A Standardized Workflow Based on the STAVIRO Unbaited Underwater Video System for Monitoring Fish and Habitat Essential Biodiversity Variables in Coastal Areas

Type Article
Date 2021-07
Language English
Author(s) Pelletier DominiqueORCID1, 2, Roos DavidORCID3, Bouchoucha Marc4, Schohn Thomas1, Roman William1, Gonson Charles1, Bockel Thomas1, 5, Carpentier Liliane1, Preuss Bastien6, Powell Abigail1, Garcia Jessica1, 7, Gaboriau Matthias8, Cade Florent9, Royaux Coline10, Le Bras Yvan10, Reecht Yves11, 12
Affiliation(s) 1 : Unité Lagons, Ecosystèmes et Aquaculture Durable en Nouvelle Calédonie, Département Ressources Biologiques et Environnement, Institut Français de Recherche pour l’Exploitation de la Mer, Nouméa, New Caledonia
2 : Unité Ecologie et Modèles pour l’Halieutique, Département Ressources Biologiques et Environnement, Institut Français de Recherche pour l’Exploitation de la Mer, Nantes, France
3 : Délégation Océan Indien, Département Ressources Biologiques et Environnement, Institut Français de Recherche pour l’Exploitation de la Mer, Le Port, France
4 : Laboratoire Environnement Ressources, Département Océanographie et Dynamique des Ecosystèmes, La Seyne-sur-Mer, France
5 : Andromède Océanologie, Carnon Plage, France
6 : Bureau d’études SQUALE, Nouméa, New Caledonia
7 : UMS CNRS 3514 STELLA MARE, Università di Corsica Pasquale Paoli, Biguglia, France
8 : 18 Carrer Sant Jordi, Banyuls-sur-Mer, France
9 : OCEANS.mov, Nouméa, New Caledonia
10 : Pôle National de Données de Biodiversité, UMS 2006 PatriNat, Station Marine de Concarneau, Muséum National d’Histoire Naturelle, Concarneau, France
11 : Unité Sciences et Technologies Halieutiques, Département Ressources Biologiques et Environnement, Institut Français de Recherche pour l’Exploitation de la Mer, Plouzané, France
12 : Institute of Marine Research/Havforskningsinstituttet, Bergen, Norway
Source Frontiers In Marine Science (2296-7745) (Frontiers Media), 2021-07 , Vol. 8 , N. 689280 , P. 17p.
DOI 10.3389/fmars.2021.689280
Keyword(s) underwater video, essential biodiversity variables, monitoring, assessment, standardized workflow, FAIR principles, PAMPA
Abstract

Essential Biodiversity Variables (EBV) related to benthic habitats and high trophic levels such as fish communities must be measured at fine scale but monitored and assessed at spatial scales that are relevant for policy and management actions. Local scales are important for assessing anthropogenic impacts, and conservation-related and fisheries management actions, while reporting on the conservation status of biodiversity to formulate national and international policies requires much broader scales. Measurements must account for the fact that coastal habitats and fish communities are heterogeneously distributed locally and at larger scales. Assessments based on in situ monitoring generally suffer from poor spatial replication and limited geographical coverage, which is challenging for area-wide assessments. Requirements for appropriate monitoring comprise cost-efficient and standardized observation protocols and data formats, spatially scalable and versatile data workflows, data that comply with the FAIR (Findable, Accessible, Interoperable, and Reusable) principles, while minimizing the environmental impact of measurements. This paper describes a standardized workflow based on remote underwater video that aims to assess fishes (at species and community levels) and habitat-related EBVs in coastal areas. This panoramic unbaited video technique was developed in 2007 to survey both fishes and benthic habitats in a cost-efficient manner, and with minimal effect on biodiversity. It can be deployed in areas where low underwater visibility is not a permanent or major limitation. The technique was consolidated and standardized and has been successfully used in varied settings over the last 12 years. We operationalized the EBV workflow by documenting the field protocol, survey design, image post-processing, EBV production and data curation. Applications of the workflow are illustrated here based on some 4,500 observations (fishes and benthic habitats) in the Pacific, Indian and Atlantic Oceans, and Mediterranean Sea. The STAVIRO’s proven track-record of utility and cost-effectiveness indicates that it should be considered by other researchers for future applications.

Full Text
File Pages Size Access
Publisher's official version 17 4 MB Open access
Supplementary Table 1 | Checklist for field work and naming convention for the video files. 16 KB Open access
Supplementary Table 2 | Datasheet for field work. 19 KB Open access
Supplementary Table 3 | Metadata for each deployment and video. 17 KB Open access
Supplementary Table 4 | Datasheet for habitat (coral reefs). 78 KB Open access
Supplementary Table 5 | Datasheet for fish counts. 34 KB Open access
Supplementary Table 6 | Galaxy-E workflow implementing part of the PAMPA UI. 2 MB Open access
Supplementary Table 7 | Standardized template for indicator analysis. 143 KB Open access
Supplementary Table 8 | List of assessment reports in New Caledonia and Indian Ocean. 15 KB Open access
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How to cite 

Pelletier Dominique, Roos David, Bouchoucha Marc, Schohn Thomas, Roman William, Gonson Charles, Bockel Thomas, Carpentier Liliane, Preuss Bastien, Powell Abigail, Garcia Jessica, Gaboriau Matthias, Cade Florent, Royaux Coline, Le Bras Yvan, Reecht Yves (2021). A Standardized Workflow Based on the STAVIRO Unbaited Underwater Video System for Monitoring Fish and Habitat Essential Biodiversity Variables in Coastal Areas. Frontiers In Marine Science, 8(689280), 17p. Publisher's official version : https://doi.org/10.3389/fmars.2021.689280 , Open Access version : https://archimer.ifremer.fr/doc/00708/82054/