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Macpherson ESB, Hauser FE, Van Nynatten A, Chang BSW, Lovejoy NR. Evolution of rhodopsin in flatfishes (Pleuronectiformes) is associated with depth and migratory behavior. JOURNAL OF FISH BIOLOGY 2024. [PMID: 38859571 DOI: 10.1111/jfb.15828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 04/06/2024] [Accepted: 05/17/2024] [Indexed: 06/12/2024]
Abstract
Visual signals are involved in many fitness-related tasks and are therefore essential for survival in many species. Aquatic organisms are ideal systems to study visual evolution, as the high diversity of spectral properties in aquatic environments generates great potential for adaptation to different light conditions. Flatfishes are an economically important group, with over 800 described species distributed globally, including halibut, flounder, sole, and turbot. The diversity of flatfish species and wide array of environments they occupy provides an excellent opportunity to understand how this variation translates to molecular adaptation of vision genes. Using models of molecular evolution, we investigated how the light environments inhabited by different flatfish lineages have shaped evolution in the rhodopsin gene, which is responsible for mediating dim-light visual transduction. We found strong evidence for positive selection in rhodopsin, and this was correlated with both migratory behavior and several fundamental aspects of habitat, including depth and freshwater/marine evolutionary transitions. We also identified several mutations that likely affect the wavelength of peak absorbance of rhodopsin, and outline how these shifts in absorbance correlate with the response to the light spectrum present in different habitats. This is the first study of rhodopsin evolution in flatfishes that considers their extensive diversity, and our results highlight how ecologically-driven molecular adaptation has occurred across this group in response to transitions to novel light environments.
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Affiliation(s)
- Esme S B Macpherson
- Department of Biological Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
| | - Frances E Hauser
- Department of Biological Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Alexander Van Nynatten
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - Belinda S W Chang
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - Nathan R Lovejoy
- Department of Biological Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Physical and Environmental Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
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2
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Christian LD, Burton MEH, Mohammed A, Nelson W, Shah TA, Bertide-Josiah L, Yurek HG, Evers DC. An evaluation of fish and invertebrate mercury concentrations in the Caribbean Region. ECOTOXICOLOGY (LONDON, ENGLAND) 2024:10.1007/s10646-024-02754-y. [PMID: 38836941 DOI: 10.1007/s10646-024-02754-y] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 04/15/2024] [Indexed: 06/06/2024]
Abstract
Mercury is a ubiquitous pollutant of global concern but the threat of exposure is not homogenously distributed at local, regional, or global scales. The primary route of human exposure to mercury is through consumption of aquatic foods, which are culturally and economically important in the wider Caribbean Region, especially for Small Island Developing States (SIDS). We compiled more than 1600 samples of 108 unique species of fish and aquatic invertebrates collected between 2005 and 2023 from eleven countries or territories in the wider Caribbean Region. There was wide variability in total mercury concentrations with 55% of samples below the 0.23 µg/g wet weight (ww) guideline from the U.S. FDA/EPA (2022) for 2 or 3 weekly servings and 26% exceeding the 0.46 µg/g ww guideline consistent with adverse effects on human health from continual consumption, particularly for sensitive populations. Significant relationships were found between total mercury concentrations and taxonomic family, sampling country, fish length, and trophic level. The data analyzed here support the need for further sampling with concrete geospatial data to better understand patterns and mechanisms in mercury concentrations and allow for more informed decision making on the consumption of fish and invertebrates from the wider Caribbean Region as well as supporting efforts to evaluate the effectiveness of national, regional, and international mercury policies.
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Affiliation(s)
- Linroy D Christian
- Ministry of Foreign Affairs, Agriculture, Trade and Barbuda Affairs, St. John's, Antigua and Barbuda.
| | | | - Azad Mohammed
- The University of The West Indies, St. Augustine, Trinidad and Tobago
| | - Wendy Nelson
- Institute of Marine Affairs, Chaguaramas, Trinidad and Tobago
| | | | - Laël Bertide-Josiah
- Ministry of Foreign Affairs, Agriculture, Trade and Barbuda Affairs, St. John's, Antigua and Barbuda
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3
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Rbiai O, Badaoui B, Chlaida M. Temporal β-diversity decomposition: Insights into fish biodiversity dynamics in the Moroccan South Atlantic. MARINE ENVIRONMENTAL RESEARCH 2024; 198:106504. [PMID: 38636277 DOI: 10.1016/j.marenvres.2024.106504] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2024] [Revised: 04/09/2024] [Accepted: 04/10/2024] [Indexed: 04/20/2024]
Abstract
Understanding the various aspects of temporal β-diversity and their relationships can profoundly enhance the knowledge of the intricate dynamics of biodiversity over temporal scales. In this study, we examined extensive data on fish in the Moroccan South Atlantic, to quantify taxonomic and functional temporal β-diversity over three five-year periods, determine the relative contributions of turnover and nestedness to each facet, and elucidate the relationship between taxonomic and functional temporal β-diversity including their components using temporal and spatial comparisons. Our findings revealed a complex relationship between taxonomic and functional temporal β-diversity, with decoupled variation often observed. Furthermore, the predominant component of functional temporal β-diversity was functional nestedness, while species turnover had a greater impact on taxonomic temporal β-diversity. A noteworthy observation was the significant fluctuation in the turnover and nestedness components, despite consistent temporal β-diversity. These insights underscore the pivotal role of temporal β-diversity decomposition and advocate for the integration of functional aspects in temporal biodiversity research to provide additional key indicators for biodiversity sustainable management.
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Affiliation(s)
- Oussama Rbiai
- Biodiversity, Ecology and Genome Laboratory, Faculty of Sciences (FSR), Mohammed V University in Rabat (UM5), 4 Avenue Ibn Battouta, B.P. 1014 RP, Rabat, Morocco; Department of Fisheries Resources, National Institute of Fisheries Research (INRH), 2 BD Sidi Abderrahman 2, Ain Diab, 20180, Casablanca, Morocco
| | - Bouabid Badaoui
- Biodiversity, Ecology and Genome Laboratory, Faculty of Sciences (FSR), Mohammed V University in Rabat (UM5), 4 Avenue Ibn Battouta, B.P. 1014 RP, Rabat, Morocco; African Sustainable Agriculture Research Institute (ASARI), Mohammed VI University (UM6P), Laâyoune, Morocco
| | - Malika Chlaida
- Department of Fisheries Resources, National Institute of Fisheries Research (INRH), 2 BD Sidi Abderrahman 2, Ain Diab, 20180, Casablanca, Morocco.
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4
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Swaminathan SD, Lafferty KD, Knight NS, Altieri AH. Stony coral tissue loss disease indirectly alters reef communities. SCIENCE ADVANCES 2024; 10:eadk6808. [PMID: 38701216 PMCID: PMC11068009 DOI: 10.1126/sciadv.adk6808] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/05/2023] [Accepted: 04/01/2024] [Indexed: 05/05/2024]
Abstract
Many Caribbean coral reefs are near collapse due to various threats. An emerging threat, stony coral tissue loss disease (SCTLD), is spreading across the Western Atlantic and Caribbean. Data from the U.S. Virgin Islands reveal how SCTLD spread has reduced the abundance of susceptible coral and crustose coralline algae and increased cyanobacteria, fire coral, and macroalgae. A Caribbean-wide structural equation model demonstrates versatility in reef fish and associations with rugosity independent of live coral. Model projections suggest that some reef fishes will decline due to SCTLD, with the largest changes on reefs that lose the most susceptible corals and rugosity. Mapping these projected declines in space indicates how the indirect effects of SCTLD range from undetectable to devastating.
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Affiliation(s)
- Sara D. Swaminathan
- Department of Environmental Engineering Sciences, University of Florida, Gainesville, FL 32611, USA
| | - Kevin D. Lafferty
- Western Ecological Research Center, US Geological Survey, Santa Barbara, CA 93455, USA
- Marine Science Institute, University of California, Santa Barbara, CA 93106, USA
| | - Nicole S. Knight
- Department of Biology, McGill University, Montreal, QC H3A 1B1, Canada
| | - Andrew H. Altieri
- Department of Environmental Engineering Sciences, University of Florida, Gainesville, FL 32611, USA
- Department of Biology, McGill University, Montreal, QC H3A 1B1, Canada
- Smithsonian Tropical Research Center, Ancon 0843-03092, Republic of Panama
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5
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Clark RD, Pinsky ML. Global patterns of nuclear and mitochondrial genetic diversity in marine fishes. Ecol Evol 2024; 14:e11365. [PMID: 38711488 PMCID: PMC11070773 DOI: 10.1002/ece3.11365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2024] [Accepted: 04/19/2024] [Indexed: 05/08/2024] Open
Abstract
Genetic diversity is a fundamental component of biodiversity. Examination of global patterns of genetic diversity can help highlight mechanisms underlying species diversity, though a recurring challenge has been that patterns may vary by molecular marker. Here, we compiled 6862 observations of genetic diversity from 492 species of marine fish and tested among hypotheses for diversity gradients: the founder effect hypothesis, the kinetic energy hypothesis, and the productivity-diversity hypothesis. We fit generalized linear mixed effect models (GLMMs) and explored the extent to which various macroecological drivers (latitude, longitude, temperature (SST), and chlorophyll-a concentration) explained variation in genetic diversity. We found that mitochondrial genetic diversity followed geographic gradients similar to those of species diversity, being highest near the Equator, particularly in the Coral Triangle, while nuclear genetic diversity did not follow clear geographic patterns. Despite these differences, all genetic diversity metrics were correlated with chlorophyll-a concentration, while mitochondrial diversity was also positively associated with SST. Our results provide support for the kinetic energy hypothesis, which predicts that elevated mutation rates at higher temperatures increase mitochondrial but not necessarily nuclear diversity, and the productivity-diversity hypothesis, which posits that resource-rich regions support larger populations with greater genetic diversity. Overall, these findings reveal how environmental variables can influence mutation rates and genetic drift in the ocean, caution against using mitochondrial macrogenetic patterns as proxies for whole-genome diversity, and aid in defining global gradients of genetic diversity.
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Affiliation(s)
- René D. Clark
- Department of BiologyDrexel UniversityPhiladelphiaPennsylvaniaUSA
| | - Malin L. Pinsky
- Department of Ecology and Evolutionary BiologyUniversity of California Santa CruzSanta CruzCaliforniaUSA
- Department of Ecology, Evolution, and Natural ResourcesRutgers UniversityNew BrunswickNew JerseyUSA
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6
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Chaikin S, Riva F, Marshall KE, Lessard JP, Belmaker J. Marine fishes experiencing high-velocity range shifts may not be climate change winners. Nat Ecol Evol 2024; 8:936-946. [PMID: 38459374 DOI: 10.1038/s41559-024-02350-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/02/2023] [Accepted: 01/28/2024] [Indexed: 03/10/2024]
Abstract
Climate change is driving the global redistribution of species. A common assumption is that rapid range shifts occur in tandem with overall stable or positive abundance trends throughout the range and thus these species may be considered as climate change 'winners'. However, although establishing the link between range shift velocities and population trends is crucial for predicting climate change impacts it has not been empirically tested. Using 2,572 estimates of changes in marine fish abundance spread across the world's oceans, we show that poleward range shifts are not necessarily associated with positive population trends. Species experiencing high-velocity range shifts seem to experience local population declines irrespective of the position throughout the species range. High range shift velocities of 17 km yr-1 are associated with a 50% decrease in population sizes over a period of 10 yr, which is dramatic compared to the overall stable population trends in non-shifting species. This pattern, however, mostly occurs in populations located in the poleward, colder, portion of the species range. The lack of a positive association between poleward range shift velocities and population trends at the coldest portion of the range contrasts with the view that rapid range shifts safeguard against local population declines. Instead, our work suggests that marine fishes experiencing rapid range shifts could be more vulnerable to climatic change and therefore should be carefully assessed for conservation status.
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Affiliation(s)
- Shahar Chaikin
- School of Zoology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel.
| | - Federico Riva
- Department of Environmental Geography, Institute for Environmental Studies (IVM), Vrije Universiteit Amsterdam, Amsterdam, the Netherlands
| | - Katie E Marshall
- Department of Zoology, University of British Columbia, Vancouver, British Columbia, Canada
| | | | - Jonathan Belmaker
- School of Zoology, Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
- The Steinhardt Museum of Natural History, Tel Aviv University, Tel-Aviv, Israel
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7
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Evers DC, Ackerman JT, Åkerblom S, Bally D, Basu N, Bishop K, Bodin N, Braaten HFV, Burton MEH, Bustamante P, Chen C, Chételat J, Christian L, Dietz R, Drevnick P, Eagles-Smith C, Fernandez LE, Hammerschlag N, Harmelin-Vivien M, Harte A, Krümmel EM, Brito JL, Medina G, Barrios Rodriguez CA, Stenhouse I, Sunderland E, Takeuchi A, Tear T, Vega C, Wilson S, Wu P. Global mercury concentrations in biota: their use as a basis for a global biomonitoring framework. ECOTOXICOLOGY (LONDON, ENGLAND) 2024:10.1007/s10646-024-02747-x. [PMID: 38683471 DOI: 10.1007/s10646-024-02747-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Accepted: 03/06/2024] [Indexed: 05/01/2024]
Abstract
An important provision of the Minamata Convention on Mercury is to monitor and evaluate the effectiveness of the adopted measures and its implementation. Here, we describe for the first time currently available biotic mercury (Hg) data on a global scale to improve the understanding of global efforts to reduce the impact of Hg pollution on people and the environment. Data from the peer-reviewed literature were compiled in the Global Biotic Mercury Synthesis (GBMS) database (>550,000 data points). These data provide a foundation for establishing a biomonitoring framework needed to track Hg concentrations in biota globally. We describe Hg exposure in the taxa identified by the Minamata Convention: fish, sea turtles, birds, and marine mammals. Based on the GBMS database, Hg concentrations are presented at relevant geographic scales for continents and oceanic basins. We identify some effective regional templates for monitoring methylmercury (MeHg) availability in the environment, but overall illustrate that there is a general lack of regional biomonitoring initiatives around the world, especially in Africa, Australia, Indo-Pacific, Middle East, and South Atlantic and Pacific Oceans. Temporal trend data for Hg in biota are generally limited. Ecologically sensitive sites (where biota have above average MeHg tissue concentrations) have been identified throughout the world. Efforts to model and quantify ecosystem sensitivity locally, regionally, and globally could help establish effective and efficient biomonitoring programs. We present a framework for a global Hg biomonitoring network that includes a three-step continental and oceanic approach to integrate existing biomonitoring efforts and prioritize filling regional data gaps linked with key Hg sources. We describe a standardized approach that builds on an evidence-based evaluation to assess the Minamata Convention's progress to reduce the impact of global Hg pollution on people and the environment.
