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Romero-Iraola I, Freitas I, Jiménez-Ruíz Y, Geniez P, García-París M, Martínez-Freiría F. Phylogeographic and Paleoclimatic Modelling Tools Improve Our Understanding of the Biogeographic History of Hierophis viridiflavus (Colubridae). Animals (Basel) 2023; 13:2143. [PMID: 37443941 DOI: 10.3390/ani13132143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2023] [Revised: 06/19/2023] [Accepted: 06/26/2023] [Indexed: 07/15/2023] Open
Abstract
Phylogeographic and paleoclimatic modelling studies have been combined to infer the role of Pleistocene climatic oscillations as drivers of the genetic structure and distribution of Mediterranean taxa. For the European whip snake, Hierophis viridiflavus, previous studies based on paleoclimatic modelling have depicted a low reliability in the pattern of past climatic suitability across the central Mediterranean Basin, which barely fits the species' genetic structure. In this study, we combined phylogeographic and paleoclimatic modelling tools to improve our understanding of the biogeographic history of H. viridiflavus, particularly extending the sampling and phylogeographic inferences to previously under-sampled regions. Phylogeographic analyses recovered two major clades that diverged at the beginning of the Pleistocene and had diversified in different ways by the late Pleistocene: the east clade (composed of three subclades) and the west clade (with no further structure). Paleoclimatic models highlighted the temperate character of H. viridiflavus, indicating range contractions during both the last inter-glacial and last glacial maximum periods. Range expansions from southern-located climatic refugia likely occurred in the Bølling-Allerød and Middle Holocene periods, which are supported by signals of demographic growth in the west clade and South-East-North subclade. Overall, this work improves our understanding of the historical biogeography of H. viridiflavus, providing further insights into the evolutionary processes that occurred in the Mediterranean Basin hotspot.
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Affiliation(s)
- Iñaki Romero-Iraola
- Departamento de Herpetología, Sociedad de Ciencias Aranzadi, Paseo de Zorroaga 11, 20004 Donostia-San Sebastián, Spain
- Museo Nacional de Ciencias Naturales, Centro Superior de Investigación Cinetífica (CSIC), José Gutiérrez Abascal 2, 28006 Madrid, Spain
| | - Inês Freitas
- Centro de Investigação em Biodiversidade e Recursos Genéticos (CIBIO), InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661 Porto, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, Centro de Investigação em Biodiversidade e Recursos Genéticos (CIBIO), Campus de Vairão, 4485-661 Porto, Portugal
| | - Yolanda Jiménez-Ruíz
- Museo Nacional de Ciencias Naturales, Centro Superior de Investigación Cinetífica (CSIC), José Gutiérrez Abascal 2, 28006 Madrid, Spain
| | - Philippe Geniez
- Centre d´Ecologie Fonctionnelle & Evolutive (CEFE), Ecole Pratique des Hautes Etudes (EPHE-PSL), Centre National de la Recherche Scientifique (CNRS), Biogéographie et Ecologie des Vertébrés, Université de Montpellier, 34293 Montpellier, France
| | - Mario García-París
- Museo Nacional de Ciencias Naturales, Centro Superior de Investigación Cinetífica (CSIC), José Gutiérrez Abascal 2, 28006 Madrid, Spain
| | - Fernando Martínez-Freiría
- Centro de Investigação em Biodiversidade e Recursos Genéticos (CIBIO), InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661 Porto, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, Centro de Investigação em Biodiversidade e Recursos Genéticos (CIBIO), Campus de Vairão, 4485-661 Porto, Portugal
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2
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Gaczorek TS, Chechetkin M, Dudek K, Caeiro-Dias G, Crochet PA, Geniez P, Pinho C, Babik W. Widespread introgression of MHC genes in Iberian Podarcis lizards. Mol Ecol 2023. [PMID: 37143304 DOI: 10.1111/mec.16974] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/10/2023] [Revised: 03/24/2023] [Accepted: 04/12/2023] [Indexed: 05/06/2023]
Abstract
Major histocompatibility complex (MHC) genes are crucial for the adaptive immune response of jawed vertebrates. Their variation, reaching extreme levels, is driven mainly by an arms race between hosts and pathogens. One hypothesised mechanism contributing to MHC polymorphism is adaptive introgression, the exchange of genetic variants between hybridising species favoured by selection, yet its effect on MHC variation is poorly understood. Detection of adaptive MHC introgression, though challenging, may be facilitated by the analysis of species complexes forming multiple hybrid zones. Here, we investigated MHC introgression in six hybrid zones formed by seven species of Podarcis lizards inhabiting the Iberian Peninsula. To differentiate adaptive introgression from neutral introgression, we compared the patterns of gene exchange in MHC and genome-wide markers. We found elevated sharing of MHC alleles in the proximity of contact beyond the areas of detectable genome-wide admixture in most hybrid zones and, in half of them, asymmetric MHC exchange. In general, the elevated MHC allele sharing between species pairs with abutting ranges compared to geographically isolated species pairs also supports the prevalence of introgression. Collectively, our results demonstrate widespread MHC introgression in the Iberian Podarcis complex and suggest its adaptiveness. Contrary to previous results from Triturus newts, we did not observe differences in the rate of introgression between MHC classes. Our work adds support to the emerging view of adaptive introgression as a key mechanism shaping MHC diversity. It also raises questions about the effect of elevated MHC variation and factors leading to the asymmetry of adaptive introgression.
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Affiliation(s)
| | - Mateusz Chechetkin
- Institute of Environmental Sciences, Jagiellonian University, Kraków, Poland
| | - Katarzyna Dudek
- Institute of Environmental Sciences, Jagiellonian University, Kraków, Poland
| | - Guilherme Caeiro-Dias
- Department of Biology and Museum of Southwestern Biology, University of New Mexico, Albuquerque, New Mexico, USA
| | | | - Philippe Geniez
- CEFE, EPHE-PSL University, Univ Montpellier, CNRS, IRD, Biogéographie et Ecologie des Vertébrés, Montpellier, France
| | - Catarina Pinho
- Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, Vairão, Portugal
| | - Wiesław Babik
- Institute of Environmental Sciences, Jagiellonian University, Kraków, Poland
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Velo-Antón G, Henrique M, Liz AV, Martínez-Freiría F, Pleguezuelos JM, Geniez P, Crochet PA, Brito JC. DNA barcode reference library for the West Sahara-Sahel reptiles. Sci Data 2022; 9:459. [PMID: 35915106 PMCID: PMC9343634 DOI: 10.1038/s41597-022-01582-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2022] [Accepted: 07/19/2022] [Indexed: 11/09/2022] Open
Abstract
DNA barcode reference libraries are now continuously produced for the tree of life, which are essential pillars for the study of biological diversity. Yet, our knowledge about global diversity is largely limited in undersampled regions such as the largest warm desert, the Sahara-Sahel. This dataset provides a DNA barcode reference library for the reptiles of the Western Sahara-Sahel (WSS) and neighbouring countries across this region. It includes 760 barcodes from 133 reptile taxa, distributed in 23 families, and covering the intraspecific diversity of some species. A total of 84 species were collected in the WSS (83% of the total reptile species richness) over 18 overland field expeditions conducted since 2003. DNA barcodes resulted in a high success rate (95%) of species identification and barcoding gap analysis highlighted the effectiveness of the COI fragment as a barcode marker for the WSS reptiles. This dataset represents a comprehensive and reliable DNA reference library for the WSS, filling an important biodiversity gap across a remote and hard-to-sample region. Measurement(s) | reptile diversity | Technology Type(s) | DNA barcoding | Factor Type(s) | DNA barcode sequencing | Sample Characteristic - Organism | reptiles | Sample Characteristic - Environment | terrestrial | Sample Characteristic - Location | Western Sahara-Sahel |
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Affiliation(s)
- Guillermo Velo-Antón
- Universidade de Vigo, Departamento de Ecoloxía e Bioloxía Animal, Grupo GEA, Vigo, E-36310, Spain. .,CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661, Vairão, Portugal. .,BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661, Vairão, Portugal.
| | - Margarida Henrique
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661, Vairão, Portugal
| | - André Vicente Liz
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661, Vairão, Portugal.,BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661, Vairão, Portugal.,Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002, Porto, Portugal
| | - Fernando Martínez-Freiría
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661, Vairão, Portugal.,BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661, Vairão, Portugal
| | | | - Philippe Geniez
- CEFE, EPHE-PSL, CNRS, Univ Montpellier, Biogéographie et Ecologie des Vertébrés, Montpellier, France
| | | | - José Carlos Brito
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Campus de Vairão, Universidade do Porto, 4485-661, Vairão, Portugal. .,BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairão, 4485-661, Vairão, Portugal. .,Departamento de Biologia, Faculdade de Ciências, Universidade do Porto, 4099-002, Porto, Portugal.
