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Vecchioni L, Marrone F, Costa S, Muscarella C, Carra E, Arizza V, Arculeo M, Faraone FP. The European Pine Marten Martes martes (Linnaeus, 1758) Is Autochthonous in Sicily and Constitutes a Well-Characterised Major Phylogroup within the Species (Carnivora, Mustelidae). Animals (Basel) 2022; 12:ani12192546. [PMID: 36230287 PMCID: PMC9558521 DOI: 10.3390/ani12192546] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 09/22/2022] [Accepted: 09/22/2022] [Indexed: 11/29/2022] Open
Abstract
Simple Summary The faunal assemblages currently occurring on islands are often a mélange of native and non-native species, and the actual status of some of them is doubtful at present. Since different laws are enforced for native and non-native species, sound knowledge about their status is pivotal for both their management and our understanding of the natural history of the studied areas. In the frame of this work, the Sicilian population of the European pine marten is genetically characterized for the first time, based on mitochondrial DNA sequences. Our results prove that the European pine marten is native on the island, where it arrived during the Pleistocene, and is represented there by a well-differentiated and endemic evolutionary lineage. Abstract No molecular data are currently available for the Sicilian populations of the European pine marten Martes martes, thus preventing any sound inference about its native or non-native status on the island, as well as the local phylogeography of the species. In order to investigate these issues, we sequenced two mtDNA markers in road-killed specimens collected in Sicily. Both markers consistently demonstrated the existence of a well-characterised Sicilian clade of the species, which is endemic to the island and constitutes the sister group of a clade including the Mediterranean and Central–North European major phylogroups of the European pine marten. Such evidence supports the autochthony of Martes martes in Sicily and points to a natural Pleistocene colonisation of the island followed by isolation. The occurrence of a, to date undetected, major phylogroup of the species in Sicily calls for the dedicated monitoring of the Sicilian populations of the species in order to preserve this evolutionarily significant unit.
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Affiliation(s)
- Luca Vecchioni
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, Via Archirafi 18, 90123 Palermo, Italy
| | - Federico Marrone
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, Via Archirafi 18, 90123 Palermo, Italy
- Correspondence:
| | - Simone Costa
- Cooperativa Silene, Via D’Ondes Reggio 8a, 90127 Palermo, Italy
| | | | - Elena Carra
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, Via Archirafi 18, 90123 Palermo, Italy
| | - Vincenzo Arizza
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, Via Archirafi 18, 90123 Palermo, Italy
| | - Marco Arculeo
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies (STEBICEF), University of Palermo, Via Archirafi 18, 90123 Palermo, Italy
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OUP accepted manuscript. Biol J Linn Soc Lond 2022. [DOI: 10.1093/biolinnean/blac003] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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3
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O’Reilly C, Turner P, O’Mahony DT, Twining JP, Tosh DG, Smal C, McAney K, Powell C, Power J, O’Meara DB. Not out of the woods yet: genetic insights related to the recovery of the pine marten (Martes martes) in Ireland. Biol J Linn Soc Lond 2021. [DOI: 10.1093/biolinnean/blaa214] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Abstract
In this study, the history of the pine marten (Martes martes) in Ireland is reviewed, revealing that the population has undergone several retractions and expansions over the last few hundred years. Here, we consider the genetic legacy of this flux in fortunes and its likely impacts upon the conservation and future recovery of the species. Using nuclear DNA markers (microsatellites), we found that the genetic diversity present in Ireland today is like that of other Irish carnivores, but there is evidence of a genetic bottleneck and low effective population size that might result in further reductions of diversity in the future. There is a lack of genetic structure, showing that the population has not been fragmented genetically, despite the low percentage of woodland in Ireland. We also reviewed the mitochondrial DNA diversity present in the Irish population and showed that there is only one contemporary and one extinct haplotype present; a reduced diversity relative to other Irish carnivores. The Irish haplotypes, both extant and extinct, are shared or are genetically similar to haplotypes commonly present in southern Europe today. We discuss the possibility of reinforcing the Irish population with animals from these sources to help supplement and maintain genetic diversity for future generations.
