal no updates expectedDOI: 10.26008/1912/bco-dmo.854077.1Version 1 (2021-06-17)Dataset Type:Cruise Results

Principal Investigator: Leocadio Blanco-Bercial (Bermuda Institute of Ocean Sciences)

Co-Principal Investigator: Amy Maas (Bermuda Institute of Ocean Sciences)

Technician: Hannah Gossner (Bermuda Institute of Ocean Sciences)

BCO-DMO Data Manager: Amber D. York (Woods Hole Oceanographic Institution)

Project: Collaborative Research: Diel physiological rhythms in a tropical oceanic copepod (Zooplankton Diel Rhythm)

Project: Quantifying the drivers of midwater zooplankton community structure (Zooplankton Gradients)

Project: Bermuda Institute of Ocean Sciences Simons Collaboration on Ocean Processes and Ecology (BIOSSCOPE)

Abstract

ZooSCAN biovolume to biomass from the Sargasso Sea including locations in the vicinity of the Bermuda Atlantic Time-series Study (BATS). Samples were collected during MOCNESS tows during R/V Atlantic Explorer cruises between 2016 to 2019 (AE1614, AE1712, AE1830, AE1917, AE1918, AE1931) and a few small boat deployments. These data were published in Maas et al. (2021) as Supplementary Table 1.

Cite Dataset

Methodology: Individual zooplankton of a variety of taxa were individually selected from multiple MOCNESS and Reeve net tows. Organisms were picked from both surface and deep nets and across a range of sizes to represent the full range of potential morphologies. They were imaged on a ZooSCAN ver. 3 at 4,800 dpi (following the methods in: Gorsky et al., 2010, Vandromme et al., 2012). Raw images were then processed in ZooProcess (Gorsky et al., 2010, Vandromme et al., 2012), resulting in a measurement and metadata file. After imaging each individual organism was weighed wet on a Mettler-Toledo XPR microbalance, dried for 3 days in a drying oven at 60 C, and reweighed.

Sampling and analytical procedures: Most samples (all from the MOCNESS) had been preserved in formalin for between 1 and 4 years. Individuals from the Reeve net had been preserved in ethanol or stored at -80C for 1-2 years. All individuals were imaged in DI water at room temperature.

Object_id and imagenames:

Related Datasets may contain the image name which is constructed the same way as the object_id in this dataset except it does not have the additional _# at the end, and the imagename ends in the .tif extension.  This additional number in the object_id is added by the Zooprocess software (Hydroptic, 2016).
e.g.
object_id:       ae1614_m3_n1_d2_a_1_100
image_name: ae1614_m3_n1_d2_a_1.tif

Related Datasets

IsReferencedBy
Dataset: ZooSCAN Images BATS: M3 to M13
Relationship Description: Analysis of ZooScan images is validated by Biovolume:biomass conversion.
Blanco-Bercial, L., Maas, A., Gossner, H. (2021) ZooSCAN images of zooplankton collected during BATS MOCNESS tows during R/V Atlantic Explorer cruises AE1614, AE1712, AE1830, and AE1819 in the vicinity of the Bermuda Atlantic Time-series Study from 2016 to 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-10-07 doi:10.26008/1912/bco-dmo.853440.1
IsReferencedBy
Dataset: ZooSCAN output MOCNESS BATS: M3 to M13
Relationship Description: Analysis of ZooScan output is validated by Biovolume:biomass conversion.
Blanco-Bercial, L., Maas, A., Gossner, H. (2021) ZooSCAN output from of imaged zooplankton collected during BATS MOCNESS tows during R/V Atlantic Explorer cruises AE1614, AE1712, AE1830, and AE1819 in the vicinity of the Bermuda Atlantic Time-series Study from 2016 to 2018. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-10-05 doi:10.26008/1912/bco-dmo.857891.1

Related Publications

Results
Maas, A. E., Gossner, H., Smith, M. J., & Blanco-Bercial, L. (2021). Use of optical imaging datasets to assess biogeochemical contributions of the mesozooplankton. Journal of Plankton Research, 43(3), 475–491. doi:10.1093/plankt/fbab037
Methods
Gorsky, G., Ohman, M. D., Picheral, M., Gasparini, S., Stemmann, L., Romagnan, J.-B., … Prejger, F. (2010). Digital zooplankton image analysis using the ZooScan integrated system. Journal of Plankton Research, 32(3), 285–303. doi:10.1093/plankt/fbp124
Methods
Vandromme, P., Stemmann, L., Garcìa-Comas, C., Berline, L., Sun, X., & Gorsky, G. (2012). Assessing biases in computing size spectra of automatically classified zooplankton from imaging systems: A case study with the ZooScan integrated system. Methods in Oceanography, 1-2, 3–21. doi:10.1016/j.mio.2012.06.001
Software
Hydroptic (2016). ZooSCAN. Available at http://www.hydroptic.com/index.php/public/Page/product_item/ZOOSCAN. Accessed June 17th, 2021.

Blanco-Bercial, L., Maas, A., Gossner, H. (2021) ZooSCAN biovolume to biomass from imaged zooplankton collected during MOCNESS tows during various R/V Atlantic Explorer cruises and small boat deployments in the Sargasso Sea betwen 2016 to 2019. Biological and Chemical Oceanography Data Management Office (BCO-DMO). (Version 1) Version Date 2021-06-17 [if applicable, indicate subset used]. doi:10.26008/1912/bco-dmo.854077.1 [access date]

Terms of Use

This dataset is licensed under Creative Commons Attribution 4.0.


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