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Ribeiro‐Júnior MA, Tamar K, Maza E, Flecks M, Wagner P, Shacham B, Calvo M, Geniez P, Crochet P, Koch C, Meiri S. Taxonomic revision of the
Tropiocolotes nattereri
(Squamata, Gekkonidae) species complex, with the description of a new species from Israel, Jordan and Saudi Arabia. ZOOL SCR 2022. [DOI: 10.1111/zsc.12532] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
| | - Karin Tamar
- The Steinhardt Museum of Natural History Tel Aviv University Tel Aviv Israel
| | - Erez Maza
- School of Zoology Tel Aviv University Tel Aviv Israel
| | - Morris Flecks
- Herpetology Section Centre for Taxonomy and Morphology Zoologisches Forschungsmuseum Alexander Koenig Leibniz Institute for the Analysis of Biodiversity Change Bonn Germany
| | | | - Boaz Shacham
- The National Natural History Collections The Hebrew University of Jerusalem Jerusalem Israel
| | - Marta Calvo
- Museo Nacional de Ciencias Naturales Madrid Spain
| | - Philippe Geniez
- Centre d'Ecologie Fonctionnelle et Evolutive Univ Montpellier CNRS PSL‐EPHE IRD Univ Paul Valéry Montpellier 3 Montpellier France
| | - Pierre‐André Crochet
- Centre d'Ecologie Fonctionnelle et Evolutive Univ Montpellier CNRS EPHE, IRD Univ Paul Valéry Montpellier 3 Montpellier France
| | - Claudia Koch
- Herpetology Section Centre for Taxonomy and Morphology Zoologisches Forschungsmuseum Alexander Koenig Leibniz Institute for the Analysis of Biodiversity Change Bonn Germany
| | - Shai Meiri
- School of Zoology Tel Aviv University Tel Aviv Israel
- The Steinhardt Museum of Natural History Tel Aviv University Tel Aviv Israel
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5
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Jablonski D, Sillero N, Oskyrko O, Bellati A, Čeirāns A, Cheylan M, Cogălniceanu D, Crnobrnja-Isailović J, Crochet PA, Crottini A, Doronin I, Džukić G, Geniez P, Ilgaz Ç, Iosif R, Jandzik D, Jelić D, Litvinchuk S, Ljubisavljević K, Lymberakis P, Mikulíček P, Mizsei E, Moravec J, Najbar B, Pabijan M, Pupins M, Sourrouille P, Strachinis I, Szabolcs M, Thanou E, Tzoras E, Vergilov V, Vörös J, Gvoždík V. The distribution and biogeography of slow worms (Anguis, Squamata) across the Western Palearctic, with an emphasis on secondary contact zones. AMPHIBIA-REPTILIA 2021. [DOI: 10.1163/15685381-bja10069] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Abstract
The slow-worm lizards (Anguis) comprise five species occurring throughout most of the Western Palearctic. Although these species are relatively uniform morphologically – with the exception of A. cephallonica, which exhibits a quite unique morphology – they are genetically deeply divergent. Here, we provide detailed distribution maps for each species and discuss their biogeography and conservation based on updated genetic data and a robust distribution database. We pay particular attention to the so called ‘grey zone’, which typically represents secondary contact zones and in some cases confirmed or presumed hybrid zones. Four of the five species live in parapatry, while only two species, A. cephallonica and A. graeca from the southern Balkans occur in partial sympatry. Further research should focus on the eco-evolutionary interactions between species in contact, including their hybridization rates, to reveal deeper details of the slow-worm evolutionary and natural history.
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Affiliation(s)
- Daniel Jablonski
- Department of Zoology, Comenius University in Bratislava, Ilkovičova 6, Mlynská dolina, 842 15 Bratislava, Slovakia
| | - Neftalí Sillero
- CICGE Centro de Investigação em Ciências Geo-Espaciais, Faculdade de Ciências da Universidade do Porto (FCUP), Alameda do Monte da Virgem, 4430-146, Vila Nova de Gaia, Portugal
| | - Oleksandra Oskyrko
- Department of Zoology, Faculty of Science, Charles University, Viničná 7, 128 44 Prague, Czech Republic
| | - Adriana Bellati
- Department of Ecological and Biological Sciences, Tuscia University, Largo dell’università snc, 01100 Viterbo, Italy
| | - Andris Čeirāns
- Daugavpils University, Department of Ecology, Daugavpils, Latvia
| | - Marc Cheylan
- CEFE, Univ Montpellier, CNRS, EPHE-PSL University, IRD, Biogeography and Ecology of Vertebrates, Montpellier, France
| | - Dan Cogălniceanu
- University Ovidius Constanţa, Faculty of Natural Sciences and Agricultural Sciences, Al. Universităţii 1, 900470 Constanţa, Romania
| | - Jelka Crnobrnja-Isailović
- Department of Biology and Ecology, Faculty of Sciences and Mathematics, University of Niš, Višegradska 33, 18000 Niš, Serbia
- Department of Evolutionary Biology, Institute for Biological Research “Siniša Stanković” – National Institute of Republic of Serbia, University of Belgrade, Despota Stefana 142, 11060 Belgrade, Serbia
| | | | - Angelica Crottini
- CIBIO, Research Centre in Biodiversity and Genetic Resources, InBIO, Universidade do Porto, Campus Agrário de Vairão, Rua Padre Armando Quintas, No 7, 4485-661 Vairão, Portugal
| | - Igor Doronin
- Zoological Institute of the Russian Academy of Sciences, Universitetskaya Emb. 1, 199034 Saint Petersburg, Russia
| | - Georg Džukić
- Department of Evolutionary Biology, Institute for Biological Research “Siniša Stanković” – National Institute of Republic of Serbia, University of Belgrade, Despota Stefana 142, 11060 Belgrade, Serbia
| | - Philippe Geniez
- CEFE, Univ Montpellier, CNRS, EPHE-PSL University, IRD, Biogeography and Ecology of Vertebrates, Montpellier, France
| | - Çetin Ilgaz
- Dokuz Eylül University, Faculty of Science, Department of Biology, Buca-İzmir, Turkey
- Dokuz Eylül University, Fauna and Flora Research Centre, 35610, Buca-İzmir, Turkey
| | - Ruben Iosif
- University Ovidius Constanţa, Faculty of Natural Sciences and Agricultural Sciences, Al. Universităţii 1, 900470 Constanţa, Romania
| | - David Jandzik
- Department of Zoology, Comenius University in Bratislava, Ilkovičova 6, Mlynská dolina, 842 15 Bratislava, Slovakia
| | - Dušan Jelić
- Croatian Institute for Biodiversity, BIOTA Ltd, Zagreb, Croatia
| | - Spartak Litvinchuk
- Institute of Cytology, Russian Academy of Sciences, Tikhoretsky pr. 4, 194064 Saint Petersburg, Russia
| | - Katarina Ljubisavljević
- Department of Evolutionary Biology, Institute for Biological Research “Siniša Stanković” – National Institute of Republic of Serbia, University of Belgrade, Despota Stefana 142, 11060 Belgrade, Serbia
| | - Petros Lymberakis
- Natural History Museum of Crete, School of Sciences and Engineering, University of Crete, Knossos Ave. 71409 Irakleio, Greece
| | - Peter Mikulíček
- Department of Zoology, Comenius University in Bratislava, Ilkovičova 6, Mlynská dolina, 842 15 Bratislava, Slovakia
| | - Edvárd Mizsei
- Department of Ecology, University of Debrecen, Debrecen, Hungary
| | - Jiří Moravec
- National Museum, Department of Zoology, Prague, Czech Republic
| | - Bartłomiej Najbar
- University of Zielona Góra, Faculty of Biological Sciences, Department of Zoology, Prof. Z. Szafrana 1, 65-616, Zielona Góra, Poland
| | - Maciej Pabijan
- Institute of Zoology and Biomedical Research, Jagiellonian University, ul. Gronostajowa 9, 30-387, Kraków, Poland
| | - Mihails Pupins
- Daugavpils University, Department of Ecology, Daugavpils, Latvia
| | | | - Ilias Strachinis
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Natural Sciences, Aristotle University of Thessaloniki, Greece
| | - Márton Szabolcs
- Department of Tisza River Research, Institute of Aquatic Ecology, Centre for Ecological Research, Bem tér 18/C, 4026, Debrecen, Hungary
| | - Evanthia Thanou
- Section of Animal Biology, Department of Biology, School of Natural Sciences, University of Patras, Rion University Campus, GR-26500 Patras, Greece
| | | | - Vladislav Vergilov
- National Museum of Natural History at the Bulgarian Academy of Sciences, 1 Tsar Osvoboditel Blvd., 1000 Sofia, Bulgaria
| | - Judit Vörös
- Department of Zoology, Hungarian Natural History Museum, Baross u. 13., 1088, Budapest, Hungary
| | - Václav Gvoždík
- National Museum, Department of Zoology, Prague, Czech Republic
- Institute of Vertebrate Biology of the Czech Academy of Sciences, Brno, Czech Republic
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Pizzigalli C, Crochet P, Geniez P, Martínez‐Freiría F, Velo‐Antón G, Carlos Brito J. Phylogeographic diversification of the
Mesalina olivieri
species complex (Squamata: Lacertidae) with the description of a new species and a new subspecies endemic from North West Africa. J ZOOL SYST EVOL RES 2021. [DOI: 10.1111/jzs.12516] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Cristian Pizzigalli
- CIBIO/InBIO Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto Vairão Portugal
- Departamento de Biologia da Faculdade de Ciências da Universidade do Porto Porto Portugal
| | - Pierre‐André Crochet
- CEFE CNRS Univ Montpellier EPHE IRD Univ Paul Valéry Montpellier 3 Montpellier France
| | - Philippe Geniez
- CEFE Univ Montpellier CNRS EPHE‐PSL University IRD Univ Paul Valéry Montpellier 3Biogéographie et Ecologie des Vertébrés Montpellier France
| | - Fernando Martínez‐Freiría
- CIBIO/InBIO Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto Vairão Portugal
| | - Guillermo Velo‐Antón
- CIBIO/InBIO Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto Vairão Portugal
| | - José Carlos Brito
- CIBIO/InBIO Centro de Investigação em Biodiversidade e Recursos Genéticos da Universidade do Porto Vairão Portugal
- Departamento de Biologia da Faculdade de Ciências da Universidade do Porto Porto Portugal
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Ahmadi M, Hemami MR, Kaboli M, Nazarizadeh M, Malekian M, Behrooz R, Geniez P, Alroy J, Zimmermann NE. The legacy of Eastern Mediterranean mountain uplifts: rapid disparity of phylogenetic niche conservatism and divergence in mountain vipers. BMC Ecol Evol 2021; 21:130. [PMID: 34157982 PMCID: PMC8220690 DOI: 10.1186/s12862-021-01863-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2021] [Accepted: 06/17/2021] [Indexed: 11/26/2022] Open
Abstract
BACKGROUND The orogeny of the eastern Mediterranean region has substantially affected ecological speciation patterns, particularly of mountain-dwelling species. Mountain vipers of the genus Montivipera are among the paramount examples of Mediterranean neo-endemism, with restricted ranges in the mountains of Anatolia, the Levant, Caucasus, Alborz, and Zagros. Here we explore the phylogenetic and ecological diversification of Montivipera to reconstruct its ecological niche evolution and biogeographic history. Using 177 sequences of three mitochondrial genes, a dated molecular phylogeny of mountain vipers was reconstructed. Based on 320 occurrence points within the entire range of the genus and six climatic variables, ecological niches were modelled and used to infer ancestral niche occupancy. In addition, the biogeographic history and ancestral states of the species were reconstructed across climate gradients. RESULTS Dated phylogenetic reconstruction revealed that the ancestor of mountain vipers split into two major clades at around 12.18 Mya followed by multiple vicariance events due to rapid orogeny. Montivipera colonised coastal regions from a mountain-dwelling ancestor. We detected a highly complex ecological niche evolution of mountain vipers to temperature seasonality, a variable that also showed a strong phylogenetic signal and high contribution in niche occupation. CONCLUSION Raising mountain belts in the Eastern Mediterranean region and subsequent remarkable changes in temperature seasonality have led to the formation of important centres of diversification and endemism in this biodiversity hotspot. High rates of niche conservatism, low genetic diversity, and segregation of ranges into the endemic distribution negatively influenced the adaptive capacity of mountain vipers. We suggest that these species should be considered as evolutionary significant units and priority species for conservation in Mediterranean mountain ecosystems.