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Affiliation(s)
- Catherine O’Reilly
- Molecular Ecology Research Group, Eco-innovation Research Centre, School of Science and Computing, Waterford Institute of Technology, Waterford, Ireland
| | - Peter Turner
- Molecular Ecology Research Group, Eco-innovation Research Centre, School of Science and Computing, Waterford Institute of Technology, Waterford, Ireland
| | | | - Joshua P Twining
- School of Biological Sciences, Queen’s University of Belfast, Belfast, Northern Ireland, UK
| | - David G Tosh
- National Museums Northern Ireland, Northern Ireland, UK
| | - Christopher Smal
- Ecological Solutions, Rathdown Upper, Greystones, County Wicklow, Ireland
| | - Kate McAney
- Vincent Wildlife Trust, Donaghpatrick, Headford, County Galway, Ireland
| | - Ciara Powell
- Molecular Ecology Research Group, Eco-innovation Research Centre, School of Science and Computing, Waterford Institute of Technology, Waterford, Ireland
| | - John Power
- Molecular Ecology Research Group, Eco-innovation Research Centre, School of Science and Computing, Waterford Institute of Technology, Waterford, Ireland
| | - Denise B O’Meara
- Molecular Ecology Research Group, Eco-innovation Research Centre, School of Science and Computing, Waterford Institute of Technology, Waterford, Ireland
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Reinstating trophic cascades as an applied conservation tool to protect forest ecosystems from invasive grey squirrels (Sciurus carolinensis). FOOD WEBS 2020. [DOI: 10.1016/j.fooweb.2020.e00164] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
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Monakhov VG, Hamilton MJ. Spatial Trends in the Size Structure of Pine Marten Martes martes Linnaeus, 1756 (Mammalia: Mustelidae) within the Species Range. RUSS J ECOL+ 2020. [DOI: 10.1134/s1067413620030108] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Lansink GMJ, Esparza-Salas R, Joensuu M, Koskela A, Bujnáková D, Kleven O, Flagstad Ø, Ollila T, Kojola I, Aspi J, Kvist L. Population genetics of the wolverine in Finland: the road to recovery? CONSERV GENET 2020. [DOI: 10.1007/s10592-020-01264-8] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
AbstractAfter decades, even centuries of persecution, large carnivore populations are widely recovering in Europe. Considering the recent recovery of the wolverine (Gulo gulo) in Finland, our aim was to evaluate genetic variation using 14 microsatellites and mtDNA control region (579 bp) in order (1) to determine whether the species is represented by a single genetic population within Finland, (2) to quantify the genetic diversity, and (3) to estimate the effective population size. We found two major genetic clusters divided between eastern and northern Finland based on microsatellites (FST = 0.100) but also a significant pattern of isolation by distance. Wolverines in western Finland had a genetic signature similar to the northern cluster, which can be explained by former translocations of wolverines from northern to western Finland. For both main clusters, most estimates of the effective population size Ne were below 50. Nevertheless, the genetic diversity was higher in the eastern cluster (HE = 0.57, AR = 4.0, AP = 0.3) than in the northern cluster (HE = 0.49, AR = 3.7, AP = 0.1). Migration between the clusters was low. Two mtDNA haplotypes were found: one common and identical to Scandinavian wolverines; the other rare and not previously detected. The rare haplotype was more prominent in the eastern genetic cluster. Combining all available data, we infer that the genetic population structure within Finland is shaped by a recent bottleneck, isolation by distance, human-aided translocations and postglacial recolonization routes.
