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Macgregor CJ, Saccheri IJ. The genome sequence of the Rock Grayling, Hipparchia semele (Linnaeus, 1758). Wellcome Open Res 2023; 8:495. [PMID: 38292065 PMCID: PMC10825418 DOI: 10.12688/wellcomeopenres.20183.1] [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] [Accepted: 10/12/2023] [Indexed: 02/01/2024] Open
Abstract
We present a genome assembly from an individual female Hipparchia semele (the Rock Grayling; Arthropoda; Insecta; Lepidoptera; Nymphalidae). The genome sequence is 403.4 megabases in span. Most of the assembly is scaffolded into 30 chromosomal pseudomolecules, including the W and Z sex chromosomes. The mitochondrial genome has also been assembled and is 15.22 kilobases in length. Gene annotation of this assembly on Ensembl identified 17,540 protein coding genes.
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Affiliation(s)
- Callum J. Macgregor
- Leverhulme Centre for Anthropocene Biodiversity, University of York, York, England, UK
- British Trust for Ornithology, Bangor, Wales, UK
| | - Ilik J. Saccheri
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Liverpool, England, UK
| | - Wellcome Sanger Institute Tree of Life programme
- Leverhulme Centre for Anthropocene Biodiversity, University of York, York, England, UK
- British Trust for Ornithology, Bangor, Wales, UK
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Liverpool, England, UK
| | - Wellcome Sanger Institute Scientific Operations: DNA Pipelines collective
- Leverhulme Centre for Anthropocene Biodiversity, University of York, York, England, UK
- British Trust for Ornithology, Bangor, Wales, UK
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Liverpool, England, UK
| | - Tree of Life Core Informatics collective
- Leverhulme Centre for Anthropocene Biodiversity, University of York, York, England, UK
- British Trust for Ornithology, Bangor, Wales, UK
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Liverpool, England, UK
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Donati GFA, Zemp N, Manel S, Poirier M, Claverie T, Ferraton F, Gaboriau T, Govinden R, Hagen O, Ibrahim S, Mouillot D, Leblond J, Julius P, Velez L, Zareer I, Ziyad A, Leprieur F, Albouy C, Pellissier L. Species ecology explains the spatial components of genetic diversity in tropical reef fishes. Proc Biol Sci 2021; 288:20211574. [PMID: 34583586 PMCID: PMC8479362 DOI: 10.1098/rspb.2021.1574] [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: 07/14/2021] [Accepted: 09/03/2021] [Indexed: 11/12/2022] Open
Abstract
Generating genomic data for 19 tropical reef fish species of the Western Indian Ocean, we investigate how species ecology influences genetic diversity patterns from local to regional scales. We distinguish between the α, β and γ components of genetic diversity, which we subsequently link to six ecological traits. We find that the α and γ components of genetic diversity are strongly correlated so that species with a high total regional genetic diversity display systematically high local diversity. The α and γ diversity components are negatively associated with species abundance recorded using underwater visual surveys and positively associated with body size. Pelagic larval duration is found to be negatively related to genetic β diversity supporting its role as a dispersal trait in marine fishes. Deviation from the neutral theory of molecular evolution motivates further effort to understand the processes shaping genetic diversity and ultimately the diversification of the exceptional diversity of tropical reef fishes.
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Affiliation(s)
- Giulia Francesca Azzurra Donati
- Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zürich, CH8092 Zürich, Switzerland
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, CH8903 Birmensdorf, Switzerland
| | - Niklaus Zemp
- Genetic Diversity Centre (GDC), ETH Zürich, CH8092 Zürich, Switzerland
| | - Stéphanie Manel
- CEFE, Univ Montpellier, CNRS EPHE-PSL University, IRD, Montpellier, France
| | - Maude Poirier
- Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zürich, CH8092 Zürich, Switzerland
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, CH8903 Birmensdorf, Switzerland
| | - Thomas Claverie
- MARBEC, Univ Montpellier, CNRS, IFREMER, IRD, Montpellier 34095, France
- Centre Universitaire de formation et de recherche de Mayotte, Dembeni 97660, France
| | - Franck Ferraton
- Centre National de la Recherche Scientifique (CNRS), UMR 248 MARBEC, Montpellier, France
| | - Théo Gaboriau
- Department of Computational Biology, University of Lausanne, 1015 Lausanne, Switzerland
- Swiss Institute of Bioinformatics, Quartier Sorge, 1015 Lausanne, Switzerland
| | | | - Oskar Hagen
- Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zürich, CH8092 Zürich, Switzerland
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, CH8903 Birmensdorf, Switzerland
| | - Shameel Ibrahim
- Maldives Whale Shark Research Programme, Popeshead Court Offices, Peter Lane, York, Yorkshire Y01 8SU, UK
| | - David Mouillot
- CEFE, Univ Montpellier, CNRS EPHE-PSL University, IRD, Montpellier, France
- Institut Universitaire de France, Paris, France
| | - Julien Leblond
- Wildlife Conservation Society, Madagascar Program, Antananarivo, Madagascar
| | | | - Laure Velez
- MARBEC, Univ Montpellier, CNRS, IFREMER, IRD, Montpellier 34095, France
| | - Irthisham Zareer
- Maldives Whale Shark Research Programme, Popeshead Court Offices, Peter Lane, York, Yorkshire Y01 8SU, UK
| | - Adam Ziyad
- Ministry of Fisheries and Agriculture, Malé, Republic of Maldives
| | - Fabien Leprieur
- MARBEC, Univ Montpellier, CNRS, IFREMER, IRD, Montpellier 34095, France
- Institut Universitaire de France, Paris, France
| | - Camille Albouy
- IFREMER, Unité Écologie et Modèles pour l'Halieutique, rue de l'Ile d'Yeu, BP21105, 44311 Nantes cedex 3, France
| | - Loïc Pellissier
- Landscape Ecology, Institute of Terrestrial Ecosystems, ETH Zürich, CH8092 Zürich, Switzerland
- Swiss Federal Institute for Forest, Snow and Landscape Research WSL, CH8903 Birmensdorf, Switzerland
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Butterfly Conservation in China: From Science to Action. INSECTS 2020; 11:insects11100661. [PMID: 32992975 PMCID: PMC7600441 DOI: 10.3390/insects11100661] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/23/2020] [Revised: 09/20/2020] [Accepted: 09/22/2020] [Indexed: 12/26/2022]
Abstract
About 10% of the Earth's butterfly species inhabit the highly diverse ecosystems of China. Important for the ecological, economic, and cultural services they provide, many butterfly species experience threats from land use shifts and climate change. China has recently adopted policies to protect the nation's biodiversity resources. This essay examines the current management of butterflies in China and suggests various easily implementable actions that could improve these conservation efforts. Our recommendations are based on the observations of a transdisciplinary group of entomologists and environmental policy specialists. Our analysis draws on other successful examples around the world that China may wish to consider. China needs to modify its scientific methodologies behind butterfly conservation management: revising the criteria for listing protected species, focusing on umbrella species for broader protection, identifying high priority areas and refugia for conservation, among others. Rural and urban land uses that provide heterogeneous habitats, as well as butterfly host and nectar plants, must be promoted. Butterfly ranching and farming may also provide opportunities for sustainable community development. Many possibilities exist for incorporating observations of citizen scientists into butterfly data collection at broad spatial and temporal scales. Our recommendations further the ten Priority Areas of China's National Biodiversity Conservation Strategy and Action Plan (2011-2030).
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