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Affiliation(s)
- Mohsen Ahmadi
- Department of Natural Resources, Isfahan University of Technology, 84156-83111, Isfahan, Iran.
| | - Mahmoud-Reza Hemami
- Department of Natural Resources, Isfahan University of Technology, 84156-83111, Isfahan, Iran
| | - Mohammad Kaboli
- Department of Environmental Science, Faculty of Natural Resources, University of Tehran, Karaj, Iran
| | - Masoud Nazarizadeh
- Department of Parasitology, Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic
- Institute of Parasitology, Biology Centre CAS, v.v.i., České Budějovice, Czech Republic
| | - Mansoureh Malekian
- Department of Natural Resources, Isfahan University of Technology, 84156-83111, Isfahan, Iran
| | - Roozbeh Behrooz
- CEFE, PSL-EPHE (Biogéographie et Ecologie des Vertébrés), CNRS, University of Montpellier, Montpellier, France
| | - Philippe Geniez
- CEFE, PSL-EPHE (Biogéographie et Ecologie des Vertébrés), CNRS, University of Montpellier, Montpellier, France
| | - John Alroy
- Department of Biological Sciences, Faculty of Science and Engineering, Macquarie University, Macquarie Park, NSW, 2109, Australia
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8
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Geniez P, Cheylan M, Crochet P. Front Cover. DIVERS DISTRIB 2020. [DOI: 10.1111/ddi.13212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022] Open
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Vasconcelos R, KÖhler G, Geniez P, Crochet PA. A new endemic species of Hemidactylus (Squamata: Gekkonidae) from São Nicolau Island, Cabo Verde. Zootaxa 2020; 4878:zootaxa.4878.3.4. [PMID: 33311144 DOI: 10.11646/zootaxa.4878.3.4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Indexed: 11/04/2022]
Abstract
A new species of gecko of the genus Hemidactylus (Squamata: Gekkonidae) is described from São Nicolau Island, Cabo Verde Archipelago, and the Sal and Boavista island populations of Hemidactylus boavistensis (i.e., Hemidactylus boavistensis boavistensis comb. nov. and Hemidactylus boavistensis chevalieri comb. nov.) are recognized as subspecies. Hemidactylus nicolauensis sp. nov. is genetically distinct from H. bouvieri, to which it has previously been referred, and from all other closely related endemic Hemidactylus from Cabo Verde Islands in mitochondrial (12S cyt b) and nuclear (RAG2, MC1R) markers. It is characterized morphologically by its distinct colouration and a diagnostically different arrangement of digital lamellae. With the description of this new species, São Nicolau is now known to harbour three single-island endemic gecko species, and the documented reptile diversity in Cabo Verde is raised to 23 endemic species. As a result of our taxonomic changes, existing conservation regulations should be updated and the conservation status of these taxa should be re-evaluated.
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Affiliation(s)
- Raquel Vasconcelos
- CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Laboratório Associado, Universidade do Porto, Campus Agrário de Vairão, R. Padre Armando Quintas, 4485-661 Vairão, Portugal. Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Passeig Marítim de la Barceloneta 37-49, E-08003 Barcelona, Spain..
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10
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Asztalos M, Schultze N, Ihlow F, Geniez P, Berroneau M, Delmas C, Guiller G, Legentilhomme J, Kindler C, Fritz U. How often do they do it? An in-depth analysis of the hybrid zone of two grass snake species (Natrix astreptophora and Natrix helvetica). Biol J Linn Soc Lond 2020. [DOI: 10.1093/biolinnean/blaa152] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
We examined the contact zone of two parapatric species of grass snake (Natrix astreptophora and Natrix helvetica) in southern France. To this end, we used comprehensive sampling, analysed mtDNA sequences and microsatellite loci, and built Species Distribution Models for current and past climatic conditions. The contact zone had established by the mid-Holocene during range expansions from glacial refuges in the Iberian Peninsula (N. astreptophora) and southern or western France (N. helvetica). The contact zone represents a narrow bimodal hybrid zone, with steep genetic transition from one taxon to the other and rare hybridization, supporting species status for N. astreptophora and N. helvetica. Our results suggest that the steepness of the clines is a more robust tool for species delimitation than cline width. In addition, we discovered in western France, beyond the hybrid zone, a remote population of N. helvetica with genetic signatures of hybridization with N. astreptophora, most likely the result of human-mediated long-distance dispersal. For N. helvetica, we identified a southern and a northern population cluster, connected by broad-scale gene flow in a unimodal hybrid zone running across France. This pattern either reflects genetic divergence caused by allopatry in two microrefuges and subsequent secondary contact or introgression of foreign alleles into the southern cluster.
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Affiliation(s)
- Marika Asztalos
- Museum of Zoology (Museum für Tierkunde), Senckenberg Dresden, Dresden, Germany
| | - Nadine Schultze
- Museum of Zoology (Museum für Tierkunde), Senckenberg Dresden, Dresden, Germany
| | - Flora Ihlow
- Museum of Zoology (Museum für Tierkunde), Senckenberg Dresden, Dresden, Germany
| | - Philippe Geniez
- UMR 5175 CEFE, Biogéographie et Ecologie des Vertébrés, EPHE, PSL Université Recherche, Montpellier, Cedex 5, France
| | | | - Claudine Delmas
- NEO/ANA-CEN Ariège, 18 Impasse Denis Papin, Lavelanet, France
| | | | | | - Carolin Kindler
- Museum of Zoology (Museum für Tierkunde), Senckenberg Dresden, Dresden, Germany
| | - Uwe Fritz
- Museum of Zoology (Museum für Tierkunde), Senckenberg Dresden, Dresden, Germany
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11
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Barnagaud J, Geniez P, Cheylan M, Crochet P. Climate overrides the effects of land use on the functional composition and diversity of Mediterranean reptile assemblages. DIVERS DISTRIB 2020. [DOI: 10.1111/ddi.13176] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022] Open
Affiliation(s)
- Jean‐Yves Barnagaud
- CEFE, Univ Montpellier, CNRS, EPHE‐PSL, IRD, Univ Paul Valéry Montpellier 3 Montpellier France
| | - Philippe Geniez
- CEFE, Univ Montpellier, CNRS, EPHE‐PSL, IRD, Univ Paul Valéry Montpellier 3 Montpellier France
| | - Marc Cheylan
- CEFE, Univ Montpellier, CNRS, EPHE‐PSL, IRD, Univ Paul Valéry Montpellier 3 Montpellier France
| | - Pierre‐André Crochet
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Univ Paul Valéry Montpellier 3 Montpellier France
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12
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Machado L, Salvi D, James Harris D, Brito JC, Crochet PA, Geniez P, Ahmadzadeh F, Carranza S. Systematics, biogeography and evolution of the Saharo-Arabian naked-toed geckos genus Tropiocolotes. Mol Phylogenet Evol 2020; 155:106969. [PMID: 33031930 DOI: 10.1016/j.ympev.2020.106969] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Revised: 08/02/2020] [Accepted: 09/28/2020] [Indexed: 11/18/2022]
Abstract
Plate tectonics constitute one of the main mechanisms of biological diversification on Earth, often being associated with cladogenetic events at different phylogenetic levels, as well as with exchange of faunas and floras across previously isolated biogeographic regions. North Africa and Arabia share a complex geological history that dates back to the break-up of the Arabian plate from the African plate ~30-25 Mya, followed by various geological events, such as the formation of the Red Sea or the connection between the African, Arabian and Eurasian plates. Species with Saharo-Arabian distributions have shown a close association between their evolutionary history and these geological events. In this study, we investigate the systematics, biogeography and evolution of the genus Tropiocolotes, a group of small ground-dwelling geckos, comprised by 12 species distributed from the Atlantic coast of North Africa to southwestern Iran. Species delimitation analyses uncovered the existence of high levels of undescribed diversity, with forms here considered at the species level including Tropiocolotes tripolitanus (Mauritania and southern Morocco), T. nattereri (southern Israel) and T. scorteccii (Yemen and Oman). Phylogenetic and biogeographic analyses recovered two main clades, an exclusively African clade and a Saharo-Arabian clade, that split ~25 Mya following the vicariant event mediated by the separation of the Arabian and African plates. The complex geological activity around the Red Sea is associated with the diversification within the Saharo-Arabian clade, including the colonization of North Africa from a second Tropiocolotes group. Results also provide new insights into the geographic distribution of Tropiocolotes nubicus, previously considered as exclusively associated to the Nile River valley, extending its known distribution further west, up to the Central Mountains of the Sahara. Accordingly, the Nile River seems to act as a major biogeographic barrier, separating Tropiocolotes nubicus and T. steudneri in their western and eastern margins, respectively.