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Phylogeography of the striped field mouse, Apodemus agrarius (Rodentia: Muridae), throughout its distribution range in the Palaearctic region. Mamm Biol 2020. [DOI: 10.1007/s42991-019-00001-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Zhigileva ON, Uslamina IM, Gimranov DO, Chernova AA. Mitochondrial DNA markers for the study of introgression between the sable and the pine marten. CONSERV GENET RESOUR 2019. [DOI: 10.1007/s12686-019-01098-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Łabiszak B, Zaborowska J, Wachowiak W. Patterns of mtDNA variation reveal complex evolutionary history of relict and endangered peat bog pine ( Pinus uliginosa). AOB PLANTS 2019; 11:plz015. [PMID: 30972216 PMCID: PMC6450798 DOI: 10.1093/aobpla/plz015] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/25/2018] [Accepted: 03/13/2019] [Indexed: 06/09/2023]
Abstract
Estimates of genetic differentiation at intra- and interspecific level are often hindered by the lack of suitable molecular markers. Low phylogeographic resolution limits development of appropriate conservation strategies especially in case of endangered forest tree species with small and disjunct distribution. In this study, we assessed fine-scale genetic structure of relict and endangered peat bog pine (Pinus uliginosa) and two other closely related European pine species (Pinus mugo and Pinus uncinata) using a set of 15 newly developed maternally inherited and seed-mediated mitochondrial DNA (mtDNA) markers and two previously known polymorphic mtDNA regions (nad1, nad7). Three main groups, corresponding in general to three investigated species were revealed in the haplotype network analysis. However, only P. uncinata was clearly distinct at all levels of analysis, whereas great genetic similarity and haplotype sharing was observed between P. uliginosa and P. mugo. Strong phylogeographic structure was found in P. uliginosa that showed high differentiation at relatively short geographical distance among populations and the existence of mitochondrial lineages of different evolutionary history. Hybridization with other pine species has likely contributed to genetic differentiation of P. uliginosa as indicated by contemporary distribution of mtDNA haplotypes. The research emphasizes the importance of accurate assessments of genetic structure of endangered species with complex evolutionary history for development of efficient conservation strategies.
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Affiliation(s)
- Bartosz Łabiszak
- Institute of Environmental Biology, Adam Mickiewicz University, Poznań, Poland
| | - Julia Zaborowska
- Institute of Environmental Biology, Adam Mickiewicz University, Poznań, Poland
| | - Witold Wachowiak
- Institute of Environmental Biology, Adam Mickiewicz University, Poznań, Poland
- Institute of Dendrology, Polish Academy of Sciences, Kórnik, Poland
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İbiş O, Koepfli KP, Özcan S, Tez C. Genetic analysis of Turkish martens: Do two species of the genusMartesoccur in Anatolia? ZOOL SCR 2018. [DOI: 10.1111/zsc.12289] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Affiliation(s)
- Osman İbiş
- Department of Agricultural Biotechnology; Faculty of Agriculture; Erciyes University; Kayseri Turkey
- Genome and Stem Cell Center (GENKOK); Erciyes University; Kayseri Turkey
| | - Klaus-Peter Koepfli
- National Zoological Park; Smithsonian Conservation Biology Institute; Washington District of Columbia
- Theodosius Dobzhansky Center for Genome Bioinformatics; Saint Petersburg State University; Saint Petersburg Russia
| | - Servet Özcan
- Genome and Stem Cell Center (GENKOK); Erciyes University; Kayseri Turkey
- Department of Biology; Faculty of Sciences; Erciyes University; Kayseri Turkey
| | - Coşkun Tez
- Department of Biology; Faculty of Sciences; Erciyes University; Kayseri Turkey
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Moska M, Mucha A, Wierzbicki H. Genetic differentiation of the edible dormouse (
Glis glis
) in the Polish Sudetens: the current status of an endangered species. J Zool (1987) 2018. [DOI: 10.1111/jzo.12552] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- M. Moska