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Affiliation(s)
- David C Evers
- Biodiversity Research Institute, 276 Canco Road, Portland, ME, 04103, USA.
| | - Joshua T Ackerman
- U.S. Geological Survey, Western Ecological Research Center, Dixon Field Station, 800 Business Park Drive, Suite D, Dixon, CA, 95620, USA
| | | | - Dominique Bally
- African Center for Environmental Health, BP 826 Cidex 03, Abidjan, Côte d'Ivoire
| | - Nil Basu
- Faculty of Agricultural and Environmental Sciences, McGill University, Montreal, QC, Canada
| | - Kevin Bishop
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Upsalla, Sweden
| | - Nathalie Bodin
- Research Institute for Sustainable Development Seychelles Fishing Authority, Victoria, Seychelles
| | | | - Mark E H Burton
- Biodiversity Research Institute, 276 Canco Road, Portland, ME, 04103, USA
| | - Paco Bustamante
- Littoral, Environnement et Sociétés (LIENSs), UMR 7266 CNRS La Rochelle Université, 2 Rue Olympe de Gouges, 17000, La Rochelle, France
| | - Celia Chen
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
| | - John Chételat
- Environment and Cliamte Change Canada, National Wildlife Research Centre, Ottawa, ON, K1S 5B6, Canada
| | - Linroy Christian
- Department of Analytical Services, Dunbars, Friars Hill, St John, Antigua and Barbuda
| | - Rune Dietz
- Department of Ecoscience, Aarhus University, Arctic Research Centre (ARC), Department of Ecoscience, P.O. Box 358, DK-4000, Roskilde, Denmark
| | - Paul Drevnick
- Teck American Incorporated, 2500 University Drive NW, Calgary, AB, T2N 1N4, Canada
| | - Collin Eagles-Smith
- U.S. Geological Survey, Forest and Rangeland Ecosystem Science Center, 3200 SW Jefferson Way, Corvallis, OR, 97331, USA
| | - Luis E Fernandez
- Sabin Center for Environment and Sustainability and Department of Biology, Wake Forest University, Winston-Salem, NC, 29106, USA
- Centro de Innovación Científica Amazonica (CINCIA), Puerto Maldonado, Madre de Dios, Peru
| | - Neil Hammerschlag
- Shark Research Foundation Inc, 29 Wideview Lane, Boutiliers Point, NS, B3Z 0M9, Canada
| | - Mireille Harmelin-Vivien
- Aix-Marseille Université, Université de Toulon, CNRS/INSU/IRD, Institut Méditerranéen d'Océanologie (MIO), UM 110, Campus de Luminy, case 901, 13288, Marseille, cedex 09, France
| | - Agustin Harte
- Basel, Rotterdam and Stockholm Conventions Secretariat, United Nations Environment Programme (UNEP), Chem. des Anémones 15, 1219, Vernier, Geneva, Switzerland
| | - Eva M Krümmel
- Inuit Circumpolar Council-Canada, Ottawa, Canada and ScienTissiME Inc, Barry's Bay, ON, Canada
| | - José Lailson Brito
- Universidade do Estado do Rio de Janeiro, Rua Sao Francisco Xavier, 524, Sala 4002, CEP 20550-013, Maracana, Rio de Janeiro, RJ, Brazil
| | - Gabriela Medina
- Director of Basel Convention Coordinating Centre, Stockholm Convention Regional Centre for Latin America and the Caribbean, Hosted by the Ministry of Environment, Montevideo, Uruguay
| | | | - Iain Stenhouse
- Biodiversity Research Institute, 276 Canco Road, Portland, ME, 04103, USA
| | - Elsie Sunderland
- Harvard University, Pierce Hall 127, 29 Oxford Street, Cambridge, MA, 02138, USA
| | - Akinori Takeuchi
- National Institute for Environmental Studies, Health and Environmental Risk Division, 16-2 Onogawa Tsukuba, Ibaraki, 305-8506, Japan
| | - Tim Tear
- Biodiversity Research Institute, 276 Canco Road, Portland, ME, 04103, USA
| | - Claudia Vega
- Centro de Innovaccion Cientifica Amazonica (CINCIA), Jiron Ucayali 750, Puerto Maldonado, Madre de Dios, 17001, Peru
| | - Simon Wilson
- Arctic Monitoring and Assessment Programme (AMAP) Secretariat, N-9296, Tromsø, Norway
| | - Pianpian Wu
- Department of Biological Sciences, Dartmouth College, Hanover, NH, 03755, USA
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8
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Galligan BP, McClanahan TR. Tropical fishery nutrient production depends on biomass-based management. iScience 2024; 27:109420. [PMID: 38510133 PMCID: PMC10952041 DOI: 10.1016/j.isci.2024.109420] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2023] [Revised: 11/17/2023] [Accepted: 03/01/2024] [Indexed: 03/22/2024] Open
Abstract
The need to enhance nutrient production from tropical ecosystems to feed the poor could potentially create a new framework for fisheries science and management. Early recommendations have included targeting small fishes and increasing the species richness of fish catches, which could represent a departure from more traditional approaches such as biomass-based management. To test these recommendations, we compared the outcomes of biomass-based management with hypothesized factors influencing nutrient density in nearshore artisanal fish catches in the Western Indian Ocean. We found that enhancing nutrient production depends primarily on achieving biomass-based targets. Catches dominated by low- and mid-trophic level species with smaller body sizes and faster turnover were associated with modest increases in nutrient densities, but the variability in nutrient density was small relative to human nutritional requirements. Therefore, tropical fishery management should focus on restoring biomass to achieve maximum yields and sustainability, particularly for herbivorous fishes.
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Affiliation(s)
- Bryan P. Galligan
- Jesuit Justice and Ecology Network Africa, Karen, Nairobi 00502, Kenya
- Loyola University Chicago, Department of Biology, Chicago, IL 60660, USA
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9
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Durant JM, Holt RE, Langangen Ø. Large biomass reduction effect on the relative role of climate, fishing, and recruitment on fish population dynamics. Sci Rep 2024; 14:8995. [PMID: 38637592 PMCID: PMC11026439 DOI: 10.1038/s41598-024-59569-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Accepted: 04/12/2024] [Indexed: 04/20/2024] Open
Abstract
Many species around the world have collapsed, yet only some have recovered. A key question is what happens to populations post collapse. Traditionally, marine fish collapses are linked to overfishing, poor climate, and recruitment. We test whether the effect on biomass change from these drivers remains the same after a collapse. We used a regression model to analyse the effect of harvesting, recruitment, and climate variability on biomass change before and after a collapse across 54 marine fish populations around the world. The most salient result was the change in fishing effect that became weaker after a collapse. The change in sea temperature and recruitment effects were more variable across systems. The strongest changes were in the pelagic habitats. The resultant change in the sensitivity to external drivers indicates that whilst biomass may be rebuilt, the responses to variables known to affect stocks may have changed after a collapse. Our results show that a general model applied to many stocks provides useful insights, but that not all stocks respond similarly to a collapse calling for stock-specific models. Stocks respond to environmental drivers differently after a collapse, so caution is needed when using pre-collapse knowledge to advise on population dynamics and management.
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Affiliation(s)
- Joël M Durant
- Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Oslo, NO-0316, Oslo, Norway.
| | - Rebecca E Holt
- Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Oslo, NO-0316, Oslo, Norway
- Centre for Environment, Fisheries, and Aquaculture Science (Cefas), Weymouth, DT4 8UB, UK
| | - Øystein Langangen
- Section for Aquatic Biology and Toxicology (AQUA), Department of Biosciences, University of Oslo, NO-0316, Oslo, Norway
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10
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Du T, Ding C, Yang K, Chen J, Liu X, Lv W, Ding L, He D, Tao J. A global dataset on species occurrences and functional traits of Schizothoracinae fish. Sci Data 2024; 11:272. [PMID: 38448551 PMCID: PMC10918187 DOI: 10.1038/s41597-024-03098-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Accepted: 02/27/2024] [Indexed: 03/08/2024] Open
Abstract
The Schizothoracinae fish are a natural group of cyprinids widely distributed in rivers and lakes in the Qinghai-Tibetan Plateau (QTP) and adjacent regions. These fish parallelly evolved with the QTP uplift and are thus important for uncovering geological history, the paleoclimatic environment, and the mechanisms of functional adaptation to environmental change. However, a dataset including species occurrences and functional traits, which are essential for resolving the above issues and guiding relevant conservation, remains unavailable. To fill this gap, we systematically compiled a comprehensive dataset on species occurrences and functional traits of Schizothoracinae fish from our long-term field samplings and various sources (e.g., publications and online databases). The dataset includes 7,333 occurrence records and 3,204 records of 32 functional traits covering all the genera and species of Schizothoracinae fish (i.e., 12 genera and 125 species or subspecies). Sampling records spanned over 180 years. This dataset will serve as a valuable resource for future research on the evolution, historical biogeography, responses to environmental change, and conservation of the Schizothoracinae fish.
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Affiliation(s)
- Tingqi Du
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China
| | - Chengzhi Ding
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China.
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China.
- Institute of Yunnan Plateau Indigenous Fish, Kunming, 652115, China.
- Ministry of Education Key Laboratory for Transboundary Eco-Security of Southwest, Kunming, 650500, China.
| | - Ke Yang
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China
| | - Jinnan Chen
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Xingchen Liu
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China
| | - Wenna Lv
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China
| | - Liuyong Ding
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Dekui He
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, 430072, China
| | - Juan Tao
- Yunnan Key Laboratory of International Rivers and Transboundary Eco-Security, Yunnan University, Kunming, 650091, China.
- Institute of International Rivers and Eco-security, Yunnan University, Kunming, 650091, China.
- Ministry of Education Key Laboratory for Transboundary Eco-Security of Southwest, Kunming, 650500, China.
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11
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Letessier TB, Mouillot D, Mannocci L, Jabour Christ H, Elamin EM, Elamin SM, Friedlander AM, Hearn A, Juhel JB, Kleiven AR, Moland E, Mouquet N, Nillos-Kleiven PJ, Sala E, Thompson CDH, Velez L, Vigliola L, Meeuwig JJ. Divergent responses of pelagic and benthic fish body-size structure to remoteness and protection from humans. Science 2024; 383:976-982. [PMID: 38422147 DOI: 10.1126/science.adi7562] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2023] [Accepted: 01/24/2024] [Indexed: 03/02/2024]
Abstract
Animal body-size variation influences multiple processes in marine ecosystems, but habitat heterogeneity has prevented a comprehensive assessment of size across pelagic (midwater) and benthic (seabed) systems along anthropic gradients. In this work, we derive fish size indicators from 17,411 stereo baited-video deployments to test for differences between pelagic and benthic responses to remoteness from human pressures and effectiveness of marine protected areas (MPAs). From records of 823,849 individual fish, we report divergent responses between systems, with pelagic size structure more profoundly eroded near human markets than benthic size structure, signifying greater vulnerability of pelagic systems to human pressure. Effective protection of benthic size structure can be achieved through MPAs placed near markets, thereby contributing to benthic habitat restoration and the recovery of associated fishes. By contrast, recovery of the world's largest and most endangered fishes in pelagic systems requires the creation of highly protected areas in remote locations, including on the High Seas, where protection efforts lag.
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Affiliation(s)
- Tom B Letessier
- CESAB - FRB, Montpellier, France
- Institute of Zoology, Zoological Society of London, Regent's Park, London, UK
- Marine Futures Lab, School of Biological Sciences, University of Western Australia, Perth, WA, Australia
| | - David Mouillot
- MARBEC, Université de Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Laura Mannocci
- CESAB - FRB, Montpellier, France
- MARBEC, Université de Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Hanna Jabour Christ
- Marine Futures Lab, School of Biological Sciences, University of Western Australia, Perth, WA, Australia
| | | | - Sheikheldin Mohamed Elamin
- Faculty of Marine Science and Fisheries, Red Sea State University, P.O. Box 24, Port Sudan, Red Sea State, Sudan
| | - Alan M Friedlander
- National Geographic Society, Washington, DC 20036, USA
- Hawai'i Institute of Marine Biology, University of Hawai'i, Kāne'ohe, Hawai'i, USA
| | - Alex Hearn
- Galapagos Science Center, Universidad San Francisco de Quito, Quito, Ecuador
- MigraMar, Olema, CA, USA
| | - Jean-Baptiste Juhel
- ENTROPIE, Institut de Recherche pour le Développement, IRD-UR-UNC-IFREMER-CNRS, Centre IRD de Nouméa, Nouméa Cedex, New-Caledonia, France
| | - Alf Ring Kleiven
- Institute of Marine Research, Nye Flødevigveien 20, 4817 His, Norway
| | - Even Moland
- Institute of Marine Research, Nye Flødevigveien 20, 4817 His, Norway
- Centre for Coastal Research (CCR), Department of Natural Sciences, University of Agder, P.O. Box 422, N-4604 Kristiansand, Norway
| | - Nicolas Mouquet
- CESAB - FRB, Montpellier, France
- MARBEC, Université de Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | | | - Enric Sala
- National Geographic Society, Washington, DC 20036, USA
| | - Christopher D H Thompson
- Marine Futures Lab, School of Biological Sciences, University of Western Australia, Perth, WA, Australia
| | - Laure Velez
- MARBEC, Université de Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Laurent Vigliola
- ENTROPIE, Institut de Recherche pour le Développement, IRD-UR-UNC-IFREMER-CNRS, Centre IRD de Nouméa, Nouméa Cedex, New-Caledonia, France
| | - Jessica J Meeuwig
- Marine Futures Lab, School of Biological Sciences, University of Western Australia, Perth, WA, Australia
- Oceans Institute, University of Western Australia, Perth, WA, Australia
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12
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Benedetti-Cecchi L, Bates AE, Strona G, Bulleri F, Horta E Costa B, Edgar GJ, Hereu B, Reed DC, Stuart-Smith RD, Barrett NS, Kushner DJ, Emslie MJ, García-Charton JA, Gonçalves EJ, Aspillaga E. Marine protected areas promote stability of reef fish communities under climate warming. Nat Commun 2024; 15:1822. [PMID: 38418445 PMCID: PMC10902350 DOI: 10.1038/s41467-024-44976-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2023] [Accepted: 01/11/2024] [Indexed: 03/01/2024] Open
Abstract
Protection from direct human impacts can safeguard marine life, yet ocean warming crosses marine protected area boundaries. Here, we test whether protection offers resilience to marine heatwaves from local to network scales. We examine 71,269 timeseries of population abundances for 2269 reef fish species surveyed in 357 protected versus 747 open sites worldwide. We quantify the stability of reef fish abundance from populations to metacommunities, considering responses of species and functional diversity including thermal affinity of different trophic groups. Overall, protection mitigates adverse effects of marine heatwaves on fish abundance, community stability, asynchronous fluctuations and functional richness. We find that local stability is positively related to distance from centers of high human density only in protected areas. We provide evidence that networks of protected areas have persistent reef fish communities in warming oceans by maintaining large populations and promoting stability at different levels of biological organization.