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Affiliation(s)
- Luís Machado
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBio Laboratório Associado, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências da, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal; Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain.
| | - Daniele Salvi
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBio Laboratório Associado, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal; Department of Health, Life and Environmental Sciences, University of L'Aquila, L'Aquila, Italy
| | - D James Harris
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBio Laboratório Associado, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências da, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
| | - José C Brito
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Universidade do Porto, InBio Laboratório Associado, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal; Departamento de Biologia, Faculdade de Ciências da, Universidade do Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
| | - Pierre-André Crochet
- CEFE, Univ Montpellier, CNRS, EPHE, IRD, Univ Paul Valéry Montpellier 3, Montpellier, France
| | - Philippe Geniez
- CEFE, Univ Montpellier, CNRS, PSL-EPHE, IRD, Univ Paul Valéry Montpellier 3, Biogéographie et Ecologie des Vertébrés, Montpellier, France
| | - Faraham Ahmadzadeh
- Department of Biodiversity and Ecosystem Management, Environmental Sciences Research Institute, Shahid Beheshti University, G.C., Evin, Tehran 1983963113, Iran
| | - Salvador Carranza
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain
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13
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de Solan T, Renoult JP, Geniez P, David P, Crochet PA. Looking for Mimicry in a Snake Assemblage Using Deep Learning. Am Nat 2020; 196:74-86. [DOI: 10.1086/708763] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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14
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Schultze N, Spitzweg C, Corti C, Delaugerre M, Di Nicola MR, Geniez P, Lapini L, Liuzzi C, Lunghi E, Novarini N, Picariello O, Razzetti E, Sperone E, Stellati L, Vignoli L, Asztalos M, Kindler C, Vamberger M, Fritz U. Mitochondrial ghost lineages blur phylogeography and taxonomy of
Natrix helvetica
and
N. natrix
in Italy and Corsica. ZOOL SCR 2020. [DOI: 10.1111/zsc.12417] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Nadine Schultze
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
| | - Cäcilia Spitzweg
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
| | - Claudia Corti
- Sede “La Specola” Museo di Storia Naturale dell’Università di Firenze Firenze Italy
| | | | | | - Philippe Geniez
- UMR 5175 CEFE Biogéographie et Ecologie des Vertébrés EPHE PSL Université Recherche Montpellier France
| | - Luca Lapini
- Sezione ZoologicaMuseo Friulano di Storia Naturale Udine Italy
| | | | - Enrico Lunghi
- Sede “La Specola” Museo di Storia Naturale dell’Università di Firenze Firenze Italy
- Key Laboratory of Zoological Systematics and Evolution Institute of Zoology Chinese Academy of Sciences Beijing China
| | | | - Orfeo Picariello
- Dipartimento di Biologia Università di Napoli Federico II Napoli Italy
| | | | - Emilio Sperone
- Dipartimento di Biologia Ecologia e Scienze della Terra Università della Calabria Rende Italy
| | - Luca Stellati
- Dipartimento di Scienze Università degli Studi Roma Tre Roma Italy
| | - Leonardo Vignoli
- Dipartimento di Scienze Università degli Studi Roma Tre Roma Italy
| | - Marika Asztalos
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
| | - Carolin Kindler
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
| | - Melita Vamberger
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
| | - Uwe Fritz
- Museum of Zoology (Museum für Tierkunde) Senckenberg Dresden Dresden Germany
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15
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Miralles A, Geniez P, Beddek M, Aranda DM, Brito JC, Leblois R, Crochet PA. Morphology and multilocus phylogeny of the Spiny-footed Lizard (Acanthodactylus erythrurus) complex reveal two new mountain species from the Moroccan Atlas. Zootaxa 2020; 4747:zootaxa.4747.2.4. [PMID: 32230110 DOI: 10.11646/zootaxa.4747.2.4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Indexed: 11/04/2022]
Abstract
We generated an extensive morphological and multilocus molecular dataset to investigate the taxonomy of Acanthodactylus erythrurus, a widespread species across the Mediterranean and semiarid habitats of the Iberian Peninsula and the Maghreb. Our integrated analyses revealed the existence of at least five basal lineages: (i) an Ibero-Moroccan clade widespread across Morocco and the Iberian Peninsula, from sea-level up to a maximal known altitude of 1,930 m, (ii) an Algero-Tunisian clade, distributed in coastal and inland areas of eastern Algeria and Tunisia, (iii) a Central Algerian clade, formed by two inland populations located in central Algeria (1,000-1,500 m a.s.l.), (iv) a western High Atlas clade including two montane populations from Jbel Siroua and Tizi n'Tichka (at 2,320 m and 2,176 m a.s.l., respectively) and (v) an eastern High Atlas clade, including at least two montane populations from Isli and Tislit (both localities around 2,275 m a.s.l.). An integrated species delimitation approach combining molecular and multivariate morphological analyses demonstrated complete reproductive isolation and hence speciation between the Ibero-Moroccan clade and the eastern High Atlas clade in their contact zone. The divergence between all five clades is broadly similar, supporting the existence of at least five species in the Acanthodactylus erythrurus complex. In the present work we describe the two well-differentiated endemic species from the Moroccan Atlas for which no name is available: Acanthodactylus lacrymae sp. nov. from Isli and Tislit and A. montanus sp. nov. from Jbel Siroua and Tizi n'Tichka. Further work will be needed to fully resolve the taxonomy of this species complex.
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Affiliation(s)
- Aurélien Miralles
- CEFE, CNRS, University of Montpellier, University Paul Valéry Montpellier 3, EPHE, IRD, Montpellier, France. Institut de Systématique, Evolution, Biodiversité, Muséum national d'Histoire naturelle, CNRS UPMC EPHE, Sorbonne Universités, CP30, 25 rue Cuvier 75005 Paris, France..
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16
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Prodon R, Geniez P, Cheylan M, Besnard A. Amphibian and reptile phenology: the end of the warming hiatus and the influence of the NAO in the North Mediterranean. Int J Biometeorol 2020; 64:423-432. [PMID: 31734817 DOI: 10.1007/s00484-019-01827-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/22/2019] [Revised: 10/24/2019] [Accepted: 10/26/2019] [Indexed: 06/10/2023]
Abstract
In the south of France, the so-called climate hiatus from 1998 to 2013 was associated with a late winter cooling which has affected the phenology of several reptiles and amphibian species, delaying their dates of first appearances in spring. This episode has been related to a period of frequently negative values of the North Atlantic Oscillation index (NAOi). The recent increase of this index after this episode marks the end of the "hiatus" and provides an opportunity to verify the impact of the North Atlantic Oscillation (NAO) on the fauna of the North Mediterranean region. Most of the emergence dates of amphibians and reptiles in spring have rapidly advanced from 1983 to 1997 and then receded or stabilized from 1998 to 2010. They began to advance again since 2010. These phenological changes covary with the temperature of February-March in the study area, which is itself related to the variations of the NAO index. These changes confirm the influence of the NAO on the phenology of terrestrial organisms in northern Mediterranean where its influence is sometimes assumed to be attenuated.
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Affiliation(s)
- Roger Prodon
- EPHE, UMR 5175 CEFE, CNRS, IRD, Biogéographie et Écologie des Vertébrés, PSL Research University, University of Montpellier, Paul Valéry University, SupAgro, INRA, 34293, Montpellier, France.
| | - Philippe Geniez
- EPHE, UMR 5175 CEFE, CNRS, IRD, Biogéographie et Écologie des Vertébrés, PSL Research University, University of Montpellier, Paul Valéry University, SupAgro, INRA, 34293, Montpellier, France
| | - Marc Cheylan
- EPHE, UMR 5175 CEFE, CNRS, IRD, Biogéographie et Écologie des Vertébrés, PSL Research University, University of Montpellier, Paul Valéry University, SupAgro, INRA, 34293, Montpellier, France
| | - Aurélien Besnard
- EPHE, UMR 5175 CEFE, CNRS, IRD, Biogéographie et Écologie des Vertébrés, PSL Research University, University of Montpellier, Paul Valéry University, SupAgro, INRA, 34293, Montpellier, France
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17
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Montgelard C, Behrooz R, Arnal V, Asadi A, Geniez P, Kaboli M. Diversification and cryptic diversity of
Ophisops elegans
(Sauria, Lacertidae). J ZOOL SYST EVOL RES 2020. [DOI: 10.1111/jzs.12369] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Claudine Montgelard
- CEFE PSL‐EPHE (Biogéographie et Ecologie des Vertébrés) CNRS Université de Montpellier Univ Paul Valéry Montpellier 3 IRD Montpellier France
- Department of Zoology Centre for Ecological Genomics and Wildlife Conservation University of Johannesburg Johannesburg South Africa
| | - Roozbeh Behrooz
- CEFE PSL‐EPHE (Biogéographie et Ecologie des Vertébrés) CNRS Université de Montpellier Univ Paul Valéry Montpellier 3 IRD Montpellier France
| | - Véronique Arnal
- CEFE PSL‐EPHE (Biogéographie et Ecologie des Vertébrés) CNRS Université de Montpellier Univ Paul Valéry Montpellier 3 IRD Montpellier France
| | - Atefeh Asadi
- CEFE PSL‐EPHE (Biogéographie et Ecologie des Vertébrés) CNRS Université de Montpellier Univ Paul Valéry Montpellier 3 IRD Montpellier France
| | - Philippe Geniez
- CEFE PSL‐EPHE (Biogéographie et Ecologie des Vertébrés) CNRS Université de Montpellier Univ Paul Valéry Montpellier 3 IRD Montpellier France
| | - Mohammad Kaboli
- Department of Environmental Science Faculty of Natural Resources University of Tehran Karaj Iran
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18
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Beddek M, Zenboudji-Beddek S, Geniez P, Fathalla R, Sourouille P, Arnal V, Dellaoui B, Koudache F, Telailia S, Peyre O, Crochet PA. Comparative phylogeography of amphibians and reptiles in Algeria suggests common causes for the east-west phylogeographic breaks in the Maghreb. PLoS One 2018; 13:e0201218. [PMID: 30157236 PMCID: PMC6114291 DOI: 10.1371/journal.pone.0201218] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Accepted: 07/11/2018] [Indexed: 11/18/2022] Open
Abstract
A series of phylogeographic studies in the Maghreb identified a repeated pattern of deep genetic divergence between an eastern (Tunisia) and western (Morocco) lineage for several taxa but lack of sampling in Algeria made it difficult to know if the range limits between the eastern and western lineages were shared among taxa or not. To address this question, we designed a comparative phylogeographic study using 8 reptile and 3 amphibian species with wide distribution in the Maghreb as models. We selected species where previous studies had identified an East-West phylogeographic divide and collected sampled in Algeria to 1) examine whether the simple East-West divergence pattern still holds after filling the sampling gap in Algeria or if more complex diversity patterns emerge; 2) if the E-W pattern still holds, test whether the limits between the E and W clades are shared between species, suggesting that common historical process caused the E-W divergences; 3) if E-W limits are shared between species, use information on the age of the divergence to identify possible geological or climatic events that could have triggered these E-W differentiations. We found that the E-W pattern was generally maintained after additional sampling in Algeria and identified two common disjunction areas, one around the Algeria-Morocco border, the other one in Kabylia (central Algeria), suggesting that common historical mechanisms caused the E-W divergences in the Maghreb. Our estimates for the times to most common recent ancestors to the E and W clades span a wide range between the Messinian salinity crisis and the Plio-Pleistocene limit (except for one older split), suggesting different origins for the initial divergences and subsequent preservation of the E and W lineages in common climatic refugia in the west and the east of the Maghreb.