- Department of Genetics Wroclaw University of Environmental and Life Sciences Wroclaw Poland
| | - A. Mucha
- Department of Genetics Wroclaw University of Environmental and Life Sciences Wroclaw Poland
| | - H. Wierzbicki
- Department of Genetics Wroclaw University of Environmental and Life Sciences Wroclaw Poland
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Korablev MP, Korablev NP, Korablev PN, Tumanov IL. Intrapopulation Polymorphism of the Pine Marten (Martes martes, Carnivora, Mustelidae) from Tver Oblast. BIOL BULL+ 2018. [DOI: 10.1134/s1062359017070111] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Vörös J, Mikulíček P, Major Á, Recuero E, Arntzen JW. Phylogeographic analysis reveals northerly refugia for the riverine amphibianTriturus dobrogicus(Caudata: Salamandridae). Biol J Linn Soc Lond 2016. [DOI: 10.1111/bij.12866] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Judit Vörös
- Department of Zoology; Hungarian Natural History Museum; Baross u. 13. 1088 Budapest Hungary
- Molecular Taxonomy Laboratory; Hungarian Natural History Museum; Ludovika tér 2-6. 1083 Budapest Hungary
| | - Peter Mikulíček
- Department of Zoology; Faculty of Natural Sciences; Comenius University in Bratislava; Mlynská dolina Ilkovičova 6 SK-84215 Bratislava Slovak Republic
- Institute of Vertebrate Biology; Academy of Sciences of the Czech Republic v.v.i.; Květná 8 CZ-60365 Brno Czech Republic
| | - Ágnes Major
- Molecular Taxonomy Laboratory; Hungarian Natural History Museum; Ludovika tér 2-6. 1083 Budapest Hungary
| | - Ernesto Recuero
- Biodiversidad y Biología Evolutiva; Museo Nacional de Ciencias Naturales MNCN-CSIC; C/José Gutiérrez Abascal, 2 28006 Madrid Spain
| | - Jan W. Arntzen
- Naturalis Biodiversity Center; P.O. BOX 9517 2300 RA Leiden the Netherlands
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Nadachowska-Brzyska K, Burri R, Smeds L, Ellegren H. PSMC analysis of effective population sizes in molecular ecology and its application to black-and-white Ficedula flycatchers. Mol Ecol 2016; 25:1058-72. [PMID: 26797914 PMCID: PMC4793928 DOI: 10.1111/mec.13540] [Citation(s) in RCA: 148] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2015] [Revised: 12/15/2015] [Accepted: 01/07/2016] [Indexed: 12/12/2022]
Abstract
Climatic fluctuations during the Quaternary period governed the demography of species and contributed to population differentiation and ultimately speciation. Studies of these past processes have previously been hindered by a lack of means and genetic data to model changes in effective population size (Ne ) through time. However, based on diploid genome sequences of high quality, the recently developed pairwise sequentially Markovian coalescent (PSMC) can estimate trajectories of changes in Ne over considerable time periods. We applied this approach to resequencing data from nearly 200 genomes of four species and several populations of the Ficedula species complex of black-and-white flycatchers. Ne curves of Atlas, collared, pied and semicollared flycatcher converged 1-2 million years ago (Ma) at an Ne of ≈ 200 000, likely reflecting the time when all four species last shared a common ancestor. Subsequent separate Ne trajectories are consistent with lineage splitting and speciation. All species showed evidence of population growth up until 100-200 thousand years ago (kya), followed by decline and then start of a new phase of population expansion. However, timing and amplitude of changes in Ne differed among species, and for pied flycatcher, the temporal dynamics of Ne differed between Spanish birds and central/northern European populations. This cautions against extrapolation of demographic inference between lineages and calls for adequate sampling to provide representative pictures of the coalescence process in different species or populations. We also empirically evaluate criteria for proper inference of demographic histories using PSMC and arrive at recommendations of using sequencing data with a mean genome coverage of ≥18X, a per-site filter of ≥10 reads and no more than 25% of missing data.