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Affiliation(s)
| | - Amanda E Bates
- Department of Biology, University of Victoria, Victoria, Canada
| | | | - Fabio Bulleri
- Department of Biology, University of Pisa, URL CoNISMa, Via Derna 1, Pisa, Italy
| | - Barbara Horta E Costa
- CCMAR, Centre of Marine Sciences, University of Algarve, Building 7, Faro, 8005-139, Portugal
| | - Graham J Edgar
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania, Australia
- Reef Life Survey Foundation, Battery Point, Tasmania, Australia
| | - Bernat Hereu
- Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals, Facultat de Biologia, Institut de Recerca de la Biodiversitat (IRBIO), Universitat de Barcelona, Barcelona, Spain
| | - Dan C Reed
- Marine Science Institute, University of California Santa Barbara, Santa Barbara, 93106, CA, USA
| | - Rick D Stuart-Smith
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania, Australia
- Reef Life Survey Foundation, Battery Point, Tasmania, Australia
| | - Neville S Barrett
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania, Australia
| | | | - Michael J Emslie
- Australian Institute of Marine Science, Townsville, Queensland, Australia
| | | | - Emanuel J Gonçalves
- MARE - Marine and Environmental Sciences Centre, ISPA - Instituto Universitário, Lisbon, Portugal
| | - Eneko Aspillaga
- Instituto Mediterráneo de Estudios Avanzados (IMEDEA, CSIC-UIB), 07190, Esporles, Spain
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13
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Zhou J, Mogollón JM, van Bodegom PM, Beusen AHW, Scherer L. Global regionalized characterization factors for phosphorus and nitrogen impacts on freshwater fish biodiversity. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 912:169108. [PMID: 38065495 DOI: 10.1016/j.scitotenv.2023.169108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2023] [Revised: 11/26/2023] [Accepted: 12/02/2023] [Indexed: 12/17/2023]
Abstract
Inefficient global nutrient (i.e., phosphorus (P) and nitrogen (N)) management leads to an increase in nutrient delivery to freshwater and coastal ecosystems and induces eutrophication in these aquatic environments. This process threatens the various species inhabiting these ecosystems. In this study, we developed regionalized characterization factors (CFs) for freshwater eutrophication at 0.5 × 0.5-degree resolution, considering different fates for direct emissions to freshwater, diffuse emissions, and increased erosion due to agricultural land use. The CFs were provided for global and regional species loss of freshwater fish. CFs for global species loss were quantified by integrating global extinction probabilities. Results showed that the CFs for P and N impacts on freshwater fish are higher in densely populated regions that encompass either large lakes or the headwaters of large rivers. Focusing on nutrient-limited areas increases country-level CFs in 51.9 % of the countries for P and 49.5 % of the countries for N compared to not considering nutrient limitation. This study highlights the relevance of considering freshwater eutrophication impacts via both P and N emissions and identifying the limiting nutrient when performing life cycle impact assessments.
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Affiliation(s)
- Jinhui Zhou
- Institute of Environmental Sciences (CML), Leiden University, Leiden, the Netherlands.
| | - José M Mogollón
- Institute of Environmental Sciences (CML), Leiden University, Leiden, the Netherlands
| | - Peter M van Bodegom
- Institute of Environmental Sciences (CML), Leiden University, Leiden, the Netherlands
| | - Arthur H W Beusen
- PBL Netherlands Environmental Assessment Agency, the Hague, the Netherlands; Department of Earth Sciences, Utrecht University, Utrecht, the Netherlands
| | - Laura Scherer
- Institute of Environmental Sciences (CML), Leiden University, Leiden, the Netherlands
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14
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Soh M, Tay YC, Lee CS, Low A, Orban L, Jaafar Z, Seedorf H. The intestinal digesta microbiota of tropical marine fish is largely uncultured and distinct from surrounding water microbiota. NPJ Biofilms Microbiomes 2024; 10:11. [PMID: 38374184 PMCID: PMC10876542 DOI: 10.1038/s41522-024-00484-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2023] [Accepted: 02/06/2024] [Indexed: 02/21/2024] Open
Abstract
Studying the gut microbes of marine fishes is an important part of conservation as many fish species are increasingly threatened by extinction. The gut microbiota of only a small fraction of the more than 32,000 known fish species has been investigated. In this study we analysed the intestinal digesta microbiota composition of more than 50 different wild fish species from tropical waters. Our results show that the fish harbour intestinal digesta microbiota that are distinct from that of the surrounding water and that location, domestication status, and host intrinsic factors are strongly associated with the microbiota composition. Furthermore, we show that the vast majority (~97%) of the fish-associated microorganisms do not have any cultured representative. Considering the impact of the microbiota on host health and physiology, these findings underpin the call to also preserve the microbiota of host species, especially those that may be exposed to habitat destruction.
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Affiliation(s)
- Melissa Soh
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore
| | - Ywee Chieh Tay
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore
| | - Co Sin Lee
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore
| | - Adrian Low
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore
- Department of Medicine, Yong Loo Lin School of Medicine, National University of Singapore, MD6-Centre for Translational Medicine, 14 Medical Drive, Singapore, 117599, Singapore
| | - Laszlo Orban
- Frontline Fish Genomics Research Group, Department of Applied Fish Biology, Institute of Aquaculture and Environmental Safety, Georgikon Campus, Hungarian University of Agriculture and Life Sciences, Keszthely, 8360, Hungary
| | - Zeehan Jaafar
- Department of Biological Sciences, National University of Singapore, Singapore, 117558, Singapore
| | - Henning Seedorf
- Temasek Life Sciences Laboratory, 1 Research Link, Singapore, 117604, Singapore.
- Department of Biological Sciences, National University of Singapore, Singapore, 117558, Singapore.
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15
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Van Nynatten A, Duncan AT, Lauzon R, Sheldon TA, Chen SK, Lovejoy NR, Mandrak NE, Chang BSW. Adaptive Evolution of Nearctic Deepwater Fish Vision: Implications for Assessing Functional Variation for Conservation. Mol Biol Evol 2024; 41:msae024. [PMID: 38314890 PMCID: PMC10896662 DOI: 10.1093/molbev/msae024] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2023] [Revised: 12/15/2023] [Accepted: 01/05/2024] [Indexed: 02/07/2024] Open
Abstract
Intraspecific functional variation is critical for adaptation to rapidly changing environments. For visual opsins, functional variation can be characterized in vitro and often reflects a species' ecological niche but is rarely considered in the context of intraspecific variation or the impact of recent environmental changes on species of cultural or commercial significance. Investigation of adaptation in postglacial lakes can provide key insight into how rapid environmental changes impact functional evolution. Here, we report evidence for molecular adaptation in vision in 2 lineages of Nearctic fishes that are deep lake specialists: ciscoes and deepwater sculpin. We found depth-related variation in the dim-light visual pigment rhodopsin that evolved convergently in these 2 lineages. In vitro characterization of spectral sensitivity of the convergent deepwater rhodopsin alleles revealed blue-shifts compared with other more widely distributed alleles. These blue-shifted rhodopsin alleles were only observed in deep clear postglacial lakes with underwater visual environments enriched in blue light. This provides evidence of remarkably rapid and convergent visual adaptation and intraspecific functional variation in rhodopsin. Intraspecific functional variation has important implications for conservation, and these fishes are of conservation concern and great cultural, commercial, and nutritional importance to Indigenous communities. We collaborated with the Saugeen Ojibway Nation to develop and test a metabarcoding approach that we show is efficient and accurate in recovering the ecological distribution of functionally relevant variation in rhodopsin. Our approach bridges experimental analyses of protein function and genetics-based tools used in large-scale surveys to better understand the ecological extent of adaptive functional variation.
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Affiliation(s)
- Alexander Van Nynatten
- Department of Biological Science, University of Toronto Scarborough, Scarborough, Ontario, Canada
| | - Alexander T Duncan
- Faculty of Natural Resources Management, Lakehead University, Thunder Bay, Ontario, Canada
- Fisheries Assessment Program, Chippewas of Nawash Unceded First Nation, Neyaashiinigmiing, Ontario, Canada
| | - Ryan Lauzon
- Fisheries Assessment Program, Chippewas of Nawash Unceded First Nation, Neyaashiinigmiing, Ontario, Canada
| | | | - Steven K Chen
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
| | - Nathan R Lovejoy
- Department of Biological Science, University of Toronto Scarborough, Scarborough, Ontario, Canada
- Department of Ecological and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
| | - Nicholas E Mandrak
- Department of Biological Science, University of Toronto Scarborough, Scarborough, Ontario, Canada
- Department of Ecological and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
| | - Belinda S W Chang
- Department of Cell and Systems Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Ecological and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
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16
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Sanabria-Fernández JA, Génin A, Dakos V. Unveiling functional linkages between habitats and organisms: Macroalgal habitats as influential factors of fish functional traits. MARINE ENVIRONMENTAL RESEARCH 2024; 194:106305. [PMID: 38145605 DOI: 10.1016/j.marenvres.2023.106305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2023] [Revised: 12/10/2023] [Accepted: 12/12/2023] [Indexed: 12/27/2023]
Abstract
Understanding the relationship between the characteristics of habitats and their associated community is essential to comprehend the functioning of ecological systems and prevent their degradation. This is particularly relevant for in decline, habitat-forming species, such as macroalgae, which support diverse communities of fish in temperate rocky reefs. To understand the link between the functional habitats of macroalgae and the functional dimension of their associated fish communities, we used a standardized underwater visual census to quantify the macroalgal functional diversity, as well as the functional diversity, redundancy, and richness of fish communities in 400 sites scattered in three southern temperate marine realms. Our findings reveal that functional macroalgal habitats can be classified into three groups that shape the functional diversity, redundancy, and richness of fish when considering trait commonness. These results enhance our comprehension of the functional connections between the habitat and coexisting fish within marine ecosystems, providing valuable insights for the preservation of these habitats.
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Affiliation(s)
- José A Sanabria-Fernández
- Vicerectorat de Recerca, Universitat de Barcelona, Barcelona, Spain; Department of Zoology, Genetics and Physical Anthropology, CRETUS, University of Santiago de Compostela, Santiago de Compostela, Spain.
| | - Alexandre Génin
- Copernicus Institute of Sustainable Development, Utrecht University, Utrecht, Netherlands; Estación Costera de Investigaciones Marinas, Las Cruces, Departamento de Ecología, Pontificia Universidad Católica de Chile, Santiago, 8331150, Chile
| | - Vasilis Dakos
- ISEM, CNRS, Univ. Montpellier, IRD, EPHE, Montpellier, France
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17
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Maureaud AA, Palacios-Abrantes J, Kitchel Z, Mannocci L, Pinsky ML, Fredston A, Beukhof E, Forrest DL, Frelat R, Palomares MLD, Pecuchet L, Thorson JT, van Denderen PD, Mérigot B. FISHGLOB_data: an integrated dataset of fish biodiversity sampled with scientific bottom-trawl surveys. Sci Data 2024; 11:24. [PMID: 38177193 PMCID: PMC10766603 DOI: 10.1038/s41597-023-02866-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2023] [Accepted: 12/18/2023] [Indexed: 01/06/2024] Open
Abstract
Scientific bottom-trawl surveys are ecological observation programs conducted along continental shelves and slopes of seas and oceans that sample marine communities associated with the seafloor. These surveys report taxa occurrence, abundance and/or weight in space and time, and contribute to fisheries management as well as population and biodiversity research. Bottom-trawl surveys are conducted all over the world and represent a unique opportunity to understand ocean biogeography, macroecology, and global change. However, combining these data together for cross-ecosystem analyses remains challenging. Here, we present an integrated dataset of 29 publicly available bottom-trawl surveys conducted in national waters of 18 countries that are standardized and pre-processed, covering a total of 2,170 sampled fish taxa and 216,548 hauls collected from 1963 to 2021. We describe the processing steps to create the dataset, flags, and standardization methods that we developed to assist users in conducting spatio-temporal analyses with stable regional survey footprints. The aim of this dataset is to support research, marine conservation, and management in the context of global change.
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Affiliation(s)
- Aurore A Maureaud
- Center for Biodiversity & Global Change, Yale University, New Haven, CT, USA.
- Department of Ecology & Evolutionary Biology, Yale University, New Haven, CT, USA.
