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 k...
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Online Access: | https://archimer.ifremer.fr/doc/00602/71408/69862.pdf https://doi.org/10.1371/journal.pone.0218904 https://archimer.ifremer.fr/doc/00602/71408/ |
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ftarchimer:oai:archimer.ifremer.fr:71408 2023-05-15T17:34:51+02:00 A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses 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 Ob 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. Wagner, Daniel 2019-12 application/pdf https://archimer.ifremer.fr/doc/00602/71408/69862.pdf https://doi.org/10.1371/journal.pone.0218904 https://archimer.ifremer.fr/doc/00602/71408/ eng eng Public Library of Science (PLoS) https://archimer.ifremer.fr/doc/00602/71408/69862.pdf doi:10.1371/journal.pone.0218904 https://archimer.ifremer.fr/doc/00602/71408/ info:eu-repo/semantics/openAccess restricted use Plos One (1932-6203) (Public Library of Science (PLoS)), 2019-12 , Vol. 14 , N. 12 , P. e0218904 (25p.) text Publication info:eu-repo/semantics/article 2019 ftarchimer https://doi.org/10.1371/journal.pone.0218904 2023-03-21T23:52:14Z 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. Article in Journal/Newspaper North Atlantic Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) PLOS ONE 14 12 e0218904 |
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Open Polar |
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Archimer (Archive Institutionnelle de l'Ifremer - Institut français de recherche pour l'exploitation de la mer) |
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ftarchimer |
language |
English |
description |
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. |
format |
Article in Journal/Newspaper |
author |
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 Ob 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. Wagner, Daniel |
spellingShingle |
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 Ob 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. Wagner, Daniel A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
author_facet |
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 Ob 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. Wagner, Daniel |
author_sort |
Howell, Kerry L. |
title |
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
title_short |
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
title_full |
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
title_fullStr |
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
title_full_unstemmed |
A framework for the development of a global standardised marine taxon reference image database (SMarTaR-ID) to support image-based analyses |
title_sort |
framework for the development of a global standardised marine taxon reference image database (smartar-id) to support image-based analyses |
publisher |
Public Library of Science (PLoS) |
publishDate |
2019 |
url |
https://archimer.ifremer.fr/doc/00602/71408/69862.pdf https://doi.org/10.1371/journal.pone.0218904 https://archimer.ifremer.fr/doc/00602/71408/ |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_source |
Plos One (1932-6203) (Public Library of Science (PLoS)), 2019-12 , Vol. 14 , N. 12 , P. e0218904 (25p.) |
op_relation |
https://archimer.ifremer.fr/doc/00602/71408/69862.pdf doi:10.1371/journal.pone.0218904 https://archimer.ifremer.fr/doc/00602/71408/ |
op_rights |
info:eu-repo/semantics/openAccess restricted use |
op_doi |
https://doi.org/10.1371/journal.pone.0218904 |
container_title |
PLOS ONE |
container_volume |
14 |
container_issue |
12 |
container_start_page |
e0218904 |
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1766133808129638400 |