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Affiliation(s)
- Krystyna Nadachowska-Brzyska
- Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, SE-752 36, Uppsala, Sweden
| | - Reto Burri
- Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, SE-752 36, Uppsala, Sweden
| | - Linnéa Smeds
- Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, SE-752 36, Uppsala, Sweden
| | - Hans Ellegren
- Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, SE-752 36, Uppsala, Sweden
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Perktaş U, Gür H, Ada E. Historical demography of the Eurasian green woodpecker: integrating phylogeography and ecological niche modelling to test glacial refugia hypothesis. FOLIA ZOOLOGICA 2015. [DOI: 10.25225/fozo.v64.i3.a9.2015] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Utku Perktaş
- Department of Biology (Zoology Section), Faculty of Science, Hacettepe University, 06800 Beytepe, Ankara, Turkey
- Department of Ornithology, American Museum of Natural History, Central Park West at 79th Street, 10024 New York, NY, U.S.A
| | - Hakan Gür
- Department of Biology, Faculty of Arts and Sciences, Ahi Evran University, Bağbaşı, 40100 Kırşehir, Turkey
| | - Eren Ada
- Department of Biology (Zoology Section), Faculty of Science, Hacettepe University, 06800 Beytepe, Ankara, Turkey
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Vergara M, Basto MP, Madeira MJ, Gómez-Moliner BJ, Santos-Reis M, Fernandes C, Ruiz-González A. Inferring Population Genetic Structure in Widely and Continuously Distributed Carnivores: The Stone Marten (Martes foina) as a Case Study. PLoS One 2015; 10:e0134257. [PMID: 26222680 PMCID: PMC4519273 DOI: 10.1371/journal.pone.0134257] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2015] [Accepted: 07/07/2015] [Indexed: 11/20/2022] Open
Abstract
The stone marten is a widely distributed mustelid in the Palaearctic region that exhibits variable habitat preferences in different parts of its range. The species is a Holocene immigrant from southwest Asia which, according to fossil remains, followed the expansion of the Neolithic farming cultures into Europe and possibly colonized the Iberian Peninsula during the Early Neolithic (ca. 7,000 years BP). However, the population genetic structure and historical biogeography of this generalist carnivore remains essentially unknown. In this study we have combined mitochondrial DNA (mtDNA) sequencing (621 bp) and microsatellite genotyping (23 polymorphic markers) to infer the population genetic structure of the stone marten within the Iberian Peninsula. The mtDNA data revealed low haplotype and nucleotide diversities and a lack of phylogeographic structure, most likely due to a recent colonization of the Iberian Peninsula by a few mtDNA lineages during the Early Neolithic. The microsatellite data set was analysed with a) spatial and non-spatial Bayesian individual-based clustering (IBC) approaches (STRUCTURE, TESS, BAPS and GENELAND), and b) multivariate methods [discriminant analysis of principal components (DAPC) and spatial principal component analysis (sPCA)]. Additionally, because isolation by distance (IBD) is a common spatial genetic pattern in mobile and continuously distributed species and it may represent a challenge to the performance of the above methods, the microsatellite data set was tested for its presence. Overall, the genetic structure of the stone marten in the Iberian Peninsula was characterized by a NE-SW spatial pattern of IBD, and this may explain the observed disagreement between clustering solutions obtained by the different IBC methods. However, there was significant indication for contemporary genetic structuring, albeit weak, into at least three different subpopulations. The detected subdivision could be attributed to the influence of the rivers Ebro, Tagus and Guadiana, suggesting that main watercourses in the Iberian Peninsula may act as semi-permeable barriers to gene flow in stone martens. To our knowledge, this is the first phylogeographic and population genetic study of the species at a broad regional scale. We also wanted to make the case for the importance and benefits of using and comparing multiple different clustering and multivariate methods in spatial genetic analyses of mobile and continuously distributed species.