- Department of Ecology, Evolution & Natural Resources, Rutgers University, New Brunswick, NJ, USA.
| | - Juliano Palacios-Abrantes
- Changing Ocean Research Unit, Institute for the Oceans & Fisheries, The University of British Columbia, Vancouver, BC, Canada
| | - Zoë Kitchel
- Department of Ecology, Evolution & Natural Resources, Rutgers University, New Brunswick, NJ, USA
| | - Laura Mannocci
- FRB-CESAB, Montpellier, France
- MARBEC, Univ Montpellier, CNRS, IRD, IFREMER, Sète, France
| | - Malin L Pinsky
- Department of Ecology, Evolution & Natural Resources, Rutgers University, New Brunswick, NJ, USA
- Department of Ecology & Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, USA
| | - Alexa Fredston
- Department of Ecology, Evolution & Natural Resources, Rutgers University, New Brunswick, NJ, USA
- Department of Ocean Sciences, University of California, Santa Cruz, Santa Cruz, CA, USA
| | - Esther Beukhof
- National Institute of Aquatic Resources, Technical University of Denmark, Kongens Lyngby, Denmark
| | - Daniel L Forrest
- Department of Ecology, Evolution & Natural Resources, Rutgers University, New Brunswick, NJ, USA
- Institute for Resources, Environment and Sustainability, The University of British Columbia, Vancouver, BC, Canada
| | - Romain Frelat
- International Livestock Research Institute, Nairobi, Kenya
| | - Maria L D Palomares
- Sea Around Us, Institute for the Oceans and Fisheries, The University of British Columbia, Vancouver, BC, Canada
| | | | - James T Thorson
- Alaska Fisheries Science Center, National Marine Fisheries Service (NOAA), Seattle, WA, USA
| | - P Daniël van Denderen
- National Institute of Aquatic Resources, Technical University of Denmark, Kongens Lyngby, Denmark
- Graduate School of Oceanography, University of Rhode Island, Narragansett, RI, 02882, USA
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18
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Looby A, Erbe C, Bravo S, Cox K, Davies HL, Di Iorio L, Jézéquel Y, Juanes F, Martin CW, Mooney TA, Radford C, Reynolds LK, Rice AN, Riera A, Rountree R, Spriel B, Stanley J, Vela S, Parsons MJG. Global inventory of species categorized by known underwater sonifery. Sci Data 2023; 10:892. [PMID: 38110417 PMCID: PMC10728183 DOI: 10.1038/s41597-023-02745-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Accepted: 11/13/2023] [Indexed: 12/20/2023] Open
Abstract
A working group from the Global Library of Underwater Biological Sounds effort collaborated with the World Register of Marine Species (WoRMS) to create an inventory of species confirmed or expected to produce sound underwater. We used several existing inventories and additional literature searches to compile a dataset categorizing scientific knowledge of sonifery for 33,462 species and subspecies across marine mammals, other tetrapods, fishes, and invertebrates. We found 729 species documented as producing active and/or passive sounds under natural conditions, with another 21,911 species deemed likely to produce sounds based on evaluated taxonomic relationships. The dataset is available on both figshare and WoRMS where it can be regularly updated as new information becomes available. The data can also be integrated with other databases (e.g., SeaLifeBase, Global Biodiversity Information Facility) to advance future research on the distribution, evolution, ecology, management, and conservation of underwater soniferous species worldwide.
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Affiliation(s)
- Audrey Looby
- Fisheries and Aquatic Sciences, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, FL, USA.
- Nature Coast Biological Station, Institute of Food and Agricultural Sciences, University of Florida, Cedar Key, FL, USA.
| | - Christine Erbe
- Centre for Marine Science and Technology, Curtin University, Perth, WA, Australia
| | - Santiago Bravo
- Instituto Oceanográfico, Universidade de São Paulo, São Paulo, SP, Brasil
| | - Kieran Cox
- Department of Biological Sciences, Simon Fraser University, Burnaby, BC, Canada
| | - Hailey L Davies
- Department of Biology, University of Victoria, Victoria, BC, Canada
| | - Lucia Di Iorio
- Centre de Formation et de Recherche sur les Environnements Méditerranéens, CNRS, Université de Perpignan Via Domitia, Perpignan, France
| | - Youenn Jézéquel
- Biology Department, Woods Hole Oceanographic Institution, Woods Hole, MA, USA
| | - Francis Juanes
- Department of Biology, University of Victoria, Victoria, BC, Canada
| | - Charles W Martin
- Nature Coast Biological Station, Institute of Food and Agricultural Sciences, University of Florida, Cedar Key, FL, USA
- Stokes School of Marine and Environmental Sciences, University of South Alabama and Dauphin Island Sea Lab, Dauphin Island, AL, USA
| | - T Aran Mooney
- Biology Department, Woods Hole Oceanographic Institution, Woods Hole, MA, USA
| | - Craig Radford
- Institute of Marine Science, Leigh Marine Laboratory, University of Auckland, Warkworth, New Zealand
| | - Laura K Reynolds
- Soil, Water, and Ecosystem Sciences Department, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, FL, USA
| | - Aaron N Rice
- K. Lisa Yang Center for Conservation Bioacoustics, Cornell Lab of Ornithology, Cornell University, Ithaca, NY, USA
| | - Amalis Riera
- Department of Biology, University of Victoria, Victoria, BC, Canada
| | - Rodney Rountree
- Department of Biology, University of Victoria, Victoria, BC, Canada
- The Fish Listener, Waquoit, MA, USA
| | - Brittnie Spriel
- Department of Biology, University of Victoria, Victoria, BC, Canada
| | - Jenni Stanley
- Coastal Marine Field Station, School of Science, University of Waikato, Tauranga, New Zealand
| | - Sarah Vela
- MERIDIAN, Halifax, NS, Canada
- Dalhousie University, Halifax, NS, Canada
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19
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Pimiento C, Albouy C, Silvestro D, Mouton TL, Velez L, Mouillot D, Judah AB, Griffin JN, Leprieur F. Functional diversity of sharks and rays is highly vulnerable and supported by unique species and locations worldwide. Nat Commun 2023; 14:7691. [PMID: 38001077 PMCID: PMC10673927 DOI: 10.1038/s41467-023-43212-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2023] [Accepted: 11/02/2023] [Indexed: 11/26/2023] Open
Abstract
Elasmobranchs (sharks, rays and skates) are among the most threatened marine vertebrates, yet their global functional diversity remains largely unknown. Here, we use a trait dataset of >1000 species to assess elasmobranch functional diversity and compare it against other previously studied biodiversity facets (taxonomic and phylogenetic), to identify species- and spatial- conservation priorities. We show that threatened species encompass the full extent of functional space and disproportionately include functionally distinct species. Applying the conservation metric FUSE (Functionally Unique, Specialised, and Endangered) reveals that most top-ranking species differ from the top Evolutionarily Distinct and Globally Endangered (EDGE) list. Spatial analyses further show that elasmobranch functional richness is concentrated along continental shelves and around oceanic islands, with 18 distinguishable hotspots. These hotspots only marginally overlap with those of other biodiversity facets, reflecting a distinct spatial fingerprint of functional diversity. Elasmobranch biodiversity facets converge with fishing pressure along the coast of China, which emerges as a critical frontier in conservation. Meanwhile, several components of elasmobranch functional diversity fall in high seas and/or outside the global network of marine protected areas. Overall, our results highlight acute vulnerability of the world's elasmobranchs' functional diversity and reveal global priorities for elasmobranch functional biodiversity previously overlooked.
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Affiliation(s)
- Catalina Pimiento
- Department of Paleontology, University of Zurich, Zurich, Switzerland.
- Department of Biosciences, Swansea University, Swansea, UK.
- Smithsonian Tropical Research Institute, Balboa, Panama.
| | - Camille Albouy
- Ecosystem and Landscape Evolution, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zurich, Zurich, Switzerland
- Unit of Land Change Science, Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
| | - Daniele Silvestro
- Department of Biology, University of Fribourg, Fribourg, Switzerland
- Swiss Institute of Bioinformatics, Fribourg, Switzerland
- Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden
- Gothenburg Global Biodiversity Centre, Department of Biological and Environmental Sciences, University of Gothenburg, Gothenburg, Sweden
| | - Théophile L Mouton
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- International Union for Conservation of Nature Species Survival Commission Shark Specialist Group, P.O. Box 29588, Dubai, United Arab Emirates
| | - Laure Velez
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - David Mouillot
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Aaron B Judah
- Department of Biology, Dalhousie University, Halifax, NS, Canada
| | - John N Griffin
- Department of Biosciences, Swansea University, Swansea, UK
| | - Fabien Leprieur
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
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20
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Baletaud F, Lecellier G, Gilbert A, Mathon L, Côme JM, Dejean T, Dumas M, Fiat S, Vigliola L. Comparing Seamounts and Coral Reefs with eDNA and BRUVS Reveals Oases and Refuges on Shallow Seamounts. BIOLOGY 2023; 12:1446. [PMID: 37998045 PMCID: PMC10669620 DOI: 10.3390/biology12111446] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Revised: 11/13/2023] [Accepted: 11/13/2023] [Indexed: 11/25/2023]
Abstract
Seamounts are the least known ocean biome. Considered biodiversity hotspots, biomass oases, and refuges for megafauna, large gaps exist in their real diversity relative to other ecosystems like coral reefs. Using environmental DNA metabarcoding (eDNA) and baited video (BRUVS), we compared fish assemblages across five environments of different depths: coral reefs (15 m), shallow seamounts (50 m), continental slopes (150 m), intermediate seamounts (250 m), and deep seamounts (500 m). We modeled assemblages using 12 environmental variables and found depth to be the main driver of fish diversity and biomass, although other variables like human accessibility were important. Boosted Regression Trees (BRT) revealed a strong negative effect of depth on species richness, segregating coral reefs from deep-sea environments. Surprisingly, BRT showed a hump-shaped effect of depth on fish biomass, with significantly lower biomass on coral reefs than in shallowest deep-sea environments. Biomass of large predators like sharks was three times higher on shallow seamounts (50 m) than on coral reefs. The five studied environments showed quite distinct assemblages. However, species shared between coral reefs and deeper-sea environments were dominated by highly mobile large predators. Our results suggest that seamounts are no diversity hotspots for fish. However, we show that shallower seamounts form biomass oases and refuges for threatened megafauna, suggesting that priority should be given to their protection.
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Affiliation(s)
- Florian Baletaud
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
- GINGER SOPRONER, 98000 Noumea, New Caledonia, France;
- GINGER BURGEAP, 69000 Lyon, France;
- MARBEC, University of Montpellier, CNRS, IFREMER, 34000 Montpellier, France
| | - Gaël Lecellier
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
- ISEA, University of New Caledonia, 98800 Noumea, New Caledonia, France
| | | | - Laëtitia Mathon
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
- CEFE, University of Montpellier, CNRS, EPHE-PSL, IRD, 34000 Montpellier, France
| | | | | | - Mahé Dumas
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
| | - Sylvie Fiat
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
| | - Laurent Vigliola
- ENTROPIE, Institut de Recherche pour le Développement (IRD), UR, UNC, IFREMER, CNRS, Centre IRD de Nouméa, 98848 Noumea, New Caledonia, France; (F.B.); (G.L.); (L.M.); (M.D.); (S.F.)
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21
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Looby A, Bravo S, Juanes F, Rountree R, Riera A, Davies HL, Spriel B, Vela S, Reynolds LK, Martin CW, Cox K. The importance of context in the acoustic behaviors of marine, subtropical fish speciesa). THE JOURNAL OF THE ACOUSTICAL SOCIETY OF AMERICA 2023; 154:3252-3258. [PMID: 37975736 DOI: 10.1121/10.0022412] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/21/2023] [Accepted: 10/31/2023] [Indexed: 11/19/2023]
Abstract
Despite the importance of acoustic signaling in fishes, the prevalence of the behavioral contexts associated with their active (i.e., intentional) sound production remains unclear. A systematized review was conducted to explore documented acoustic behaviors in marine, subtropical fishes and potential influences affecting their relative pervasiveness. Data were collected on 186 actively soniferous fish species studied across 194 publications, identified based on existing FishSounds and FishBase datasets. Disturbance was the most common behavioral context associated with active sound production-reported for 140 species or 75% of the species studied-and then aggression (n = 46 species, 25%) and reproduction (n = 34 species, 18%). This trend, however, somewhat differed when examined by research effort, study environment, and fish family, such as reproductive sounds being more commonly reported by studies conducted in the wild. The synthesis of fish sound production behaviors was in some ways stymied by the fact that many species' sound production did not have discernible associated behavioral contexts and that some investigations did not clearly identify the study environments in which active sound production was observed. These findings emphasize the importance of context-behavioral or otherwise-when studying acoustic behaviors in fishes.
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Affiliation(s)
- Audrey Looby
- Fisheries and Aquatic Sciences, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida 32611, USA
| | - Santiago Bravo
- Instituto Oceanográfico, Universidade de São Paulo, São Paulo 05508-120, Brazil
| | - Francis Juanes
- Department of Biology, University of Victoria, Victoria, British Columbia V8P 3E6, Canada
| | - Rodney Rountree
- Department of Biology, University of Victoria, Victoria, British Columbia V8P 3E6, Canada
| | - Amalis Riera
- Department of Biology, University of Victoria, Victoria, British Columbia V8P 3E6, Canada
| | - Hailey L Davies
- Department of Biology, University of Victoria, Victoria, British Columbia V8P 3E6, Canada
| | - Brittnie Spriel
- Department of Biology, University of Victoria, Victoria, British Columbia V8P 3E6, Canada
| | - Sarah Vela
- MERIDIAN, Halifax, Nova Scotia B3H 4R2, Canada
| | - Laura K Reynolds
- Soil, Water, and Ecosystem Sciences, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida 32611, USA
| | - Charles W Martin
- Nature Coast Biological Station, Institute of Food and Agricultural Sciences, University of Florida, Cedar Key, Florida 32625, USA
| | - Kieran Cox
- Department of Biological Sciences, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada
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22
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Roberts L, Rice AN. Vibrational and acoustic communication in fishes: The overlooked overlap between the underwater vibroscape and soundscape. THE JOURNAL OF THE ACOUSTICAL SOCIETY OF AMERICA 2023; 154:2708-2720. [PMID: 37888943 DOI: 10.1121/10.0021878] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/04/2023] [Accepted: 09/20/2023] [Indexed: 10/28/2023]
Abstract
Substrate-borne communication via mechanical waves is widespread throughout the animal kingdom but has not been intensively studied in fishes. Families such as the salmonids and sculpins have been documented to produce vibratory signals. However, it is likely that fish taxa on or close to the substrate that produce acoustic signals will also have a vibratory component to their signal due to their proximity to substrates and energy transfer between media. Fishes present an intriguing opportunity to study vibrational communication, particularly in the context of signal production and detection, detection range, and how vibratory signals may complement or replace acoustic signals. It is highly likely that the vibrational landscape, the vibroscape, is an important component of their sensory world, which certainly includes and overlaps with the soundscape. With the wide range of anthropogenic activities modifying underwater substrates, vibrational noise presents similar risks as acoustic noise pollution for fishes that depend on vibrational communication. However, in order to understand vibrational noise, more empirical studies are required to investigate the role of vibrations in the fish environment.
