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Corominas M, Marquès-Bonet T, Arnedo M, Bayés M, Belmonte J, Escrivà H, Fernández R, Gabaldón T, Garnatje T, Germain J, Niell M, Palero F, Pons J, Puigdomènech P, Arroyo V, Cuevas-Caballé C, Obiol JF, Gut I, Gut M, Hidalgo O, Izquierdo-Arànega G, Pérez-Sorribes L, Righi E, Riutort M, Vallès J, Rozas J, Alioto T, Guigó R. The Catalan initiative for the Earth BioGenome Project: contributing local data to global biodiversity genomics. NAR Genom Bioinform 2024; 6:lqae075. [PMID: 39022326 PMCID: PMC11252852 DOI: 10.1093/nargab/lqae075] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2023] [Revised: 05/10/2024] [Accepted: 06/19/2024] [Indexed: 07/20/2024] Open
Abstract
The Catalan Initiative for the Earth BioGenome Project (CBP) is an EBP-affiliated project network aimed at sequencing the genome of the >40 000 eukaryotic species estimated to live in the Catalan-speaking territories (Catalan Linguistic Area, CLA). These territories represent a biodiversity hotspot. While covering less than 1% of Europe, they are home to about one fourth of all known European eukaryotic species. These include a high proportion of endemisms, many of which are threatened. This trend is likely to get worse as the effects of global change are expected to be particularly severe across the Mediterranean Basin, particularly in freshwater ecosystems and mountain areas. Following the EBP model, the CBP is a networked organization that has been able to engage many scientific and non-scientific partners. In the pilot phase, the genomes of 52 species are being sequenced. As a case study in biodiversity conservation, we highlight the genome of the Balearic shearwater Puffinus mauretanicus, sequenced under the CBP umbrella.
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Affiliation(s)
- Montserrat Corominas
- Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Biomedicina (IBUB), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut d’Estudis Catalans (IEC), 08001 Barcelona, Catalonia, Spain
| | - Tomàs Marquès-Bonet
- Institute of Evolutionary Biology (IBE, UPF-CSIC), PRBB, 08003 Barcelona, Spain
- Catalan Institution of Research and Advanced Studies (ICREA), 08010 Barcelona, Spain
- Centre Nacional d’Anàlisi Genòmica (CNAG), 08028 Barcelona, Spain
- Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, 08193 Cerdanyola del Vallès, Barcelona, Spain
| | - Miquel A Arnedo
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
| | - Mònica Bayés
- Centre Nacional d’Anàlisi Genòmica (CNAG), 08028 Barcelona, Spain
- Universitat de Barcelona (UB), 08028 Barcelona, Spain
| | - Jordina Belmonte
- Departament de Biologia Animal, Biologia Vegetal i Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona (UAB), 08193 Bellaterra, Catalonia, Spain
- Institut de Ciència i Tecnologia Ambientals (ICTA-UAB), Universitat Autònoma de Barcelona (UAB), 08193 Bellaterra, Catalonia, Spain
| | - Hector Escrivà
- Sorbonne Université, CNRS, Biologie Intégrative des Organismes Marins, BIOM, F-66650, Banyuls-sur-Mer, France
| | - Rosa Fernández
- Institute of Evolutionary Biology (IBE, UPF-CSIC), PRBB, 08003 Barcelona, Spain
| | - Toni Gabaldón
- Catalan Institution of Research and Advanced Studies (ICREA), 08010 Barcelona, Spain
- Barcelona Supercomputing Centre (BSC-CNS), 08034 Barcelona, Spain
- Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Technology, 08028 Barcelona, Spain
- CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, Madrid, Spain
| | - Teresa Garnatje
- Institut Botànic de Barcelona (IBB), CSIC-CMCNB, 08038 Barcelona, Catalonia, Spain
- Jardí Botànic Marimurtra - Fundació Carl Faust, 17300 Blanes, Catalonia, Spain
| | - Josep Germain
- Institució Catalana d’Història Natural, 08001 Barcelona, Catalonia, Spain
| | - Manel Niell
- Andorra Recerca + Innovació (ARI), AD600 Sant Julià de Lòria, Andorra
| | - Ferran Palero
- Institut Cavanilles de Biodiversitat i Biologia Evolutiva (ICBIBE), Paterna, Valencia, Spain
| | - Joan Pons
- Departament de Biodiversitat Animal i Microbiana, Institut Mediterrani d’Estudis Avançats (CSIC-UIB), 07190 Esporles, Illes Balears, Spain
| | - Pere Puigdomènech
- Institut d’Estudis Catalans (IEC), 08001 Barcelona, Catalonia, Spain
- Centre de Recerca en Agrigenòmica, CSIC/IRTA/UAB/UB, 08193 Bellaterra, Catalonia, Spain
| | - Vanesa Arroyo
- Andorra Recerca + Innovació (ARI), AD600 Sant Julià de Lòria, Andorra
| | - Cristian Cuevas-Caballé
- Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
| | - Joan Ferrer Obiol
- Department of Environmental Science and Policy, University of Milan, Milan, Italy
| | - Ivo Gut
- Centre Nacional d’Anàlisi Genòmica (CNAG), 08028 Barcelona, Spain
- Universitat de Barcelona (UB), 08028 Barcelona, Spain
| | - Marta Gut
- Centre Nacional d’Anàlisi Genòmica (CNAG), 08028 Barcelona, Spain
- Universitat de Barcelona (UB), 08028 Barcelona, Spain
| | - Oriane Hidalgo
- CIBER de Enfermedades Infecciosas, Instituto de Salud Carlos III, Madrid, Spain
