Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology
International audience The difficulty of identifying marine macro-invertebrates and the lack of experts, added to the growing use of complex modeling approaches based on massive datasets, has led to a reproducibility crisis in benthic ecology. Improving the reliability of identification remains a ke...
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ftunivantilles:oai:HAL:hal-04542435v1 2024-05-19T07:48:57+00:00 Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology Martin, Alexis Blettery, Jonathan Dettaï, Agnès Rosset, Nicolas Gousseau, Yann Muséum national d'Histoire naturelle (MNHN) Institut de Systématique, Evolution, Biodiversité (ISYEB ) Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE) Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA) Image, Modélisation, Analyse, GEométrie, Synthèse (IMAGES) Laboratoire Traitement et Communication de l'Information (LTCI) Institut Mines-Télécom Paris (IMT)-Télécom Paris-Institut Mines-Télécom Paris (IMT)-Télécom Paris Département Images, Données, Signal (IDS) Télécom ParisTech 2023 https://hal.science/hal-04542435 https://doi.org/10.26028/cybium/2023-020 en eng HAL CCSD Paris : Muséum national d'histoire naturelle info:eu-repo/semantics/altIdentifier/doi/10.26028/cybium/2023-020 hal-04542435 https://hal.science/hal-04542435 doi:10.26028/cybium/2023-020 ISSN: 0399-0974 EISSN: 2101-0315 Cybium : Revue Internationale d’Ichtyologie https://hal.science/hal-04542435 Cybium : Revue Internationale d’Ichtyologie, 2023, ⟨10.26028/cybium/2023-020⟩ Benthos Bycatch database DNA barcoding Ecology Fisheries Image analysis Reproducibility crisis [SDV.BID]Life Sciences [q-bio]/Biodiversity info:eu-repo/semantics/article Journal articles 2023 ftunivantilles https://doi.org/10.26028/cybium/2023-020 2024-05-01T23:51:21Z International audience The difficulty of identifying marine macro-invertebrates and the lack of experts, added to the growing use of complex modeling approaches based on massive datasets, has led to a reproducibility crisis in benthic ecology. Improving the reliability of identification remains a key factor to increase the quality of raw data. We developed the database Bendima to manage benthic macro-invertebrate bycatch data from the scientific survey of the French Southern Ocean and Indian Ocean fisheries. This database is structured to store observations of macro-invertebrates in the form of images of the caught organisms associated to sampling effort data and molecular data, which allows for ongoing amendments to identifications and crossreferencing with barcode data. Once uploaded and stored as digital images, the Bendima observations data underpinning models can be fully assessed, criticized and compared. Here, we describe the Bendima system and provide an overview of the contents for teams involved in biodiversity database development, benthic ecology or fisheries monitoring. Article in Journal/Newspaper Southern Ocean Université des Antilles (UAG): HAL |
institution |
Open Polar |
collection |
Université des Antilles (UAG): HAL |
op_collection_id |
ftunivantilles |
language |
English |
topic |
Benthos Bycatch database DNA barcoding Ecology Fisheries Image analysis Reproducibility crisis [SDV.BID]Life Sciences [q-bio]/Biodiversity |
spellingShingle |
Benthos Bycatch database DNA barcoding Ecology Fisheries Image analysis Reproducibility crisis [SDV.BID]Life Sciences [q-bio]/Biodiversity Martin, Alexis Blettery, Jonathan Dettaï, Agnès Rosset, Nicolas Gousseau, Yann Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
topic_facet |
Benthos Bycatch database DNA barcoding Ecology Fisheries Image analysis Reproducibility crisis [SDV.BID]Life Sciences [q-bio]/Biodiversity |
description |
International audience The difficulty of identifying marine macro-invertebrates and the lack of experts, added to the growing use of complex modeling approaches based on massive datasets, has led to a reproducibility crisis in benthic ecology. Improving the reliability of identification remains a key factor to increase the quality of raw data. We developed the database Bendima to manage benthic macro-invertebrate bycatch data from the scientific survey of the French Southern Ocean and Indian Ocean fisheries. This database is structured to store observations of macro-invertebrates in the form of images of the caught organisms associated to sampling effort data and molecular data, which allows for ongoing amendments to identifications and crossreferencing with barcode data. Once uploaded and stored as digital images, the Bendima observations data underpinning models can be fully assessed, criticized and compared. Here, we describe the Bendima system and provide an overview of the contents for teams involved in biodiversity database development, benthic ecology or fisheries monitoring. |
author2 |
Muséum national d'Histoire naturelle (MNHN) Institut de Systématique, Evolution, Biodiversité (ISYEB ) Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE) Université Paris Sciences et Lettres (PSL)-Université Paris Sciences et Lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA) Image, Modélisation, Analyse, GEométrie, Synthèse (IMAGES) Laboratoire Traitement et Communication de l'Information (LTCI) Institut Mines-Télécom Paris (IMT)-Télécom Paris-Institut Mines-Télécom Paris (IMT)-Télécom Paris Département Images, Données, Signal (IDS) Télécom ParisTech |
format |
Article in Journal/Newspaper |
author |
Martin, Alexis Blettery, Jonathan Dettaï, Agnès Rosset, Nicolas Gousseau, Yann |
author_facet |
Martin, Alexis Blettery, Jonathan Dettaï, Agnès Rosset, Nicolas Gousseau, Yann |
author_sort |
Martin, Alexis |
title |
Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
title_short |
Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
title_full |
Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
title_fullStr |
Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
title_full_unstemmed |
Bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
title_sort |
bendima: a database for marine macro-invertebrate bycatch data designed to improve reproducibility in benthic ecology |
publisher |
HAL CCSD |
publishDate |
2023 |
url |
https://hal.science/hal-04542435 https://doi.org/10.26028/cybium/2023-020 |
genre |
Southern Ocean |
genre_facet |
Southern Ocean |
op_source |
ISSN: 0399-0974 EISSN: 2101-0315 Cybium : Revue Internationale d’Ichtyologie https://hal.science/hal-04542435 Cybium : Revue Internationale d’Ichtyologie, 2023, ⟨10.26028/cybium/2023-020⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.26028/cybium/2023-020 hal-04542435 https://hal.science/hal-04542435 doi:10.26028/cybium/2023-020 |
op_doi |
https://doi.org/10.26028/cybium/2023-020 |
_version_ |
1799467346405883904 |