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Affiliation(s)
- Louise Roberts
- School of Environmental Sciences, University of Liverpool, Liverpool, L69 3GP, United Kingdom
| | - Aaron N Rice
- K. Lisa Yang Center for Conservation Bioacoustics Cornell Lab of Ornithology, Cornell University, Ithaca, New York 14850, USA
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23
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Lavin CP, Pauly D, Dimarchopoulou D, Liang C, Costello MJ. Fishery catch is affected by geographic expansion, fishing down food webs and climate change in Aotearoa, New Zealand. PeerJ 2023; 11:e16070. [PMID: 37750081 PMCID: PMC10518166 DOI: 10.7717/peerj.16070] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2023] [Accepted: 08/20/2023] [Indexed: 09/27/2023] Open
Abstract
Historical fishing effort has resulted, in many parts of the ocean, in increasing catches of smaller, lower trophic level species once larger higher trophic level species have been depleted. Concurrently, changes in the geographic distribution of marine species have been observed as species track their thermal affinity in line with ocean warming. However, geographic shifts in fisheries, including to deeper waters, may conceal the phenomenon of fishing down the food web and effects of climate warming on fish stocks. Fisheries-catch weighted metrics such as the Mean Trophic Level (MTL) and Mean Temperature of the Catch (MTC) are used to investigate these phenomena, although apparent trends of these metrics can be masked by the aforementioned geographic expansion and deepening of fisheries catch across large areas and time periods. We investigated instances of both fishing down trophic levels and climate-driven changes in the geographic distribution of fished species in New Zealand waters from 1950-2019, using the MTL and MTC. Thereafter, we corrected for the masking effect of the geographic expansion of fisheries within these indices by using the Fishing-in-Balance (FiB) index and the adapted Mean Trophic Level (aMTL) index. Our results document the offshore expansion of fisheries across the New Zealand Exclusive Economic Zone (EEZ) from 1950-2019, as well as the pervasiveness of fishing down within nearshore fishing stock assemblages. We also revealed the warming of the MTC for pelagic-associated fisheries, trends that were otherwise masked by the depth- and geographic expansion of New Zealand fisheries across the study period.
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Affiliation(s)
| | - Daniel Pauly
- Sea Around Us, Institute for the Ocean and Fisheries, University of British Columbia, Vancouver, British Columbia, Canada
| | - Donna Dimarchopoulou
- Biology Department, Dalhousie University, Halifax, Nova Scotia, Canada
- Biology Department, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, United States
| | - Cui Liang
- Key Laboratory of Marine Ecology and Environmental Science, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
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24
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Miller EC. Historical biogeography supports Point Conception as the site of turnover between temperate East Pacific ichthyofaunas. PLoS One 2023; 18:e0291776. [PMID: 37725614 PMCID: PMC10508600 DOI: 10.1371/journal.pone.0291776] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2023] [Accepted: 09/05/2023] [Indexed: 09/21/2023] Open
Abstract
The cold temperate and subtropical marine faunas of the Northeastern Pacific meet within California as part of one of the few eastern boundary upwelling ecosystems in the world. Traditionally, it is believed that Point Conception is the precise site of turnover between these two faunas due to sharp changes in oceanographic conditions. However, evidence from intraspecific phylogeography and species range terminals do not support this view, finding stronger biogeographic breaks elsewhere along the coast. Here I develop a new application of historical biogeographic approaches to uncover sites of transition between faunas without needing an a priori hypothesis of where these occur. I used this approach to determine whether the point of transition between northern and southern temperate faunas occurs at Point Conception or elsewhere within California. I also examined expert-vetted latitudinal range data of California fish species from the 1970s and the 2020s to assess how biogeography could change with the backdrop of climate change. The site of turnover was found to occur near Point Conception, in concordance with the traditional view. I suggest that recent species- and population-level processes could be expected to give signals of different events from historical biogeography, possibly explaining the discrepancy across studies. Species richness of California has increased since the 1970s, mostly due to species's ranges expanding northward from Baja California (Mexico). Range shifts under warming conditions seem to be increasing the disparity between northern and southern faunas of California, creating a more divergent biogeography.
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Affiliation(s)
- Elizabeth Christina Miller
- Department of Biology, University of Oklahoma, Norman, Oklahoma, United States of America
- Marine Biology Research Division, Scripps Institution of Oceanography, University of California San Diego, La Jolla, California, United States of America
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25
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García-Andrade AB, Tedesco PA, Carvajal-Quintero JD, Arango A, Villalobos F. Same process, different patterns: pervasive effect of evolutionary time on species richness in freshwater fishes. Proc Biol Sci 2023; 290:20231066. [PMID: 37700646 PMCID: PMC10498035 DOI: 10.1098/rspb.2023.1066] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Accepted: 08/18/2023] [Indexed: 09/14/2023] Open
Abstract
Tropical lands harbour the highest number of species, resulting in the ubiquitous latitudinal diversity gradient (LDG). However, exceptions to this pattern have been observed in some taxa, explained by the interaction between the evolutionary histories and environmental factors that constrain species' physiological and ecological requirements. Here, we applied a deconstruction approach to map the detailed species richness patterns of Actinopterygian freshwater fishes at the class and order levels and to disentangle their drivers using geographical ranges and a phylogeny, comprising 77% (12 557) of all described species. We jointly evaluated seven evolutionary and ecological hypotheses posited to explain the LDG: diversification rate, time for speciation, species-area relationship, environmental heterogeneity, energy, temperature seasonality and past temperature stability. We found distinct diversity gradients across orders, including expected, bimodal and inverse LDGs. Despite these differences, the positive effect of evolutionary time explained patterns for all orders, where species-rich regions are inhabited by older species compared to species-poor regions. Overall, the LDG of each order has been shaped by a unique combination of factors, highlighting the importance of performing a joint evaluation of evolutionary, historical and ecological factors at different taxonomic levels to reach a comprehensive understanding on the causes driving global species richness patterns.
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Affiliation(s)
- Ana Berenice García-Andrade
- Laboratorio de Macroecología Evolutiva, Red de Biología Evolutiva, Instituto de Ecología, A.C. Carretera antigua a Coatepec 351, El Haya, 91070 Xalapa, Veracruz, México
| | - Pablo A. Tedesco
- UMR 5174 EDB—Evolution & Diversité Biologique, Institut de Recherche pour le Développement, Université Paul Sabatier - Bat. 4R1, 118 route de Narbonne, 31062 Toulouse cedex 4, France
| | - Juan D. Carvajal-Quintero
- German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Puschstr. 4, D-04103 Leipzig, Germany
| | - Axel Arango
- Laboratorio de Macroecología Evolutiva, Red de Biología Evolutiva, Instituto de Ecología, A.C. Carretera antigua a Coatepec 351, El Haya, 91070 Xalapa, Veracruz, México
| | - Fabricio Villalobos
- Laboratorio de Macroecología Evolutiva, Red de Biología Evolutiva, Instituto de Ecología, A.C. Carretera antigua a Coatepec 351, El Haya, 91070 Xalapa, Veracruz, México
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26
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Eldem V, Zararsız G, Erkan M. Global expression pattern of genes containing positively selected sites in European anchovy (Engraulis encrasicolus L.) may shed light on teleost reproduction. PLoS One 2023; 18:e0289940. [PMID: 37566603 PMCID: PMC10420382 DOI: 10.1371/journal.pone.0289940] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Accepted: 07/30/2023] [Indexed: 08/13/2023] Open
Abstract
European anchovy is a multiple-spawning and highly fecundate pelagic fish with high economic and ecological significance. Although fecundity is influenced by nutrition, temperature and weight of spawners, high reproductive capacity is related to molecular processes in the ovary. The ovary is an essential and complex reproductive organ composed of various somatic and germ cells, which interact to facilitate the development of the ovary and functional oocytes. Revealing the ovarian transcriptome profile of highly fecundate fishes provides insights into oocyte production in teleosts. Here we use a comprehensive tissue-specific RNA sequencing which yielded 102.3 billion clean bases to analyze the transcriptional profiles of the ovary compared with other organs (liver, kidney, ovary, testis, fin, cauda and gill) and juvenile tissues of European anchovy. We conducted a comparative transcriptome and positive selection analysis of seven teleost species with varying fecundity rates to identify genes potentially involved in oogenesis and oocyte development. Of the 2,272 single copies of orthologous genes found, up to 535 genes were under positive selection in European anchovy and these genes are associated with a wide spectrum of cellular and molecular functions, with enrichments such as RNA methylation and modification, ribosome biogenesis, DNA repair, cell cycle processing and peptide/amide biosynthesis. Of the 535 positively selected genes, 55 were upregulated, and 45 were downregulated in the ovary, most of which were related to RNA and DNA transferase, developmental transcription factors, protein kinases and replication factors. Overall, our analysis of the transcriptome level in the ovarian tissue of a teleost will provide further insights into molecular processes and deepen our genetic understanding of egg production in highly fecund fish.
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Affiliation(s)
- Vahap Eldem
- Faculty of Sciences, Department of Biology, Istanbul University, Istanbul, Turkey
| | - Gökmen Zararsız
- Department of Biostatistics, Erciyes University, Kayseri, Turkey
| | - Melike Erkan
- Faculty of Sciences, Department of Biology, Istanbul University, Istanbul, Turkey
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27
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Bemis KE, Girard MG, Santos MD, Carpenter KE, Deeds JR, Pitassy DE, Flores NAL, Hunter ES, Driskell AC, Macdonald KS, Weigt LA, Williams JT. Biodiversity of Philippine marine fishes: A DNA barcode reference library based on voucher specimens. Sci Data 2023; 10:411. [PMID: 37355644 PMCID: PMC10290705 DOI: 10.1038/s41597-023-02306-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 06/12/2023] [Indexed: 06/26/2023] Open
Abstract
Accurate identification of fishes is essential for understanding their biology and to ensure food safety for consumers. DNA barcoding is an important tool because it can verify identifications of both whole and processed fishes that have had key morphological characters removed (e.g., filets, fish meal); however, DNA reference libraries are incomplete, and public repositories for sequence data contain incorrectly identified sequences. During a nine-year sampling program in the Philippines, a global biodiversity hotspot for marine fishes, we developed a verified reference library of cytochrome c oxidase subunit I (COI) sequences for 2,525 specimens representing 984 species. Specimens were primarily purchased from markets, with additional diversity collected using rotenone or fishing gear. Species identifications were verified based on taxonomic, phenotypic, and genotypic data, and sequences are associated with voucher specimens, live-color photographs, and genetic samples catalogued at Smithsonian Institution, National Museum of Natural History. The Biodiversity of Philippine Marine Fishes dataset is released herein to increase knowledge of species diversity and distributions and to facilitate accurate identification of market fishes.
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Affiliation(s)
- Katherine E Bemis
- National Systematics Laboratory, Office of Science and Technology, NOAA Fisheries, Washington, D.C., 20560, USA.
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA.
| | - Matthew G Girard
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA.
- Biodiversity Institute, University of Kansas, Lawrence, Kansas, 66045, USA.
| | - Mudjekeewis D Santos
- Genetic Fingerprinting Laboratory, National Fisheries Research and Development Institute, Quezon City, 1103, Philippines
| | - Kent E Carpenter
- Department of Biological Sciences, Old Dominion University, Norfolk, Virginia, 23529, USA
| | - Jonathan R Deeds
- Center for Food Safety and Applied Nutrition, United States Food and Drug Administration, College Park, Maryland, 20740, USA
| | - Diane E Pitassy
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA
| | - Nicko Amor L Flores
- Genetic Fingerprinting Laboratory, National Fisheries Research and Development Institute, Quezon City, 1103, Philippines
| | - Elizabeth S Hunter
- Center for Food Safety and Applied Nutrition, United States Food and Drug Administration, College Park, Maryland, 20740, USA
| | - Amy C Driskell
- Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA
| | - Kenneth S Macdonald
- Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA
| | - Lee A Weigt
- Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA
| | - Jeffrey T Williams
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, D.C., 20560, USA.
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28
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Zhou J, Mogollón JM, van Bodegom PM, Barbarossa V, Beusen AHW, Scherer L. Effects of Nitrogen Emissions on Fish Species Richness across the World's Freshwater Ecoregions. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023. [PMID: 37216582 DOI: 10.1021/acs.est.2c09333] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The increasing application of synthetic fertilizer has tripled nitrogen (N) inputs over the 20th century. N enrichment decreases water quality and threatens aquatic species such as fish through eutrophication and toxicity. However, the impacts of N on freshwater ecosystems are typically neglected in life cycle assessment (LCA). Due to the variety of environmental conditions and species compositions, the response of species to N emissions differs among ecoregions, requiring a regionalized effect assessment. Our study tackled this issue by establishing regionalized species sensitivity distributions (SSDs) of freshwater fish against N concentrations for 367 ecoregions and 48 combinations of realms and major habitat types globally. Subsequently, effect factors (EFs) were derived for LCA to assess the effects of N on fish species richness at a 0.5 degree × 0.5 degree resolution. Results show good SSD fits for all of the ecoregions that contain sufficient data and similar patterns for average and marginal EFs. The SSDs highlight strong effects on species richness due to high N concentrations in the tropical zone and the vulnerability of cold regions. Our study revealed the regional differences in sensitivities of freshwater ecosystems against N content in great spatial detail and can be used to assess more precisely and comprehensively nutrient-induced impacts in LCA.
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Affiliation(s)
- Jinhui Zhou
- Institute of Environmental Sciences (CML), Leiden University, 2311 EZ Leiden, The Netherlands
| | - José M Mogollón
- Institute of Environmental Sciences (CML), Leiden University, 2311 EZ Leiden, The Netherlands
| | - Peter M van Bodegom
- Institute of Environmental Sciences (CML), Leiden University, 2311 EZ Leiden, The Netherlands
| | - Valerio Barbarossa
- Institute of Environmental Sciences (CML), Leiden University, 2311 EZ Leiden, The Netherlands
- PBL Netherlands Environmental Assessment Agency, 2594 AV The Hague, The Netherlands
| | - Arthur H W Beusen
- PBL Netherlands Environmental Assessment Agency, 2594 AV The Hague, The Netherlands
- Department of Earth Sciences, Utrecht University, 3584 CS Utrecht, The Netherlands
| | - Laura Scherer
- Institute of Environmental Sciences (CML), Leiden University, 2311 EZ Leiden, The Netherlands
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29
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Rutterford LA, Simpson SD, Bogstad B, Devine JA, Genner MJ. Sea temperature is the primary driver of recent and predicted fish community structure across Northeast Atlantic shelf seas. GLOBAL CHANGE BIOLOGY 2023; 29:2510-2521. [PMID: 36896634 DOI: 10.1111/gcb.16633] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2022] [Accepted: 12/07/2022] [Indexed: 05/31/2023]
Abstract
Climate change has strongly influenced the distribution and abundance of marine fish species, leading to concern about effects of future climate on commercially harvested stocks. Understanding the key drivers of large-scale spatial variation across present-day marine assemblages enables predictions of future change. Here we present a unique analysis of standardised abundance data for 198 marine fish species from across the Northeast Atlantic collected by 23 surveys and 31,502 sampling events between 2005 and 2018. Our analyses of the spatially comprehensive standardised data identified temperature as the key driver of fish community structure across the region, followed by salinity and depth. We employed these key environmental variables to model how climate change will affect both the distributions of individual species and local community structure for the years 2050 and 2100 under multiple emissions scenarios. Our results consistently indicate that projected climate change will lead to shifts in species communities across the entire region. Overall, the greatest community-level changes are predicted at locations with greater warming, with the most pronounced effects at higher latitudes. Based on these results, we suggest that future climate-driven warming will lead to widespread changes in opportunities for commercial fisheries across the region.