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Affiliation(s)
- Menad Beddek
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
- Naturalia Environnement, Site Agroparc, Avignon, France
- * E-mail:
| | - Saliha Zenboudji-Beddek
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
| | - Philippe Geniez
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
| | - Raouaa Fathalla
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
- Unité de recherche de biodiversité et biologie des populations, Faculté des sciences de Tunis, Université de Tunis Elmanar, Tunis, Tunisie
| | - Patricia Sourouille
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
| | - Véronique Arnal
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
| | - Boualem Dellaoui
- Département de l’Environnement, Faculté des Sciences, Université Djillali Liabes, Sidi Bel Abbes, Algérie
| | - Fatiha Koudache
- Département de l’Environnement, Faculté des Sciences, Université Djillali Liabes, Sidi Bel Abbes, Algérie
| | - Salah Telailia
- Département des Sciences Agronomiques, Faculté des Sciences de la Nature et de la Vie, Université Chadli Bendjedid, El Tarf, Algérie
| | - Olivier Peyre
- Naturalia Environnement, Site Agroparc, Avignon, France
| | - Pierre-André Crochet
- CEFE, CNRS, Univ. Montpellier, Univ Paul Valéry Montpellier 3, INRA, EPHE, IRD, Montpellier, France
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19
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Gonçalves DV, Martínez-Freiría F, Crochet PA, Geniez P, Carranza S, Brito JC. The role of climatic cycles and trans-Saharan migration corridors in species diversification: Biogeography of Psammophis schokari group in North Africa. Mol Phylogenet Evol 2018; 118:64-74. [DOI: 10.1016/j.ympev.2017.09.009] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 09/06/2017] [Accepted: 09/13/2017] [Indexed: 11/27/2022]
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20
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Tamar K, Metallinou M, Wilms T, Schmitz A, Crochet PA, Geniez P, Carranza S. Evolutionary history of spiny-tailed lizards (Agamidae:Uromastyx) from the Saharo-Arabian region. ZOOL SCR 2017. [DOI: 10.1111/zsc.12266] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Karin Tamar
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra); Barcelona Spain
| | - Margarita Metallinou
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra); Barcelona Spain
| | | | - Andreas Schmitz
- Department of Herpetology & Ichthyology; Natural History Museum of Geneva (MHNG); Geneva Switzerland
| | - Pierre-André Crochet
- CNRS-UMR 5175; Centre d’Écologie Fonctionnelle et Évolutive (CEFE); Montpellier France
| | - Philippe Geniez
- EPHE, CNRS, UM, SupAgro, IRD, INRA, UMR 5175 Centre d’Écologie Fonctionnelle et Évolutive (CEFE); PSL Research University; Montpellier France
| | - Salvador Carranza
- Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra); Barcelona Spain
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21
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Kindler C, de Pous P, Carranza S, Beddek M, Geniez P, Fritz U. Phylogeography of the Ibero-Maghrebian red-eyed grass snake (Natrix astreptophora). ORG DIVERS EVOL 2017. [DOI: 10.1007/s13127-017-0354-2] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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22
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Prodon R, Geniez P, Cheylan M, Devers F, Chuine I, Besnard A. A reversal of the shift towards earlier spring phenology in several Mediterranean reptiles and amphibians during the 1998-2013 warming slowdown. Glob Chang Biol 2017; 23:5481-5491. [PMID: 28712146 DOI: 10.1111/gcb.13812] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Accepted: 05/30/2017] [Indexed: 06/07/2023]
Abstract
Herps, especially amphibians, are particularly susceptible to climate change, as temperature tightly controls many parameters of their biological cycle-above all, their phenology. The timing of herps' activity or migration period-in particular the dates of their first appearance in spring and first breeding-and the shift to earlier dates in response to warming since the last quarter of the 20th century has often been described up to now as a nearly monotonic trend towards earlier phenological events. In this study, we used citizen science data opportunistically collected on reptiles and amphibians in the northern Mediterranean basin over a period of 32 years to explore temporal variations in herp phenology. For 17 common species, we measured shifts in the date of the species' first spring appearance-which may be the result of current changes in climate-and regressed the first appearance date against temperatures and precipitations. Our results confirmed the expected overall trend towards earlier first spring appearances from 1983 to 1997, and show that the first appearance date of both reptiles and amphibians fits well with the temperature in late winter. However, the trend towards earlier dates was stopped or even reversed in most species between 1998 and 2013. We interpret this reversal as a response to cooling related to the North Atlantic Oscillation (NAO) in the late winter and early spring. During the positive NAO episodes, for certain species only (mainly amphibians), the effect of a warm weather, which tends to advance the phenology, seems to be counterbalanced by the adverse effects of the relative dryness.
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Affiliation(s)
- Roger Prodon
- PSL Research University, CEFE UMR 5175, CNRS, EPHE, Université de Montpellier, Université Paul-Valéry Montpellier, Montpellier, France
| | - Philippe Geniez
- PSL Research University, CEFE UMR 5175, CNRS, EPHE, Université de Montpellier, Université Paul-Valéry Montpellier, Montpellier, France
| | - Marc Cheylan
- PSL Research University, CEFE UMR 5175, CNRS, EPHE, Université de Montpellier, Université Paul-Valéry Montpellier, Montpellier, France
| | - Florence Devers
- Museum National d'Histoire Naturelle, Centre d'Ecologie et des Sciences de la Conservation (UMR 7204), Paris, France
| | - Isabelle Chuine
- PSL Research University, CEFE UMR 5175, CNRS, EPHE, Université de Montpellier, Université Paul-Valéry Montpellier, Montpellier, France
| | - Aurelien Besnard
- PSL Research University, CEFE UMR 5175, CNRS, EPHE, Université de Montpellier, Université Paul-Valéry Montpellier, Montpellier, France
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Nicolas V, Mataame A, Crochet PA, Geniez P, Fahd S, Ohler A. Phylogeography and ecological niche modeling unravel the evolutionary history of the African green toad,Bufotes boulengeri boulengeri(Amphibia: Bufonidae), through the Quaternary. J ZOOL SYST EVOL RES 2017. [DOI: 10.1111/jzs.12185] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Violaine Nicolas
- Institut de Systématique, Evolution, Biodiversité, ISYEB - UMR 7205 - CNRS, MNHN, UPMC, EPHE; Muséum National d'Histoire Naturelle; Sorbonne Universités; Paris France
| | | | - Pierre-André Crochet
- CEFE UMR 5175, CNRS; EPHE; Université de Montpellier; Université Paul-Valéry Montpellier EPHE; Montpellier France
| | - Philippe Geniez
- PSL Research University; CEFE UMR 5175; CNRS, Université de Montpellier, Université Paul-Valéry Montpellier; EPHE; Biogéographie et Ecologie des Vertébrés; Montpellier France
| | - Soumia Fahd
- Laboratoire “Ecologie, Biodiversité et Environnement”; Département de Biologie; Faculté des Sciences de Tétouan; Université Abdelmalek Essaâdi; Tétouan Morocco
| | - Annemarie Ohler
- Institut de Systématique, Evolution, Biodiversité, ISYEB - UMR 7205 - CNRS, MNHN, UPMC, EPHE; Muséum National d'Histoire Naturelle; Sorbonne Universités; Paris France
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24
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Martínez-Freiría F, Crochet PA, Fahd S, Geniez P, Brito JC, Velo-Antón G. Integrative phylogeographical and ecological analysis reveals multiple Pleistocene refugia for Mediterranean Daboia vipers in north-west Africa. Biol J Linn Soc Lond 2017. [DOI: 10.1093/biolinnean/blx038] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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25
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Vogt-Schilb H, Pradel R, Geniez P, Hugot L, Delage A, Richard F, Schatz B. Responses of orchids to habitat change in Corsica over 27 years. Ann Bot 2016; 118:115-23. [PMID: 27302932 PMCID: PMC4934393 DOI: 10.1093/aob/mcw070] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2015] [Accepted: 03/28/2016] [Indexed: 05/07/2023]
Abstract
BACKGROUND AND AIMS Orchids are known to be particularly sensitive to environmental changes due to their narrow ranges of secondary successional habitats. Lack of data at the community level limits our ability to evaluate how traits of different species influence their responses to habitat change. Here, we used a diachronic survey of Mediterranean orchid communities in Corsica to examine this question. METHODS Using data from two field surveys conducted 27 years apart (1982-84 and 2009-11) at the same 45 sites in Corsica, we evaluated the impact of increase in woody plant cover (WPC) on (i) the richness and composition and (ii) the local extinction/colonization dynamics of orchids. We applied a Bayesian multispecies site-occupancy model to each of the 36 orchid species recorded at these sites to estimate the detection probability of each species, enabling us to account for under-detection in estimating their dynamics. KEY RESULTS Between 1982 and 2011, WPC changed at 82·3 % of sites (increasing at 75·6 %, decreasing at 6·7 %). Despite marked changes in composition of orchid communities at the local scale, no significant change was detected in species richness at the regional scale. Canopy closure affected the probability of new colonization of sites, but had no significant influence on the probability of local extinction. However, the abundance of shade-intolerant species declined more sharply than that of shade-requiring species. Among orchid species, the detection probability was significantly and positively correlated with population density and plant height. CONCLUSIONS This study reveals contrasted dynamics of orchid communities between local and regional scales in Corsica. Although high turnover in communities was found at the local scale, regional species richness was maintained despite major land-use changes. Conserving landscape mosaics could provide locally suitable habitats for orchids of different ecologies to maintain diversity at larger spatial scales.
