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A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses

A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses
Video and image data are regularly used in the field of benthic ecology to document biodiversity. However, their use is subject to a number of challenges, principally the identification of taxa within the images without associated physical specimens. The challenge of applying traditional taxonomic keys to the identification of fauna from images has led to the development of personal, group, or institution level reference image catalogues of operational taxonomic units (OTUs) or morphospecies. Lack of standardisation among these reference catalogues has led to problems with observer bias and the inability to combine datasets across studies. In addition, lack of a common reference standard is stifling efforts in the application of artificial intelligence to taxon identification. Using the North Atlantic deep sea as a case study, we propose a database structure to facilitate standardisation of morphospecies image catalogues between research groups and support future use in multiple front-end applications. We also propose a framework for coordination of international efforts to develop reference guides for the identification of marine species from images. The proposed structure maps to the Darwin Core standard to allow integration with existing databases. We suggest a management framework where high-level taxonomic groups are curated by a regional team, consisting of both end users and taxonomic experts. We identify a mechanism by which overall quality of data within a common reference guide could be raised over the next decade. Finally, we discuss the role of a common reference standard in advancing marine ecology and supporting sustainable use of this ecosystem.
1932-6203
Howell, Kerry L.
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Davies, Jaime S.
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Allcock, A. Louise
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Braga-Henriques, Andreia
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Buhl-Mortensen, Pål
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Carreiro-Silva, Marina
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Dominguez-Carrió, Carlos
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Durden, Jennifer M.
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Foster, Nicola L.
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Game, Chloe A.
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Horton, Tammy
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Hosking, Brett
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Jones, Daniel O. B.
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Mah, Christopher
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Menot, Lenaick
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Pearman, Tabitha R. R.
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Ross, Rebecca E.
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Ruhl, Henry A.
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Saeedi, Hanieh
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Stefanoudis, Paris V.
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Taranto, Gerald H.
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Thompson, Michael B.
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Vad, Johanne
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Victorero, Lissette
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Vieira, Rui P.
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Woodall, Lucy C.
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Wagner, Daniel
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Lecours, Vincent
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Howell, Kerry L.
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Allcock, A. Louise
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Buhl-Mortensen, Pål
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Menot, Lenaick
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Morato, Telmo
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Ross, Rebecca E.
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Ruhl, Henry A.
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Saeedi, Hanieh
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Taranto, Gerald H.
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Thompson, Michael B.
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Taylor, James R.
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Tyler, Paul
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Vad, Johanne
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Vieira, Rui P.
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Woodall, Lucy C.
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Xavier, Joana R.
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Wagner, Daniel
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Lecours, Vincent
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Howell, Kerry L., Davies, Jaime S., Allcock, A. Louise, Braga-Henriques, Andreia, Buhl-Mortensen, Pål, Carreiro-Silva, Marina, Dominguez-Carrió, Carlos, Durden, Jennifer M., Foster, Nicola L., Game, Chloe A., Hitchin, Becky, Horton, Tammy, Hosking, Brett, Jones, Daniel O. B., Mah, Christopher, Laguionie Marchais, Claire, Menot, Lenaick, Morato, Telmo, Pearman, Tabitha R. R., Piechaud, Nils, Ross, Rebecca E., Ruhl, Henry A., Saeedi, Hanieh, Stefanoudis, Paris V., Taranto, Gerald H., Thompson, Michael B., Taylor, James R., Tyler, Paul, Vad, Johanne, Victorero, Lissette, Vieira, Rui P., Woodall, Lucy C., Xavier, Joana R. and Wagner, Daniel , Lecours, Vincent (ed.) (2019) A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses. PLoS ONE, 14 (12), [e0218904]. (doi:10.1371/journal.pone.0218904).

Record type: Article

Abstract

Video and image data are regularly used in the field of benthic ecology to document biodiversity. However, their use is subject to a number of challenges, principally the identification of taxa within the images without associated physical specimens. The challenge of applying traditional taxonomic keys to the identification of fauna from images has led to the development of personal, group, or institution level reference image catalogues of operational taxonomic units (OTUs) or morphospecies. Lack of standardisation among these reference catalogues has led to problems with observer bias and the inability to combine datasets across studies. In addition, lack of a common reference standard is stifling efforts in the application of artificial intelligence to taxon identification. Using the North Atlantic deep sea as a case study, we propose a database structure to facilitate standardisation of morphospecies image catalogues between research groups and support future use in multiple front-end applications. We also propose a framework for coordination of international efforts to develop reference guides for the identification of marine species from images. The proposed structure maps to the Darwin Core standard to allow integration with existing databases. We suggest a management framework where high-level taxonomic groups are curated by a regional team, consisting of both end users and taxonomic experts. We identify a mechanism by which overall quality of data within a common reference guide could be raised over the next decade. Finally, we discuss the role of a common reference standard in advancing marine ecology and supporting sustainable use of this ecosystem.

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Accepted/In Press date: 9 December 2019
Published date: 31 December 2019

Identifiers

Local EPrints ID: 437911
URI: http://eprints.soton.ac.uk/id/eprint/437911
ISSN: 1932-6203
PURE UUID: a51dc1b0-7e66-4697-9ea5-7c5ad648e7b6
ORCID for Tabitha R. R. Pearman: ORCID iD orcid.org/0000-0003-4213-4464

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Date deposited: 24 Feb 2020 17:30
Last modified: 02 Mar 2021 02:31

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Contributors

Author: Kerry L. Howell
Author: Jaime S. Davies
Author: A. Louise Allcock
Author: Andreia Braga-Henriques
Author: Pål Buhl-Mortensen
Author: Marina Carreiro-Silva
Author: Carlos Dominguez-Carrió
Author: Jennifer M. Durden
Author: Nicola L. Foster
Author: Chloe A. Game
Author: Becky Hitchin
Author: Tammy Horton
Author: Brett Hosking
Author: Daniel O. B. Jones
Author: Christopher Mah
Author: Claire Laguionie Marchais
Author: Lenaick Menot
Author: Telmo Morato
Author: Nils Piechaud
Author: Rebecca E. Ross
Author: Henry A. Ruhl
Author: Hanieh Saeedi
Author: Paris V. Stefanoudis
Author: Gerald H. Taranto
Author: Michael B. Thompson
Author: James R. Taylor
Author: Paul Tyler
Author: Johanne Vad
Author: Lissette Victorero
Author: Rui P. Vieira
Author: Lucy C. Woodall
Author: Joana R. Xavier
Author: Daniel Wagner
Editor: Vincent Lecours

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