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Affiliation(s)
- Louise A Rutterford
- Centre for Environment Fisheries and Aquaculture Science (Cefas), Lowestoft Laboratory, Suffolk, UK
- Biosciences, College of Life & Environmental Sciences, University of Exeter, Exeter, UK
- School of Biological Sciences, Life Sciences Building, University of Bristol, Bristol, UK
| | - Stephen D Simpson
- Biosciences, College of Life & Environmental Sciences, University of Exeter, Exeter, UK
- School of Biological Sciences, Life Sciences Building, University of Bristol, Bristol, UK
| | | | - Jennifer A Devine
- Institute of Marine Research (IMR), Bergen, Norway
- National Institute of Water and Atmospheric Research (NIWA) Ltd, Nelson, New Zealand
| | - Martin J Genner
- School of Biological Sciences, Life Sciences Building, University of Bristol, Bristol, UK
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30
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Watanabe YY, Payne NL. Thermal sensitivity of metabolic rate mirrors biogeographic differences between teleosts and elasmobranchs. Nat Commun 2023; 14:2054. [PMID: 37045817 PMCID: PMC10097821 DOI: 10.1038/s41467-023-37637-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2022] [Accepted: 03/24/2023] [Indexed: 04/14/2023] Open
Abstract
Environmental temperature affects physiological functions, representing a barrier for the range expansions of ectothermic species. To understand the link between thermal physiology and biogeography, a key question is whether among-species thermal sensitivity of metabolic rates is mechanistically constrained or buffered through physiological remodeling over evolutionary time. The former conception, the Universal Temperature Dependence hypothesis, predicts similar among- and within-species thermal sensitivity. The latter conception, the Metabolic Cold Adaptation hypothesis, predicts lower among-species thermal sensitivity than within-species sensitivity. Previous studies that tested these hypotheses for fishes overwhelmingly investigated teleosts with elasmobranchs understudied. Here, we show that among-species thermal sensitivity of resting metabolic rates is lower than within-species sensitivity in teleosts but not in elasmobranchs. Further, species richness declines with latitude more rapidly in elasmobranchs than in teleosts. Metabolic Cold Adaptation exhibited by teleosts might underpin their high diversity at high latitudes, whereas the inflexible thermal sensitivity approximated by Universal Temperature Dependence of elasmobranchs might explain their low diversity at high latitudes.
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Affiliation(s)
- Yuuki Y Watanabe
- National Institute of Polar Research, Tachikawa, Tokyo, Japan.
- Department of Polar Science, The Graduate University for Advanced Studies, SOKENDAI, Tachikawa, Tokyo, Japan.
- Research Center for Integrative Evolutionary Science, The Graduate University for Advanced Studies, SOKENDAI, Hayama, Kanagawa, Japan.
| | - Nicholas L Payne
- School of Natural Sciences, Trinity College Dublin, Dublin, Ireland
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31
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Ioannou CC, Laskowski KL. A multi-scale review of the dynamics of collective behaviour: from rapid responses to ontogeny and evolution. Philos Trans R Soc Lond B Biol Sci 2023; 378:20220059. [PMID: 36802782 PMCID: PMC9939272 DOI: 10.1098/rstb.2022.0059] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2023] [Accepted: 01/26/2023] [Indexed: 02/21/2023] Open
Abstract
Collective behaviours, such as flocking in birds or decision making by bee colonies, are some of the most intriguing behavioural phenomena in the animal kingdom. The study of collective behaviour focuses on the interactions between individuals within groups, which typically occur over close ranges and short timescales, and how these interactions drive larger scale properties such as group size, information transfer within groups and group-level decision making. To date, however, most studies have focused on snapshots, typically studying collective behaviour over short timescales up to minutes or hours. However, being a biological trait, much longer timescales are important in animal collective behaviour, particularly how individuals change over their lifetime (the domain of developmental biology) and how individuals change from one generation to the next (the domain of evolutionary biology). Here, we give an overview of collective behaviour across timescales from the short to the long, illustrating how a full understanding of this behaviour in animals requires much more research attention on its developmental and evolutionary biology. Our review forms the prologue of this special issue, which addresses and pushes forward understanding the development and evolution of collective behaviour, encouraging a new direction for collective behaviour research. This article is part of a discussion meeting issue 'Collective behaviour through time'.
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Affiliation(s)
| | - Kate L. Laskowski
- Department of Evolution and Ecology, University of California Davis, Davis, CA 95616, USA
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Friedman ST, Muñoz MM. A latitudinal gradient of deep-sea invasions for marine fishes. Nat Commun 2023; 14:773. [PMID: 36774385 PMCID: PMC9922314 DOI: 10.1038/s41467-023-36501-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2021] [Accepted: 02/03/2023] [Indexed: 02/13/2023] Open
Abstract
Although the tropics harbor the greatest species richness globally, recent work has demonstrated that, for many taxa, speciation rates are faster at higher latitudes. Here, we explore lability in oceanic depth as a potential mechanism for this pattern in the most biodiverse vertebrates - fishes. We demonstrate that clades with the highest speciation rates also diversify more rapidly along the depth gradient, drawing a fundamental link between evolutionary and ecological processes on a global scale. Crucially, these same clades also inhabit higher latitudes, creating a prevailing latitudinal gradient of deep-sea invasions concentrated in poleward regions. We interpret these findings in the light of classic ecological theory, unifying the latitudinal variation of oceanic features and the physiological tolerances of the species living there. This work advances the understanding of how niche lability sculpts global patterns of species distributions and underscores the vulnerability of polar ecosystems to changing environmental conditions.
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Affiliation(s)
- Sarah T Friedman
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, 06511, USA. .,Yale Institute for Biospheric Studies, Yale University, New Haven, CT, 06511, USA.
| | - Martha M Muñoz
- Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, 06511, USA
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Carnicer C, Lima LB, Pelicice FM, Lima-Junior DP. Global trends, biases and gaps in the scientific literature about freshwater fish eggs and larvae. JOURNAL OF FISH BIOLOGY 2023; 102:83-95. [PMID: 36209499 DOI: 10.1111/jfb.15242] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2022] [Accepted: 10/04/2022] [Indexed: 06/16/2023]
Abstract
Syntheses of knowledge are important to reveal trends, biases and gaps in the scientific literature, indicating main data shortfalls and research needs. In this regard, the authors conducted a broad systematic review on the literature about freshwater fish eggs and larvae to investigate (a) temporal trends in the global scientific production, (b) the scope and habitat types, (c) the spatial distribution of studies, (d) the fish species contemplated and their respective conservation status and (e) the factors associated with the spatial distribution of studies. They analysed 654 studies published between 1950 and 2020. The number of studies has increased over time, but with a weak trend. Most studies investigated basic questions about biology and ecology and were carried out chiefly in rivers and lakes. These studies covered 95 freshwater ecoregions (22.3% of all ecoregions) and recorded 871 fish species (4.8% of all freshwater fish currently described). Most species were assessed by the IUCN and classified into six threat categories, but approximately 35% were not evaluated. The main drivers affecting the spatial distribution of studies were ecoregion area, road density, river volume and the number of hydroelectric plants. Results point to significant biases and gaps in the global scientific literature on fish eggs and larvae, especially associated with habitat type, spatial distribution and target species, emphasizing the need to address specific topics. Such biases and gaps indicate the existence of important data shortfalls, which compromise management and conservation planning, as information on fish eggs and larvae is basic and critical for the assessment of fish recruitment and population dynamics.
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Affiliation(s)
- Cleide Carnicer
- Programa de Pós-graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso - UNEMAT, Nova Xavantina, Mato Grosso, Brazil
- Laboratório de Ecologia e Conservação de Ecossistemas Aquáticos, Universidade Federal de Mato Grosso, Pontal do Araguaia, Mato Grosso, Brazil
| | - Luciano B Lima
- Laboratório de Ecologia e Conservação de Ecossistemas Aquáticos, Universidade Federal de Mato Grosso, Pontal do Araguaia, Mato Grosso, Brazil
| | - Fernando Mayer Pelicice
- Núcleo de Estudos Ambientais, Universidade Federal do Tocantins, Porto Nacional, Tocantins, Brazil
| | - Dilermando Pereira Lima-Junior
- Programa de Pós-graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso - UNEMAT, Nova Xavantina, Mato Grosso, Brazil
- Laboratório de Ecologia e Conservação de Ecossistemas Aquáticos, Universidade Federal de Mato Grosso, Pontal do Araguaia, Mato Grosso, Brazil
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34
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FishSounds version 1.0: A website for the compilation of fish sound production information and recordings. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2022.101953] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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Atalah J, Sanchez-Jerez P. On the wrong track: Sustainable and low-emission blue food diets to mitigate climate change. FRONTIERS IN SUSTAINABLE FOOD SYSTEMS 2022. [DOI: 10.3389/fsufs.2022.994840] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Seafood and other aquatic food (blue food) are often advocated as sustainable protein sources crucial to meeting global food demand. Consumption choices allow citizens to take actions that reduce the environmental burden of food production and tackle the climate crisis. Here we used a high-resolution Spanish national-level dataset collected from 12,500 households between 1999 and 2021 as a study case to assess trends in blue food consumption concerning sources, types and stressors resulting from their production. By aggregating species groups according to source, we found an overall reduction in the consumption of most wild species. For farmed species, we found a pronounced increase in the consumption of carnivorous fish and an overall decrease in low trophic-level species consumption, such as bivalves. Using published studies, we estimated greenhouse gases, nitrogen, and phosphorus emissions to assess trends in environmental footprint. Low performance was associated with the consumption of high trophic-level species intensively farmed in distant regions, such as carnivorous fish, due to high stressor emissions related to their production and transport. Across all groups, consumption of locally farmed bivalves conduced to the lowest stressor emissions, providing an example of ‘net-zero' blue food. Our analysis identified historical trends in the environmental footprint of blue food consumption and consumers' choices that promote environmentally sustainable diets. It also highlights vast differences in the ecological footprint associated with the consumption of aquaculture-sourced protein. Based on our assessment, we recommend refocusing consumption patterns toward farmed species with small environmental footprints, such as locally produced low trophic-level species, and implementing policies that increase consumers' environmental awareness and minimize food production systems' footprints. Considering global blue food demand is predicted to nearly double by mid-century, consumers' choices can significantly impact sustainable production practices and mitigate climate change.
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Chuctaya J, Meza-Vargas V, Faustino-Fuster DR, Hidalgo M, Ortega H. Lista de especies de peces de la cuenca del Río Ucayali, Perú. REVISTA PERUANA DE BIOLOGÍA 2022. [DOI: 10.15381/rpb.v29i4.20049] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
En este trabajo se presenta una lista actualizada de los registros de especies de peces de la cuenca del río Ucayali, Perú, provenientes de datos publicados y no publicados. Los resultados muestran que la cuenca del Ucayali presenta una ictiofauna rica y diversificada con el registro de 734 especies distribuidas en 15 órdenes, 49 familias y 292 géneros. La Ictiofauna está compuesta por peces miniatura (4%), peces pequeños (39%), medianos (41%), grandes (13%) y gigantes (3%). Los grupos dominantes son los Characiformes (312 especies, 43.0 %), Siluriformes (270 especies, 36.8%), Gymnotiformes (51 especies, 6.9%), y Cichliformes (50 especies, 6.8%). Parte de la ictiofauna es compartida con cuencas adyacentes como Marañón, y Amazonas peruano, principalmente en la región de confluencia, lo que contribuye a la notable diversidad de peces en la cuenca. Se observó una alta riqueza de especies con distribución restricta de los géneros Orestias, Astroblepus, Trichomycterus, Hemibrycon, entre otras especies, que ocurren en la región de cabeceras. Estimativos de riqueza de especies considerando su distribución por cada 100 m de altitud, indican que la cuenca del Ucayali esta subestimada, esperándose encontrar hasta 1125 especies. Los resultados aquí presentados son antecedentes que coadyuvaran a la toma de decisiones con fines de conservación y desarrollo sustentable en la región amazónica.
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Pardo SA, Dulvy NK. Body mass, temperature, and depth shape the maximum intrinsic rate of population increase in sharks and rays. Ecol Evol 2022; 12:e9441. [PMCID: PMC9618967 DOI: 10.1002/ece3.9441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Accepted: 08/22/2022] [Indexed: 11/12/2022] Open
Abstract
An important challenge in ecology is to understand variation in species' maximum intrinsic rate of population increase, rmax, not least because rmax underpins our understanding of the limits of fishing, recovery potential, and ultimately extinction risk. Across many vertebrate species, terrestrial and aquatic, body mass and environmental temperature are important correlates of rmax. In sharks and rays, specifically, rmax is known to be lower in larger species, but also in deep sea ones. We use an information‐theoretic approach that accounts for phylogenetic relatedness to evaluate the relative importance of body mass, temperature, and depth on rmax. We show that both temperature and depth have separate effects on shark and ray rmax estimates, such that species living in deeper waters have lower rmax. Furthermore, temperature also correlates with changes in the mass scaling coefficient, suggesting that as body size increases, decreases in rmax are much steeper for species in warmer waters. These findings suggest that there are (as‐yet understood) depth‐related processes that limit the maximum rate at which populations can grow in deep‐sea sharks and rays. While the deep ocean is associated with colder temperatures, other factors that are independent of temperature, such as food availability and physiological constraints, may influence the low rmax observed in deep‐sea sharks and rays. Our study lays the foundation for predicting the intrinsic limit of fishing, recovery potential, and extinction risk species based on easily accessible environmental information such as temperature and depth, particularly for data‐poor species.