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Affiliation(s)
- Hélène Vogt-Schilb
- Centre d'Ecologie Fonctionnelle et Evolutive (CEFE) UMR 5175, CNRS - Université de Montpellier - Université Paul Valéry - EPHE, 1919 Route de Mende, 34293 Montpellier cedex 5, France Biotope, 22 boulevard Maréchal Foch, 34140 Mèze, France Faculty of Science, University of South Bohemia, Branišovská 31, 37005 České Budějovice, Czech Republic
| | - Roger Pradel
- Centre d'Ecologie Fonctionnelle et Evolutive (CEFE) UMR 5175, CNRS - Université de Montpellier - Université Paul Valéry - EPHE, 1919 Route de Mende, 34293 Montpellier cedex 5, France
| | - Philippe Geniez
- Centre d'Ecologie Fonctionnelle et Evolutive (CEFE) UMR 5175, CNRS - Université de Montpellier - Université Paul Valéry - EPHE, 1919 Route de Mende, 34293 Montpellier cedex 5, France
| | - Laetitia Hugot
- Conservatoire Botanique National de Corse, 14 Avenue Jean Nicoli, 20250 Corte, France
| | - Alain Delage
- Conservatoire Botanique National de Corse, 14 Avenue Jean Nicoli, 20250 Corte, France
| | - Franck Richard
- Centre d'Ecologie Fonctionnelle et Evolutive (CEFE) UMR 5175, CNRS - Université de Montpellier - Université Paul Valéry - EPHE, 1919 Route de Mende, 34293 Montpellier cedex 5, France
| | - Bertrand Schatz
- Centre d'Ecologie Fonctionnelle et Evolutive (CEFE) UMR 5175, CNRS - Université de Montpellier - Université Paul Valéry - EPHE, 1919 Route de Mende, 34293 Montpellier cedex 5, France
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26
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Pokrant F, Kindler C, Ivanov M, Cheylan M, Geniez P, Böhme W, Fritz U. Integrative taxonomy provides evidence for the species status of the Ibero-Maghrebian grass snakeNatrix astreptophora. Biol J Linn Soc Lond 2016. [DOI: 10.1111/bij.12782] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Felix Pokrant
- Zoologisches Forschungsmuseum Alexander Koenig; Adenauerallee 160 53113 Bonn Germany
| | - Carolin Kindler
- Museum of Zoology (Museum für Tierkunde); Senckenberg Dresden A. B. Meyer Building 01109 Dresden Germany
| | - Martin Ivanov
- Department of Geological Sciences; Masaryk University; Kotlářská 267/2 61137 Brno Czech Republic
| | - Marc Cheylan
- Biogéographie et Ecologie des Vertébrés; CEFE UMR 5175; CNRS; Université Paul-Valéry Montpellier, EPHE; 1919 route de Mende 34293 Montpellier Cedex 5 France
| | - Philippe Geniez
- Biogéographie et Ecologie des Vertébrés; CEFE UMR 5175; CNRS; Université Paul-Valéry Montpellier, EPHE; 1919 route de Mende 34293 Montpellier Cedex 5 France
| | - Wolfgang Böhme
- Zoologisches Forschungsmuseum Alexander Koenig; Adenauerallee 160 53113 Bonn Germany
| | - Uwe Fritz
- Museum of Zoology (Museum für Tierkunde); Senckenberg Dresden A. B. Meyer Building 01109 Dresden Germany
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27
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Valentini A, Taberlet P, Miaud C, Civade R, Herder J, Thomsen PF, Bellemain E, Besnard A, Coissac E, Boyer F, Gaboriaud C, Jean P, Poulet N, Roset N, Copp GH, Geniez P, Pont D, Argillier C, Baudoin JM, Peroux T, Crivelli AJ, Olivier A, Acqueberge M, Le Brun M, Møller PR, Willerslev E, Dejean T. Next-generation monitoring of aquatic biodiversity using environmental DNA metabarcoding. Mol Ecol 2016; 25:929-42. [PMID: 26479867 DOI: 10.1111/mec.13428] [Citation(s) in RCA: 419] [Impact Index Per Article: 52.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2015] [Revised: 10/13/2015] [Accepted: 10/15/2015] [Indexed: 11/29/2022]
Abstract
Global biodiversity in freshwater and the oceans is declining at high rates. Reliable tools for assessing and monitoring aquatic biodiversity, especially for rare and secretive species, are important for efficient and timely management. Recent advances in DNA sequencing have provided a new tool for species detection from DNA present in the environment. In this study, we tested whether an environmental DNA (eDNA) metabarcoding approach, using water samples, can be used for addressing significant questions in ecology and conservation. Two key aquatic vertebrate groups were targeted: amphibians and bony fish. The reliability of this method was cautiously validated in silico, in vitro and in situ. When compared with traditional surveys or historical data, eDNA metabarcoding showed a much better detection probability overall. For amphibians, the detection probability with eDNA metabarcoding was 0.97 (CI = 0.90-0.99) vs. 0.58 (CI = 0.50-0.63) for traditional surveys. For fish, in 89% of the studied sites, the number of taxa detected using the eDNA metabarcoding approach was higher or identical to the number detected using traditional methods. We argue that the proposed DNA-based approach has the potential to become the next-generation tool for ecological studies and standardized biodiversity monitoring in a wide range of aquatic ecosystems.