- Royal Botanic Gardens, Kew, TW9 3DS Richmond, UK
| | - Guillem Izquierdo-Arànega
- Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
| | - Laia Pérez-Sorribes
- Institut Botànic de Barcelona (IBB), CSIC-CMCNB, 08038 Barcelona, Catalonia, Spain
- Estación Biológica de Doñana, CSIC, 41092 Sevilla, Spain
| | - Emilio Righi
- Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, 08003 Barcelona, Catalonia, Spain
| | - Marta Riutort
- Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
| | - Joan Vallès
- Institut d’Estudis Catalans (IEC), 08001 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Laboratori de Botànica (UB), Unitat Associada al CSIC, Facultat de Farmàcia i Ciències de l’Alimentació, Universitat de Barcelona, 08028 Barcelona, Catalonia, Spain
| | - Julio Rozas
- Departament de Genètica, Microbiologia i Estadística, Facultat de Biologia, Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona (UB), 08028 Barcelona, Catalonia, Spain
| | - Tyler Alioto
- Centre Nacional d’Anàlisi Genòmica (CNAG), 08028 Barcelona, Spain
- Universitat de Barcelona (UB), 08028 Barcelona, Spain
| | - Roderic Guigó
- Institut d’Estudis Catalans (IEC), 08001 Barcelona, Catalonia, Spain
- Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, 08003 Barcelona, Catalonia, Spain
- Universitat Pompeu Fabra (UPF), 08003 Barcelona, Catalonia, Spain
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Rouxel Y, Crawford R, Buratti JPF, Cleasby IR. Slow sink rate in floated-demersal longline and implications for seabird bycatch risk. PLoS One 2022; 17:e0267169. [PMID: 35482810 PMCID: PMC9049334 DOI: 10.1371/journal.pone.0267169] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2021] [Accepted: 04/03/2022] [Indexed: 11/18/2022] Open
Abstract
Bycatch of birds in longline fisheries is a global conservation issue, with between 160,000–320,000 seabirds killed each year, primarily through being caught and drowned as they attempt to snatch baits off hooks as they are set. This conservation issue has received significant recognition in southern hemisphere longline fisheries over the past several decades, largely due to the impact on highly charismatic and highly threatened birds, notably Albatrosses. As a result, the use of effective mitigation measures has been subject to fisheries regulations to reduce seabird bycatch from longliners in a number of national jurisdictions and in several Regional Fisheries Management Organisations (RMFOs). While mitigation measures have been mandated in a number of north Pacific longline fisheries, this is largely not the case in north Atlantic longline fisheries. This includes vessels using floated-demersal longlines in the North-East Atlantic longline fishery targeting European Hake Merluccius merluccius, in which high levels of seabird bycatch are estimated. In this paper, we analysed the sinking speed of a floated-demersal longline used to target European Hake in the offshore waters of Scotland, to determine potential bycatch risks to seabirds. We deployed Time Depth Recorder devices at different points of the gear. We assessed how this gear performed in comparison to the best practice minimum sink rate of 0.3 m/s recommended by the Agreement on the Conservation of Albatrosses and Petrels (ACAP) to limit bird access to baited hooks. We found that the average sinking speed of the floated-demersal longline was substantially slower than the ACAP recommendation, between two and nine times slower in non-weighted parts of the gear down to 10m water depth. Our work also found that the sink rate is particularly slow in the top 2m of the water column, increasing with depth and stabilizing at depths over 10m, presumably a consequence of propeller wash behind the vessel. We calculated that the distance astern of the vessel for hooks to sink beyond susceptible seabirds’ reach largely exceeds optimum coverage of best practice design Bird Scaring Lines (100 m). Our results indicate that hooks from floated-demersal longlines are therefore readily open to seabird attacks, and as a result, present a clear bycatch risk. Research is needed to adapt existing mitigation measures to floated-longlines and to develop novel mitigation approaches to improve the sink rate of the gear without impacting target fish catch.
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Affiliation(s)
- Yann Rouxel
- BirdLife International Marine Programme, The Royal Society for the Protection of Birds Scotland, Glasgow, United Kingdom
- * E-mail:
| | - Rory Crawford
- BirdLife International Marine Programme, The Royal Society for the Protection of Birds Scotland, Glasgow, United Kingdom
| | - Juan Pablo Forti Buratti
- Sea Mammal Research Unit, University of St Andrews, School of Biology, Scottish Oceans Institute, St Andrews, United Kingdom
| | - Ian R. Cleasby
- RSPB Centre for Conservation Science, The Royal Society for the Protection of Birds, Sandy, United Kingdom
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