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Affiliation(s)
- Sebastián A. Pardo
- Earth to Ocean Research Group, Department of Biological SciencesSimon Fraser UniversityBurnabyBritish ColumbiaCanada,Ecology Action CentreHalifaxNova ScotiaCanada
| | - Nicholas K. Dulvy
- Earth to Ocean Research Group, Department of Biological SciencesSimon Fraser UniversityBurnabyBritish ColumbiaCanada
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Keppeler FW, Andrade MC, Trindade PAA, Sousa LM, Arantes CC, Winemiller KO, Jensen OP, Giarrizzo T. Early impacts of the largest Amazonian hydropower project on fish communities. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 838:155951. [PMID: 35588808 DOI: 10.1016/j.scitotenv.2022.155951] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Revised: 05/04/2022] [Accepted: 05/11/2022] [Indexed: 06/15/2023]
Abstract
Hydropower is a threat to freshwater fishes. Despite a recent boom in dam construction, few studies have assessed their impact on mega-diverse tropical rivers. Using a before-after study design, we investigated the early impacts of the Belo Monte hydroelectric complex, the third-largest hydropower project in the world, on fishes of the Xingu River, a major clear-water tributary of the lower Amazon. We explored impacts across different river sectors (upstream, reservoir, reduced flow sector, and downstream) and spatial scales (individual sectors vs. all sectors combined) using joint species distribution models and different facets of diversity (taxonomic, functional, and phylogenetic). After 5 years of the Belo Monte operation, species richness declined ~12% in lentic and ~16% in lotic environments. Changes in abundance were of less magnitude (<4%). Effects were particularly negative for species of the families Serrasalmidae (mainly pacus), Anostomidae (headstanders), Auchenipteridae, and Pimelodidae (catfishes), whereas no taxonomic group consistently increased in richness or abundance. The reservoir and downstream sectors were the most impacted, with declines of ~24-29% in fish species richness, overall reductions in fish body size and trophic level, and a change in average body shape. Richness and abundance also declined in the reduced river flow, and changes in size, shape, and position of fins were observed. Relatively minor changes were found in the upstream sector. Variation in functional and phylogenetic diversity following river impoundment was subtle; however, across sectors, we found a reduction in functional divergence, indicating a decline in the abundance of species located near the extremities of community functional space. This may be the first sign of an environmental filtering process reducing functional diversity in the region. Greater changes in flow and habitats are expected as hydropower operations ramp up, and continued monitoring is warranted to understand the full scope and magnitude of ecological impacts.
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Affiliation(s)
- Friedrich W Keppeler
- Center for Limnology, University of Wisconsin-Madison, Madison, WI, USA; Núcleo de Ecologia Aquática e Pesca da Amazônia, Federal University of Pará, Belém, Pará, Brazil.
| | - Marcelo C Andrade
- Núcleo de Ecologia Aquática e Pesca da Amazônia, Federal University of Pará, Belém, Pará, Brazil
| | - Paulo A A Trindade
- Núcleo de Ecologia Aquática e Pesca da Amazônia, Federal University of Pará, Belém, Pará, Brazil
| | - Leandro M Sousa
- Laboratório de Ictiologia de Altamira, Federal University of Pará, Altamira, Pará, Brazil
| | - Caroline C Arantes
- Division of Forestry and Natural Resources, West Virginia University, Morgantown, WV, USA
| | - Kirk O Winemiller
- Department of Ecology and Conservation Biology, Texas A&M University, College Station, TX, USA
| | - Olaf P Jensen
- Center for Limnology, University of Wisconsin-Madison, Madison, WI, USA
| | - Tommaso Giarrizzo
- Núcleo de Ecologia Aquática e Pesca da Amazônia, Federal University of Pará, Belém, Pará, Brazil; Instituto de Ciências do Mar (LABOMAR), Federal University of Ceará, Fortaleza, Brazil
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39
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The rise of biting during the Cenozoic fueled reef fish body shape diversification. Proc Natl Acad Sci U S A 2022; 119:e2119828119. [PMID: 35881791 PMCID: PMC9351382 DOI: 10.1073/pnas.2119828119] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
We demonstrate that the stunning trophic diversity of modern reef fishes is a relatively recent state driven by a dramatic transformation in representation of major feeding modes. Since the Early Cenozoic, when over 95% of teleost lineages were suction feeders, there has been a steady increase in direct biting feeding modes. A variety of novelties and jaw modifications permitted reef fishes to feed on substrate-bound prey using direct biting and grazing behaviors and opened this rich adaptive zone, which we show elevated rates of body shape evolution. Taken together, our results indicate that recent diversification of the feeding mechanism played a major role in ecologically and phenotypically shaping the modern fauna of reef fishes. Diversity of feeding mechanisms is a hallmark of reef fishes, but the history of this variation is not fully understood. Here, we explore the emergence and proliferation of a biting mode of feeding, which enables fishes to feed on attached benthic prey. We find that feeding modes other than suction, including biting, ram biting, and an intermediate group that uses both biting and suction, were nearly absent among the lineages of teleost fishes inhabiting reefs prior to the end-Cretaceous mass extinction, but benthic biting has rapidly increased in frequency since then, accounting for about 40% of reef species today. Further, we measured the impact of feeding mode on body shape diversification in reef fishes. We fit a model of multivariate character evolution to a dataset comprising three-dimensional body shape of 1,530 species of teleost reef fishes across 111 families. Dedicated biters have accumulated over half of the body shape variation that suction feeders have in just 18% of the evolutionary time by evolving body shape ∼1.7 times faster than suction feeders. As a possible response to the ecological and functional diversity of attached prey, biters have dynamically evolved both into shapes that resemble suction feeders as well as novel body forms characterized by lateral compression and small jaws. The ascendance of species that use biting mechanisms to feed on attached prey reshaped modern reef fish assemblages and has been a major contributor to their ecological and phenotypic diversification.
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40
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Jenrette J, Liu ZYC, Chimote P, Hastie T, Fox E, Ferretti F. Shark detection and classification with machine learning. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2022.101673] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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41
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van Dorst RM, Argillier C, Brucet S, Holmgren K, Volta P, Winfield IJ, Mehner T. Can size distributions of European lake fish communities be predicted by trophic positions of their fish species? Ecol Evol 2022; 12:e9087. [PMID: 35845376 PMCID: PMC9272069 DOI: 10.1002/ece3.9087] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2022] [Revised: 06/16/2022] [Accepted: 06/20/2022] [Indexed: 11/26/2022] Open
Abstract
An organism's body size plays an important role in ecological interactions such as predator–prey relationships. As predators are typically larger than their prey, this often leads to a strong positive relationship between body size and trophic position in aquatic ecosystems. The distribution of body sizes in a community can thus be an indicator of the strengths of predator–prey interactions. The aim of this study was to gain more insight into the relationship between fish body size distribution and trophic position in a wide range of European lakes. We used quantile regression to examine the relationship between fish species' trophic position and their log‐transformed maximum body mass for 48 fish species found in 235 European lakes. Subsequently, we examined whether the slopes of the continuous community size distributions, estimated by maximum likelihood, were predicted by trophic position, predator–prey mass ratio (PPMR), or abundance (number per unit effort) of fish communities in these lakes. We found a positive linear relationship between species' maximum body mass and average trophic position in fishes only for the 75% quantile, contrasting our expectation that species' trophic position systematically increases with maximum body mass for fish species in European lakes. Consequently, the size spectrum slope was not related to the average community trophic position, but there were negative effects of community PPMR and total fish abundance on the size spectrum slope. We conclude that predator–prey interactions likely do not contribute strongly to shaping community size distributions in these lakes.
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Affiliation(s)
- Renee M van Dorst
- Department of Fish Biology, Fisheries and Aquaculture Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB) Berlin Germany
| | | | - Sandra Brucet
- Aquatic Ecology Group University of Vic-Central University of Catalonia Catalonia Spain.,Catalan Institution for Research and Advanced Studies (ICREA) Barcelona Spain
| | - Kerstin Holmgren
- Department of Aquatic Resources, Institute of Freshwater Research Swedish University of Agricultural Sciences Drottningholm Sweden
| | | | - Ian J Winfield
- Lake Ecosystems Group, UK Centre for Ecology & Hydrology Lancaster Environment Centre Bailrigg UK
| | - Thomas Mehner
- Department of Fish Biology, Fisheries and Aquaculture Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB) Berlin Germany
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42
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Medeiros APM, Santos BA, Betancur-R R. Does genome size increase with water depth in marine fishes? Evolution 2022; 76:1578-1589. [PMID: 35585426 DOI: 10.1111/evo.14510] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2021] [Revised: 03/10/2022] [Accepted: 03/28/2022] [Indexed: 01/22/2023]
Abstract
A growing body of research suggests that genome size in animals can be affected by ecological factors. Half a century ago, Ebeling et al. proposed that genome size increases with depth in some teleost fish groups and discussed a number of biological mechanisms that may explain this pattern (e.g., passive accumulation, adaptive acclimation). Using phylogenetic comparative approaches, we revisit this hypothesis based on genome size and ecological data from up to 708 marine fish species in combination with a set of large-scale phylogenies, including a newly inferred tree. We also conduct modeling approaches of trait evolution and implement a variety of regression analyses to assess the relationship between genome size and depth. Our reanalysis of Ebeling et al.'s dataset shows a weak association between these variables, but the overall pattern in their data is driven by a single clade. Although new analyses based on our "all-species" dataset resulted in positive correlations, providing some evidence that genome size evolves as a function of depth, only one subclade consistently yielded statistically significant correlations. By contrast, negative correlations are rare and nonsignificant. All in all, we find modest evidence for an increase in genome size along the depth axis in marine fishes. We discuss some mechanistic explanations for the observed trends.
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Affiliation(s)
- Aline P M Medeiros
- Programa de Pós-Graduação em Ciências Biológicas, Universidade Federal da Paraíba, João Pessoa, 58051-900, Brazil.,Department of Biology, The University of Oklahoma, Norman, Oklahoma, 73019
| | - Bráulio A Santos
- Departamento de Sistemática e Ecologia, Centro de Ciências Exatas e da Natureza, Universidade Federal da Paraíba, João Pessoa, 58051-900, Brazil
| | - Ricardo Betancur-R
- Department of Biology, The University of Oklahoma, Norman, Oklahoma, 73019
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Langlois J, Guilhaumon F, Baletaud F, Casajus N, De Almeida Braga C, Fleuré V, Kulbicki M, Loiseau N, Mouillot D, Renoult JP, Stahl A, Stuart Smith RD, Tribot AS, Mouquet N. The aesthetic value of reef fishes is globally mismatched to their conservation priorities. PLoS Biol 2022; 20:e3001640. [PMID: 35671265 PMCID: PMC9173608 DOI: 10.1371/journal.pbio.3001640] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Accepted: 04/21/2022] [Indexed: 11/18/2022] Open
Abstract
Reef fishes are closely connected to many human populations, yet their contributions to society are mostly considered through their economic and ecological values. Cultural and intrinsic values of reef fishes to the public can be critical drivers of conservation investment and success, but remain challenging to quantify. Aesthetic value represents one of the most immediate and direct means by which human societies engage with biodiversity, and can be evaluated from species to ecosystems. Here, we provide the aesthetic value of 2,417 ray-finned reef fish species by combining intensive evaluation of photographs of fishes by humans with predicted values from machine learning. We identified important biases in species’ aesthetic value relating to evolutionary history, ecological traits, and International Union for Conservation of Nature (IUCN) threat status. The most beautiful fishes are tightly packed into small parts of both the phylogenetic tree and the ecological trait space. In contrast, the less attractive fishes are the most ecologically and evolutionary distinct species and those recognized as threatened. Our study highlights likely important mismatches between potential public support for conservation and the species most in need of this support. It also provides a pathway for scaling-up our understanding of what are both an important nonmaterial facet of biodiversity and a key component of nature’s contribution to people, which could help better anticipate consequences of species loss and assist in developing appropriate communication strategies. The most beautiful reef fish are tightly packed into small regions of both the phylogenetic tree and the ecological trait space of the world’s reef fish fauna and are less threatened than unattractive fish. This study highlights likely important mismatches between potential public support for conservation and the species most in need of this support.
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Affiliation(s)
| | - François Guilhaumon
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- UMR 9220 ENTROPIE, IRD, Université de la Réunion, Université de la Nouvelle-Calédonie, IFREMER, CNRS, La Réunion, France
| | - Florian Baletaud
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | | | | | - Valentine Fleuré
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | | | - Nicolas Loiseau
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - David Mouillot
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- Institut Universitaire de France, 1 rue Descartes, Paris, France
| | - Julien P. Renoult
- CEFE, UMR 5175, CNRS, Univ Montpellier, University Paul Valery Montpellier, EPHE, Montpellier, France
| | - Aliénor Stahl
- Department of Biology, Concordia University, Montreal, Quebec, Canada
| | - Rick D. Stuart Smith
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania, Australia
| | - Anne-Sophie Tribot
- MIO, Univ Aix-Marseille, Univ Toulon, CNRS, IRD, Marseille, France
- UMR TELEMMe, Univ Aix-Marseille, CNRS, Aix-en-Provence, France
| | - Nicolas Mouquet
- MARBEC, Univ Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- FRB–CESAB, Montpellier, France
- * E-mail:
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Pla S, Benvenuto C, Capellini I, Piferrer F. Switches, stability and reversals in the evolutionary history of sexual systems in fish. Nat Commun 2022; 13:3029. [PMID: 35637181 PMCID: PMC9151764 DOI: 10.1038/s41467-022-30419-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2021] [Accepted: 04/29/2022] [Indexed: 11/09/2022] Open
Abstract
Sexual systems are highly diverse and have profound consequences for population dynamics and resilience. Yet, little is known about how they evolved. Using phylogenetic Bayesian modelling and a sample of 4614 species, we show that gonochorism is the likely ancestral condition in teleost fish. While all hermaphroditic forms revert quickly to gonochorism, protogyny and simultaneous hermaphroditism are evolutionarily more stable than protandry. In line with theoretical expectations, simultaneous hermaphroditism does not evolve directly from gonochorism but can evolve slowly from sequential hermaphroditism, particularly protandry. We find support for the predictions from life history theory that protogynous, but not protandrous, species live longer than gonochoristic species and invest the least in male gonad mass. The distribution of teleosts' sexual systems on the tree of life does not seem to reflect just adaptive predictions, suggesting that adaptations alone may not fully explain why some sexual forms evolve in some taxa but not others (Williams' paradox). We propose that future studies should incorporate mating systems, spawning behaviours, and the diversity of sex determining mechanisms. Some of the latter might constrain the evolution of hermaphroditism, while the non-duality of the embryological origin of teleost gonads might explain why protogyny predominates over protandry in teleosts.
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Affiliation(s)
- Susanna Pla
- Institut de Ciències del Mar, Spanish National Research Council (CSIC), Barcelona, Spain
| | - Chiara Benvenuto
- School of Science, Engineering and Environment, University of Salford, Salford, UK
| | | | - Francesc Piferrer
- Institut de Ciències del Mar, Spanish National Research Council (CSIC), Barcelona, Spain.