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Affiliation(s)
- Alice Valentini
- SPYGEN, Savoie Technolac-Bât. Koala, 17, Rue du Lac Saint-André-BP 274, Le Bourget-du-Lac Cedex, 73375, France
| | - Pierre Taberlet
- Laboratoire d'Ecologie Alpine (LECA), CNRS, Grenoble, 38000, France.,Laboratoire d'Ecologie Alpine (LECA), Univ. Grenoble Alpes, Grenoble, 38000, France
| | - Claude Miaud
- Laboratoire Biogéographie et Ecologie des Vertébrés, CEFE UMR 5175, Montpellier, 34293, France
| | - Raphaël Civade
- Hydrosystems and Bioprocesses Research Unit, IRSTEA, Antony Cedex, 92761, France
| | - Jelger Herder
- RAVON, Postbus 1413, Nijmegen, 6501 BK, The Netherlands
| | - Philip Francis Thomsen
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade, Copenhagen, Denmark
| | - Eva Bellemain
- SPYGEN, Savoie Technolac-Bât. Koala, 17, Rue du Lac Saint-André-BP 274, Le Bourget-du-Lac Cedex, 73375, France
| | - Aurélien Besnard
- Laboratoire Biogéographie et Ecologie des Vertébrés, CEFE UMR 5175, Montpellier, 34293, France
| | - Eric Coissac
- Laboratoire d'Ecologie Alpine (LECA), CNRS, Grenoble, 38000, France.,Laboratoire d'Ecologie Alpine (LECA), Univ. Grenoble Alpes, Grenoble, 38000, France
| | - Frédéric Boyer
- Laboratoire d'Ecologie Alpine (LECA), CNRS, Grenoble, 38000, France.,Laboratoire d'Ecologie Alpine (LECA), Univ. Grenoble Alpes, Grenoble, 38000, France
| | - Coline Gaboriaud
- SPYGEN, Savoie Technolac-Bât. Koala, 17, Rue du Lac Saint-André-BP 274, Le Bourget-du-Lac Cedex, 73375, France
| | - Pauline Jean
- SPYGEN, Savoie Technolac-Bât. Koala, 17, Rue du Lac Saint-André-BP 274, Le Bourget-du-Lac Cedex, 73375, France
| | - Nicolas Poulet
- Direction de l'Action Scientifique et Technique, ONEMA, Vincennes, 94300, France
| | - Nicolas Roset
- Rhône-Alpes Regional Direction, ONEMA, Bron, 69500, France
| | - Gordon H Copp
- Centre for Environment, Fisheries and Aquaculture Science, Pakefield Road, Lowestoft, Suffolk, NR33 0HT, UK.,Environmental and Life Sciences Graduate Program, Trent University, Peterborough, ON, K9J 7B8, Canada
| | - Philippe Geniez
- Laboratoire Biogéographie et Ecologie des Vertébrés, CEFE UMR 5175, Montpellier, 34293, France
| | - Didier Pont
- Hydrosystems and Bioprocesses Research Unit, IRSTEA, Antony Cedex, 92761, France
| | - Christine Argillier
- Pole ONEMA/IRSTEA Hydroécologie des plans d'eau, Centre d'Aix-en-Provence, IRSTEA UR HYAX, Aix-en-Provence, 13182, France
| | - Jean-Marc Baudoin
- Pole ONEMA/IRSTEA Hydroécologie des plans d'eau, Centre d'Aix-en-Provence, IRSTEA UR HYAX, Aix-en-Provence, 13182, France
| | - Tiphaine Peroux
- Pole ONEMA/IRSTEA Hydroécologie des plans d'eau, Centre d'Aix-en-Provence, IRSTEA UR HYAX, Aix-en-Provence, 13182, France
| | | | | | | | | | - Peter R Møller
- Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, Copenhagen, 2100, Denmark
| | - Eske Willerslev
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade, Copenhagen, Denmark
| | - Tony Dejean
- SPYGEN, Savoie Technolac-Bât. Koala, 17, Rue du Lac Saint-André-BP 274, Le Bourget-du-Lac Cedex, 73375, France
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Yousefi M, Ahmadi M, Nourani E, Behrooz R, Rajabizadeh M, Geniez P, Kaboli M. Upward Altitudinal Shifts in Habitat Suitability of Mountain Vipers since the Last Glacial Maximum. PLoS One 2015; 10:e0138087. [PMID: 26367126 PMCID: PMC4569082 DOI: 10.1371/journal.pone.0138087] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2014] [Accepted: 08/26/2015] [Indexed: 11/25/2022] Open
Abstract
We determined the effects of past and future climate changes on the distribution of the Montivipera raddei species complex (MRC) that contains rare and endangered viper species limited to Iran, Turkey and Armenia. We also investigated the current distribution of MRC to locate unidentified isolated populations as well as to evaluate the effectiveness of the current network of protected areas for their conservation. Present distribution of MRC was modeled based on ecological variables and model performance was evaluated by field visits. Some individuals at the newly identified populations showed uncommon morphological characteristics. The distribution map of MRC derived through modeling was then compared with the distribution of protected areas in the region. We estimated the effectiveness of the current protected area network to be 10%, which would be sufficient for conserving this group of species, provided adequate management policies and practices are employed. We further modeled the distribution of MRC in the past (21,000 years ago) and under two scenarios in the future (to 2070). These models indicated that climatic changes probably have been responsible for an upward shift in suitable habitats of MRC since the Last Glacial Maximum, leading to isolation of allopatric populations. Distribution will probably become much more restricted in the future as a result of the current rate of global warming. We conclude that climate change most likely played a major role in determining the distribution pattern of MRC, restricting allopatric populations to mountaintops due to habitat alterations. This long-term isolation has facilitated unique local adaptations among MRC populations, which requires further investigation. The suitable habitat patches identified through modeling constitute optimized solutions for inclusion in the network of protected areas in the region.
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Affiliation(s)
- Masoud Yousefi
- Department of Environmental Sciences, Faculty of Natural Resources, University of Tehran, Tehran, Iran
| | - Mohsen Ahmadi
- Department of Environmental Sciences, Faculty of Natural Resources, University of Tehran, Tehran, Iran
- Department of Natural Resources, Isfahan University of Technology, Isfahan, Iran
| | - Elham Nourani
- Department of Environmental Sciences, Faculty of Natural Resources, University of Tehran, Tehran, Iran
- Graduate School of Fisheries Science and Environmental Studies, Nagasaki University, Nagasaki, Japan
| | - Roozbeh Behrooz
- CEFE UMR 5175, CNRS—Université de Montpellier—Université Paul-Valéry Montpellier–EPHE, laboratoire Biogéographie et écologie des vertébrés, 1919 route de Mende, 34293 Montpellier cedex 5, France
| | - Mehdi Rajabizadeh
- Evolutionary Morphology of Vertebrates, Ghent University, Ghent, Belgium
- Department of Biodiversity, Institute of Science and High Technology and Environmental Sciences, Graduate University of Advanced Technology, Kerman, Iran
- Iranian Plateau Herpetology Research Group (IPHRG), Faculty of Science, Razi University, Kermanshah, Iran
| | - Philippe Geniez
- CEFE UMR 5175, CNRS—Université de Montpellier—Université Paul-Valéry Montpellier–EPHE, laboratoire Biogéographie et écologie des vertébrés, 1919 route de Mende, 34293 Montpellier cedex 5, France
| | - Mohammad Kaboli
- Department of Environmental Sciences, Faculty of Natural Resources, University of Tehran, Tehran, Iran
- * E-mail:
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29
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Metallinou M, Červenka J, Crochet PA, Kratochvíl L, Wilms T, Geniez P, Shobrak MY, Brito JC, Carranza S. Species on the rocks: Systematics and biogeography of the rock-dwelling Ptyodactylus geckos (Squamata: Phyllodactylidae) in North Africa and Arabia. Mol Phylogenet Evol 2015; 85:208-20. [DOI: 10.1016/j.ympev.2015.02.010] [Citation(s) in RCA: 51] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2014] [Revised: 02/07/2015] [Accepted: 02/16/2015] [Indexed: 11/27/2022]
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30
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Nicolas V, Mataame A, Crochet PA, Geniez P, Ohler A. Phylogeographic patterns in North African water frog Pelophylax saharicus
(Anura: Ranidae). J ZOOL SYST EVOL RES 2015. [DOI: 10.1111/jzs.12094] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Violaine Nicolas
- Institut de Systématique, Évolution, Biodiversité; ISYEB - UMR 7205 - CNRS, MNHN, UPMC, EPHE; Muséum national d'Histoire naturelle; Sorbonne Universités; Paris France
| | | | | | | | - Annemarie Ohler
- Institut de Systématique, Évolution, Biodiversité; ISYEB - UMR 7205 - CNRS, MNHN, UPMC, EPHE; Muséum national d'Histoire naturelle; Sorbonne Universités; Paris France
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Petitot M, Manceau N, Geniez P, Besnard A. Optimizing occupancy surveys by maximizing detection probability: application to amphibian monitoring in the Mediterranean region. Ecol Evol 2014; 4:3538-49. [PMID: 25478146 PMCID: PMC4224529 DOI: 10.1002/ece3.1207] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2014] [Revised: 07/10/2014] [Accepted: 07/25/2014] [Indexed: 12/03/2022] Open
Abstract
Setting up effective conservation strategies requires the precise determination of the targeted species’ distribution area and, if possible, its local abundance. However, detection issues make these objectives complex for most vertebrates. The detection probability is usually <1 and is highly dependent on species phenology and other environmental variables. The aim of this study was to define an optimized survey protocol for the Mediterranean amphibian community, that is, to determine the most favorable periods and the most effective sampling techniques for detecting all species present on a site in a minimum number of field sessions and a minimum amount of prospecting effort. We visited 49 ponds located in the Languedoc region of southern France on four occasions between February and June 2011. Amphibians were detected using three methods: nighttime call count, nighttime visual encounter, and daytime netting. The detection nondetection data obtained was then modeled using site-occupancy models. The detection probability of amphibians sharply differed between species, the survey method used and the date of the survey. These three covariates also interacted. Thus, a minimum of three visits spread over the breeding season, using a combination of all three survey methods, is needed to reach a 95% detection level for all species in the Mediterranean region. Synthesis and applications: detection nondetection surveys combined to site occupancy modeling approach are powerful methods that can be used to estimate the detection probability and to determine the prospecting effort necessary to assert that a species is absent from a site.
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Affiliation(s)
- Maud Petitot
- Les Ecologistes de l'Euzière, Domaine de Restinclières 34730, Prades-le-Lez, France
| | - Nicolas Manceau
- Les Ecologistes de l'Euzière, Domaine de Restinclières 34730, Prades-le-Lez, France
| | - Philippe Geniez
- Centre d'Ecologie Fonctionnelle et Evolutive (UMR 5175), Ecole Pratique des Hautes Etudes, Biogéographie et Ecologie des Vertébrés campus CNRS, 1919 route de Mende, 34293, Montpellier Cedex 5, France
| | - Aurélien Besnard
- Centre d'Ecologie Fonctionnelle et Evolutive (UMR 5175), Ecole Pratique des Hautes Etudes, Biogéographie et Ecologie des Vertébrés campus CNRS, 1919 route de Mende, 34293, Montpellier Cedex 5, France
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32
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Vences M, Hauswaldt JS, Steinfartz S, Rupp O, Goesmann A, Künzel S, Orozco-terWengel P, Vieites DR, Nieto-Roman S, Haas S, Laugsch C, Gehara M, Bruchmann S, Pabijan M, Ludewig AK, Rudert D, Angelini C, Borkin LJ, Crochet PA, Crottini A, Dubois A, Ficetola GF, Galán P, Geniez P, Hachtel M, Jovanovic O, Litvinchuk SN, Lymberakis P, Ohler A, Smirnov NA. Radically different phylogeographies and patterns of genetic variation in two European brown frogs, genus Rana. Mol Phylogenet Evol 2013; 68:657-70. [PMID: 23632031 DOI: 10.1016/j.ympev.2013.04.014] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2012] [Revised: 04/10/2013] [Accepted: 04/16/2013] [Indexed: 11/26/2022]
Abstract
We reconstruct range-wide phylogeographies of two widespread and largely co-occurring Western Palearctic frogs, Rana temporaria and R. dalmatina. Based on tissue or saliva samples of over 1000 individuals, we compare a variety of genetic marker systems, including mitochondrial DNA, single-copy protein-coding nuclear genes, microsatellite loci, and single nucleotide polymorphisms (SNPs) of transcriptomes of both species. The two focal species differ radically in their phylogeographic structure, with R. temporaria being strongly variable among and within populations, and R. dalmatina homogeneous across Europe with a single strongly differentiated population in southern Italy. These differences were observed across the various markers studied, including microsatellites and SNP density, but especially in protein-coding nuclear genes where R. dalmatina had extremely low heterozygosity values across its range, including potential refugial areas. On the contrary, R. temporaria had comparably high range-wide values, including many areas of probable postglacial colonization. A phylogeny of R. temporaria based on various concatenated mtDNA genes revealed that two haplotype clades endemic to Iberia form a paraphyletic group at the base of the cladogram, and all other haplotypes form a monophyletic group, in agreement with an Iberian origin of the species. Demographic analysis suggests that R. temporaria and R. dalmatina have genealogies of roughly the same time to coalescence (TMRCA ~3.5 mya for both species), but R. temporaria might have been characterized by larger ancestral and current effective population sizes than R. dalmatina. The high genetic variation in R. temporaria can therefore be explained by its early range expansion out of Iberia, with subsequent cycles of differentiation in cryptic glacial refugial areas followed by admixture, while the range expansion of R. dalmatina into central Europe is a probably more recent event.