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45
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Miya M, Sado T, Oka SI, Fukuchi T. The use of citizen science in fish eDNA metabarcoding for evaluating regional biodiversity in a coastal marine region: A pilot study. METABARCODING AND METAGENOMICS 2022. [DOI: 10.3897/mbmg.6.80444] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
To test the feasibility of a citizen science program for fish eDNA metabarcoding in coastal marine environments, we recruited six groups of voluntary citizens for a science education course at a natural history museum. We held a seminar on eDNA and a workshop for seawater sampling and on-site filtration using syringes and filter cartridges for the participants. After that, they selected single survey sites following the guidelines for conducting a safe field trip. They performed seawater sampling and on-site filtration at these sites during their summer holidays. The six selected sites unexpectedly included diverse coastal habitats within a 40 km radius, located at temperate latitudes in central Japan (~35°N). After the field trips, they returned filtered cartridges to the museum, and we extracted eDNA from the filters. We performed fish eDNA metabarcoding, along with data analysis. Consequently, we identified 140 fish species across 66 families and 118 genera from the six samples, with species richness ranging from 14 to 66. Despite its limited sample size, such a diverse taxonomic range of fish species exhibited spatial biodiversity patterns within the region, which are consistent with species distribution. These include north-south and urbanization gradients of species richness, geographic structure of the fish communities, and varying salinity preferences of the component species. This case study demonstrates the potential of fish eDNA metabarcoding as an educational and scientific tool to raise public awareness and perform large-scale citizen science initiatives encompassing regional, national, or global fauna.
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Wicquart J, Gudka M, Obura D, Logan M, Staub F, Souter D, Planes S. A workflow to integrate ecological monitoring data from different sources. ECOL INFORM 2022. [DOI: 10.1016/j.ecoinf.2021.101543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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Currie J, Burant JB, Marconi V, Blain SA, Emry S, Hébert K, Xie G, Moore NA, Wang X, Brown A, Grevstad L, McRae L, Mezzini S, Pata P, Freeman R. Assessing the representation of species included within the Canadian Living Planet Index. Facets (Ott) 2022. [DOI: 10.1139/facets-2022-0063] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
To effectively combat the biodiversity crisis, we need ambitious targets and reliable indicators to accurately track trends and measure conservation impact. In Canada, the Living Planet Index (LPI) has been adapted to produce a national indicator by both World Wildlife Fund-Canada (Canadian Living Planet Index; C-LPI) and Environment and Climate Change Canada (Canadian Species Index) to provide insight into the status of Canadian wildlife, by evaluating temporal trends in vertebrate population abundance. The indicator includes data for just over 50% of Canadian vertebrate species. To assess whether the current dataset is representative of the distribution of life history characteristics of Canadian wildlife, we analyzed the representation of species-specific biotic variables (i.e., body size, trophic level, lifespan) for vertebrates within the C-LPI compared to native vertebrates lacking LPI data. Generally, there was considerable overlap in the distribution of biotic variables for species in the C-LPI compared to native Canadian vertebrate species lacking LPI data. Nevertheless, some differences among distributions were found, driven in large part by discrepancy in the representation of fishes—where the C-LPI included larger-bodied and longer-lived species. We provide recommendations for targeted data collection and additional analyses to further strengthen the applicability, accuracy, and representativity of biodiversity indicators.
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Affiliation(s)
- Jessica Currie
- World Wildlife Fund Canada, 410 Adelaide Street West, Toronto ON M5V 1S8, Canada
| | - Joseph B. Burant
- Department of Biology, McGill University, 1205 Docteur Penfield Avenue, Montreal QC H3A 1B1, Canada
- Département de sciences biologiques, Université de Montréal, 1375 Avenue Thérèse-Lavoie-Roux, Montréal QC H2V 0B3, Canada
- Living Data Project, Canadian Institute of Ecology and Evolution, Vancouver BC V6T 124, Canada
| | - Valentina Marconi
- Indicators and Assessments Unit, Institute of Zoology, Zoological Society of London, Regent’s Park, London NW1 4RY, United Kingdom
- Department of Life Sciences (Silwood Park), Imperial College London, Buckhurst Road, Ascot, Berkshire SL5 7PY, United Kingdom
| | - Stephanie A. Blain
- Department of Zoology and Biodiversity Research Centre, University of British Columbia, 6270 University Boulevard, Vancouver BC V6T 1Z4, Canada
| | - Sandra Emry
- Department of Zoology and Biodiversity Research Centre, University of British Columbia, 6270 University Boulevard, Vancouver BC V6T 1Z4, Canada
| | - Katherine Hébert
- Département de biologie, Université de Sherbrooke, 2500 Boulevard de l’Université, Sherbrooke QC J1K 2R1, Canada
| | - Garland Xie
- Department of Biological Sciences, University of Toronto Scarborough, Toronto ON M1C 1A4, Canada
| | - Nikki A. Moore
- Department of Biology, McGill University, 1205 Docteur Penfield Avenue, Montreal QC H3A 1B1, Canada
| | - Xueqi Wang
- Department of Integrative Biology, University of Guelph, 50 Stone Road East, Guelph ON N1G 2W1, Canada
| | - Andrea Brown
- Department of Biology, McGill University, 1205 Docteur Penfield Avenue, Montreal QC H3A 1B1, Canada
| | - Lara Grevstad
- Department of Geography, University of British Columbia, 2329 West Mall, Vancouver BC V6T 1Z4, Canada
| | - Louise McRae
- Indicators and Assessments Unit, Institute of Zoology, Zoological Society of London, Regent’s Park, London NW1 4RY, United Kingdom
| | - Stefano Mezzini
- Department of Biology, University of British Columbia, 1177 Research Road, Kelowna BC V1V 1V7, Canada
| | - Patrick Pata
- Department of Earth, Ocean, and Atmospheric Sciences, University of British Columbia, 2207 Main Mall, Vancouver BC V6T 1Z4, Canada
| | - Robin Freeman
- Department of Integrative Biology, University of Guelph, 50 Stone Road East, Guelph ON N1G 2W1, Canada
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Marques V, Castagné P, Polanco A, Borrero-Pérez GH, Hocdé R, Guérin PÉ, Juhel JB, Velez L, Loiseau N, Letessier TB, Bessudo S, Valentini A, Dejean T, Mouillot D, Pellissier L, Villéger S. Use of environmental DNA in assessment of fish functional and phylogenetic diversity. CONSERVATION BIOLOGY : THE JOURNAL OF THE SOCIETY FOR CONSERVATION BIOLOGY 2021; 35:1944-1956. [PMID: 34224158 DOI: 10.1111/cobi.13802] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Revised: 03/19/2021] [Accepted: 05/03/2021] [Indexed: 06/13/2023]
Abstract
Assessing the impact of global changes and protection effectiveness is a key step in monitoring marine fishes. Most traditional census methods are demanding or destructive. Nondisturbing and nonlethal approaches based on video and environmental DNA are alternatives to underwater visual census or fishing. However, their ability to detect multiple biodiversity factors beyond traditional taxonomic diversity is still unknown. For bony fishes and elasmobranchs, we compared the performance of eDNA metabarcoding and long-term remote video to assess species' phylogenetic and functional diversity. We used 10 eDNA samples from 30 L of water each and 25 hr of underwater videos over 4 days on Malpelo Island (pacific coast of Colombia), a remote marine protected area. Metabarcoding of eDNA detected 66% more molecular operational taxonomic units (MOTUs) than species on video. We found 66 and 43 functional entities with a single eDNA marker and videos, respectively, and higher functional richness for eDNA than videos. Despite gaps in genetic reference databases, eDNA also detected a higher fish phylogenetic diversity than videos; accumulation curves showed how 1 eDNA transect detected as much phylogenetic diversity as 25 hr of video. Environmental DNA metabarcoding can be used to affordably, efficiently, and accurately census biodiversity factors in marine systems. Although taxonomic assignments are still limited by species coverage in genetic reference databases, use of MOTUs highlights the potential of eDNA metabarcoding once reference databases have expanded.
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Affiliation(s)
- Virginie Marques
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- CEFE, Univ. Montpellier, CNRS, EPHE-PSL University, IRD, Univ Paul Valery Montpellier 3, Montpellier, France
| | - Paul Castagné
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Andréa Polanco
- Instituto de Investigaciones Marinas y Costeras-INVEMAR, Colombia, Museo de Historia Natural Marina de Colombia (MHNMC), Programa de Biodiversidad y Ecosistemas Marinos, Santa Marta, Colombia
| | - Giomar Helena Borrero-Pérez
- Instituto de Investigaciones Marinas y Costeras-INVEMAR, Colombia, Museo de Historia Natural Marina de Colombia (MHNMC), Programa de Biodiversidad y Ecosistemas Marinos, Santa Marta, Colombia
| | - Régis Hocdé
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Pierre-Édouard Guérin
- CEFE, Univ. Montpellier, CNRS, EPHE-PSL University, IRD, Univ Paul Valery Montpellier 3, Montpellier, France
| | | | - Laure Velez
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | - Nicolas Loiseau
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
| | | | - Sandra Bessudo
- Fundación Malpelo y Otros Ecosistemas Marinos, Bogotá, Colombia
| | | | | | - David Mouillot
- MARBEC, Univ. Montpellier, CNRS, Ifremer, IRD, Montpellier, France
- Institut Universitaire de France, Paris, France
| | - Loïc Pellissier
- Landscape Ecology, Institute of Terrestrial Ecosystems, Department of Environmental Systems Science, ETH Zürich, Zürich, Switzerland
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McCord CL, Nash CM, Cooper WJ, Westneat MW. Phylogeny of the damselfishes (Pomacentridae) and patterns of asymmetrical diversification in body size and feeding ecology. PLoS One 2021; 16:e0258889. [PMID: 34705840 PMCID: PMC8550381 DOI: 10.1371/journal.pone.0258889] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2021] [Accepted: 10/07/2021] [Indexed: 11/18/2022] Open
Abstract
The damselfishes (family Pomacentridae) inhabit near-shore communities in tropical and temperature oceans as one of the major lineages in coral reef fish assemblages. Our understanding of their evolutionary ecology, morphology and function has often been advanced by increasingly detailed and accurate molecular phylogenies. Here we present the next stage of multi-locus, molecular phylogenetics for the group based on analysis of 12 nuclear and mitochondrial gene sequences from 345 of the 422 damselfishes. The resulting well-resolved phylogeny helps to address several important questions about higher-level damselfish relationships, their evolutionary history and patterns of divergence. A time-calibrated phylogenetic tree yields a root age for the family of 55.5 mya, refines the age of origin for a number of diverse genera, and shows that ecological changes during the Eocene-Oligocene transition provided opportunities for damselfish diversification. We explored the idea that body size extremes have evolved repeatedly among the Pomacentridae, and demonstrate that large and small body sizes have evolved independently at least 40 times and with asymmetric rates of transition among size classes. We tested the hypothesis that transitions among dietary ecotypes (benthic herbivory, pelagic planktivory and intermediate omnivory) are asymmetric, with higher transition rates from intermediate omnivory to either planktivory or herbivory. Using multistate hidden-state speciation and extinction models, we found that both body size and dietary ecotype are significantly associated with patterns of diversification across the damselfishes, and that the highest rates of net diversification are associated with medium body size and pelagic planktivory. We also conclude that the pattern of evolutionary diversification in feeding ecology, with frequent and asymmetrical transitions between feeding ecotypes, is largely restricted to the subfamily Pomacentrinae in the Indo-West Pacific. Trait diversification patterns for damselfishes across a fully resolved phylogeny challenge many recent general conclusions about the evolution of reef fishes.
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Affiliation(s)
- Charlene L. McCord
- College of Natural and Behavioral Sciences, California State University Dominguez Hills, Carson, California, United States of America
| | - Chloe M. Nash
- Department of Organismal Biology and Anatomy, and Committee on Evolutionary Biology, University of Chicago, Chicago, Illinois, United States of America
- Division of Fishes, Field Museum of Natural History, Chicago, Illinois, United States of America
| | - W. James Cooper
- Department of Biology and Program in Marine and Coastal Science, Western Washington University, Bellingham, Washington, United States of America
| | - Mark W. Westneat
- Department of Organismal Biology and Anatomy, and Committee on Evolutionary Biology, University of Chicago, Chicago, Illinois, United States of America
- Division of Fishes, Field Museum of Natural History, Chicago, Illinois, United States of America
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50
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Lavender E, Fox CJ, Burrows MT. Modelling the impacts of climate change on thermal habitat suitability for shallow-water marine fish at a global scale. PLoS One 2021; 16:e0258184. [PMID: 34606498 PMCID: PMC8489719 DOI: 10.1371/journal.pone.0258184] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2020] [Accepted: 09/21/2021] [Indexed: 11/19/2022] Open
Abstract
Understanding and predicting the response of marine communities to climate change at large spatial scales, and distilling this information for policymakers, are prerequisites for ecosystem-based management. Changes in thermal habitat suitability across species’ distributions are especially concerning because of their implications for abundance, affecting species’ conservation, trophic interactions and fisheries. However, most predictive studies of the effects of climate change have tended to be sub-global in scale and focused on shifts in species’ range edges or commercially exploited species. Here, we develop a widely applicable methodology based on climate response curves to predict global-scale changes in thermal habitat suitability. We apply the approach across the distributions of 2,293 shallow-water fish species under Representative Concentration Pathways 4.5 and 8.5 by 2050–2100. We find a clear pattern of predicted declines in thermal habitat suitability in the tropics versus general increases at higher latitudes. The Indo-Pacific, the Caribbean and western Africa emerge as the areas of most concern, where high species richness and the strongest declines in thermal habitat suitability coincide. This reflects a pattern of consistently narrow thermal ranges, with most species in these regions already exposed to temperatures above inferred thermal optima. In contrast, in temperate regions, such as northern Europe, where most species live below thermal optima and thermal ranges are wider, positive changes in thermal habitat suitability suggest that these areas are likely to emerge as the greatest beneficiaries of climate change, despite strong predicted temperature increases.
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Affiliation(s)
- Edward Lavender
- The Scottish Association for Marine Science, Scottish Marine Institute, Dunstaffnage, Oban, Argyll, Scotland
- * E-mail:
| | - Clive J. Fox
- The Scottish Association for Marine Science, Scottish Marine Institute, Dunstaffnage, Oban, Argyll, Scotland
| | - Michael T. Burrows
- The Scottish Association for Marine Science, Scottish Marine Institute, Dunstaffnage, Oban, Argyll, Scotland
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