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Affiliation(s)
- Miguel Vences
- Zoological Institute, Technische Universität Braunschweig, Mendelssohnstr. 4, 38106 Braunschweig, Germany.
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Metallinou M, Arnold EN, Crochet PA, Geniez P, Brito JC, Lymberakis P, Baha El Din S, Sindaco R, Robinson M, Carranza S. Conquering the Sahara and Arabian deserts: systematics and biogeography of Stenodactylus geckos (Reptilia: Gekkonidae). BMC Evol Biol 2012; 12:258. [PMID: 23273581 PMCID: PMC3582542 DOI: 10.1186/1471-2148-12-258] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/20/2012] [Accepted: 12/03/2012] [Indexed: 11/23/2022] Open
Abstract
Background The evolutionary history of the biota of North Africa and Arabia is inextricably tied to the complex geological and climatic evolution that gave rise to the prevalent deserts of these areas. Reptiles constitute an exemplary group in the study of the arid environments with numerous well-adapted members, while recent studies using reptiles as models have unveiled interesting biogeographical and diversification patterns. In this study, we include 207 specimens belonging to all 12 recognized species of the genus Stenodactylus. Molecular phylogenies inferred using two mitochondrial (12S rRNA and 16S rRNA) and two nuclear (c-mos and RAG-2) markers are employed to obtain a robust time-calibrated phylogeny, as the base to investigate the inter- and intraspecific relationships and to elucidate the biogeographical history of Stenodactylus, a genus with a large distribution range including the arid and hyper-arid areas of North Africa and Arabia. Results The phylogenetic analyses of molecular data reveal the existence of three major clades within the genus Stenodactylus, which is supported by previous studies based on morphology. Estimated divergence times between clades and sub-clades are shown to correlate with major geological events of the region, the most important of which is the opening of the Red Sea, while climatic instability in the Miocene is hypothesized to have triggered diversification. High genetic variability is observed in some species, suggesting the existence of some undescribed species. The S. petrii - S. stenurus species complex is in need of a thorough taxonomic revision. New data is presented on the distribution of the sister species S. sthenodactylus and S. mauritanicus. Conclusions The phylogenetic hypothesis for the genus Stenodactylus presented in this work permits the reconstruction of the biogeographical history of these common desert dwellers and confirms the importance of the opening of the Red Sea and the climatic oscillations of the Miocene as major factors in the diversification of the biota of North Africa and Arabia. Moreover, this study traces the evolution of this widely distributed and highly specialized group, investigates the patterns of its high intraspecific diversity and elucidates its systematics.
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Affiliation(s)
- Margarita Metallinou
- Institute of Evolutionary Biology (CSIC-UPF), Passeig Marítim de la Barceloneta 37-49, 08003, Barcelona, Spain
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Schulte U, Gassert F, Geniez P, Veith M, Hochkirch A. Origin and genetic diversity of an introduced wall lizard population and its cryptic congener. AMPHIBIA-REPTILIA 2012. [DOI: 10.1163/156853812x626160] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
The Common Wall Lizard (Podarcis muralis) has been introduced within large parts of Central Europe, the UK and parts of North America. In an introduced population of this species in Lower Saxony, Germany, we found in addition to mtDNA haplotypes of P. muralis also haplotypes of its congener Podarcis liolepis, a species that hitherto has never been recorded outside its native range. We therefore, (1) wanted to identify the geographic origin of the founder individuals of both non-native populations, (2) test for hybridization between introduced individuals of both species in Germany and (3) compare levels of genetic diversity between native and introduced populations. We sequenced a fragment of the mitochondrial cytochrome b gene and genotyped individuals of the introduced as well as native populations of both species at eleven microsatellite loci. Our results suggest that the founders presumably stem from a region in the eastern Pyrenees, where sympatric populations of P. muralis and P. liolepis are known. No evidence for gene flow between the two species was found in the introduced population. These results are consistent with behavioural observations indicating agonistic interactions of P. muralis towards P. liolepis rather than cross-species attraction. Compared to the native populations, high levels of genetic diversity have been retained in the introduced population of both species and no evidence for a genetic bottleneck was found. The effective population size was high in P. muralis, but substantially smaller in P. liolepis.
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Affiliation(s)
- Ulrich Schulte
- 1Department of Biogeography, Trier University, D-54286 Trier, Germany
| | - Franz Gassert
- 2Section Zoologie des Vertébrés, Musée National d’Histoire Naturelle, L-2160 Luxembourg
| | - Philippe Geniez
- 3Ecologie et Biogéographie des Vertébrés, Ecole Pratique des Hautes Etudes, UMR 5175, CEFE-CNRS, Montpellier, France
| | - Michael Veith
- 1Department of Biogeography, Trier University, D-54286 Trier, Germany
| | - Axel Hochkirch
- 1Department of Biogeography, Trier University, D-54286 Trier, Germany
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Beddek M, Renoult J, Geniez P, Crochet PA. An isolated population of Podarcis vaucheri (Sauria: Lacertidae) in south-eastern Spain: genetic data suggest human-mediated range expansion. AMPHIBIA-REPTILIA 2010. [DOI: 10.1163/156853810791069074] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
AbstractIn this study, we investigate the identity and origin of a population of Iberian Wall Lizards (Podarcis hispanicus complex) that we recently discovered inside the distribution range of the nominotypical form P. hispanicus. In the field, these animals were clearly identified as different from this species but their identity remained problematic. Using morphological and mitochondrial DNA analyses, we here identify this population as P. vaucheri, which constitutes a significant range extension for this species. Molecular results suggest a North African origin to this population. However, according to morphological results, these individuals are closer to the Spanish morphotype than to the North African morphotypes of P. vaucheri. Taken together, these results suggest a human-mediated introduction as the origin of this population, with local adaptation or phenotypic plasticity responsible of phenotypic convergence.
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Affiliation(s)
- Menad Beddek
- 1CNRS-UMR 5175, Centre d'Ecologie Fonctionnelle et Evolutive, 1919 route de Mende, 34293 Montpellier cedex 5, France
| | - Julien Renoult
- 2CNRS-UMR 5175, Centre d'Ecologie Fonctionnelle et Evolutive, 1919 route de Mende, 34293 Montpellier cedex 5, France
| | - Philippe Geniez
- 3EPHE-UMR 5175, Centre d'Ecologie Fonctionnelle et Evolutive, 1919 route de Mende, 34293 Montpellier cedex 5, France
| | - Pierre-André Crochet
- 4CNRS-UMR 5175, Centre d'Ecologie Fonctionnelle et Evolutive, 1919 route de Mende, 34293 Montpellier cedex 5, France;,
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Carranza S, Arnold EN, Mateo JA, Geniez P. Relationships and evolution of the North African geckos, Geckonia and Tarentola (Reptilia: Gekkonidae), based on mitochondrial and nuclear DNA sequences. Mol Phylogenet Evol 2002; 23:244-56. [PMID: 12069554 DOI: 10.1016/s1055-7903(02)00024-6] [Citation(s) in RCA: 92] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Mitochondrial (cytochrome b and 12S rRNA) and nuclear (c-mos) genes, analyzed by a variety of methods, indicate that the distinctive northwest African gecko Geckonia chazaliae is a member of the Tarentola clade, being most closely related to the species of the western Canary and Cape Verde islands. Relationships in Tarentola as a whole are as follows: (T. americana ((T. mauritanica, T. angustimentalis) ((T. deserti, T. boehmei) ((T. b. boettgeri-South (T. b. boettgeri-North (T. b. bischoffi, T. b. hierrensis))) ((T. annularis, T. ephippiata) (Geckonia, T. delalandii, T. gomerensis, Cape Verde species)))))); nearly all nodes have high bootstrap support. Results confirm that T. americana of Cuba and the Bahamas separated at the most basal dichotomy of the phylogeny and give no positive support for the monophyly of the subgenera Tarentola s. str. and Makariogecko. The latter includes Geckonia and the subgenus Sahelogecko. Continental Tarentola appear to have invaded the Sahara desert from its northern edge. They have also colonized groups of Atlantic islands five times: a single invasion of the West Indies and three of the Canary islands, one of which then went on to invade the Cape Verde archipelago. The phylogeny corroborates anatomical evidence that the ground-dwelling Geckonia had a climbing ancestry, something that is paralleled in some southern African terrestrial gekkonids related to Pachydactylus. Distinctive derived features of Geckonia occur in other gekkonids that are ground dwelling in arid habitats and may be functionally related to this environment. The evolution of such features indicates that, although Tarentola is generally very uniform and may have been so for over 10 million years, this is not due to any overwhelming phylogenetic constraint. G. chazaliae should be included in Tarentola, as Tarentola chazaliae.
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Affiliation(s)
- S Carranza
- Department of Zoology, The Natural History Museum, London SW7 5BD, UK
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