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Affiliation(s)
- María Vergara
- Department of Zoology and Animal Cell Biology, Zoology Laboratory, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
- Systematics, Biogeography and Population Dynamics Research Group, Lascaray Research Center, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Mafalda P. Basto
- CE3C—Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal
| | - María José Madeira
- Department of Zoology and Animal Cell Biology, Zoology Laboratory, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
- Systematics, Biogeography and Population Dynamics Research Group, Lascaray Research Center, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Benjamín J. Gómez-Moliner
- Department of Zoology and Animal Cell Biology, Zoology Laboratory, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
- Systematics, Biogeography and Population Dynamics Research Group, Lascaray Research Center, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
| | - Margarida Santos-Reis
- CE3C—Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal
| | - Carlos Fernandes
- CE3C—Centre for Ecology, Evolution and Environmental Changes, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal
| | - Aritz Ruiz-González
- Department of Zoology and Animal Cell Biology, Zoology Laboratory, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
- Systematics, Biogeography and Population Dynamics Research Group, Lascaray Research Center, University of the Basque Country (UPV/EHU), Vitoria-Gasteiz, Spain
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Lombardini M, Cinerari CE, Murru M, Vidus Rosin A, Mazzoleni L, Meriggi A. Habitat requirements of Eurasian pine marten Martes martes in a Mediterranean environment. MAMMAL RES 2015. [DOI: 10.1007/s13364-014-0211-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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19
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Frantz AC, McDevitt AD, Pope LC, Kochan J, Davison J, Clements CF, Elmeros M, Molina-Vacas G, Ruiz-Gonzalez A, Balestrieri A, Van Den Berge K, Breyne P, Do Linh San E, Ågren EO, Suchentrunk F, Schley L, Kowalczyk R, Kostka BI, Ćirović D, Šprem N, Colyn M, Ghirardi M, Racheva V, Braun C, Oliveira R, Lanszki J, Stubbe A, Stubbe M, Stier N, Burke T. Revisiting the phylogeography and demography of European badgers (Meles meles) based on broad sampling, multiple markers and simulations. Heredity (Edinb) 2014; 113:443-53. [PMID: 24781805 PMCID: PMC4220720 DOI: 10.1038/hdy.2014.45] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2013] [Revised: 02/04/2014] [Accepted: 02/14/2014] [Indexed: 11/09/2022] Open
Abstract
Although the phylogeography of European mammals has been extensively investigated since the 1990s, many studies were limited in terms of sampling distribution, the number of molecular markers used and the analytical techniques employed, frequently leading to incomplete postglacial recolonisation scenarios. The broad-scale genetic structure of the European badger (Meles meles) is of interest as it may result from historic restriction to glacial refugia and/or recent anthropogenic impact. However, previous studies were based mostly on samples from western Europe, making it difficult to draw robust conclusions about the location of refugia, patterns of postglacial expansion and recent demography. In the present study, continent-wide sampling and analyses with multiple markers provided evidence for two glacial refugia (Iberia and southeast Europe) that contributed to the genetic variation observed in badgers in Europe today. Approximate Bayesian computation provided support for a colonisation of Scandinavia from both Iberian and southeastern refugia. In the whole of Europe, we observed a decline in genetic diversity with increasing latitude, suggesting that the reduced diversity in the peripheral populations resulted from a postglacial expansion processes. Although MSVAR v.1.3 also provided evidence for recent genetic bottlenecks in some of these peripheral populations, the simulations performed to estimate the method's power to correctly infer the past demography of our empirical populations suggested that the timing and severity of bottlenecks could not be established with certainty. We urge caution against trying to relate demographic declines inferred using MSVAR with particular historic or climatological events.
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Affiliation(s)
- A C Frantz
- NERC Biomolecular Analysis Facility,
Department of Animal and Plant Sciences, University of Sheffield,
Sheffield, UK
- Musée National d'Histoire
Naturelle, Luxembourg, Luxembourg
| | - A D McDevitt
- School of Biology and Environmental
Science, University College Dublin, Dublin,
Ireland
| | - L C Pope
- School of Biological Science, University
of Queensland, St Lucia, Queensland,
Australia
| | - J Kochan
- Department of Genetics and Animal
Breeding, Wrocław University of Environmental and Life Sciences,
Wrocław, Poland
| | - J Davison
- Institute of Ecology and Earth Sciences,
University of Tartu, Tartu, Estonia
| | - C F Clements
- NERC Biomolecular Analysis Facility,
Department of Animal and Plant Sciences, University of Sheffield,
Sheffield, UK
| | - M Elmeros
- Department of Bioscience, Aarhus
University, Rønde, Denmark
| | - G Molina-Vacas
- Animal Biology Department, University of
Barcelona, Barcelona, Spain
| | - A Ruiz-Gonzalez
- Department of Zoology, Biogeography and
Population Dynamics Research Group, University of the Basque Country,
UPV/EHU, Vitoria-Gasteiz, Spain
| | - A Balestrieri
- Department of Biosciences, University
of Milan, Milan, Italy
| | - K Van Den Berge
- Research Institute for Nature and
Forest, Geraardsbergen, Belgium
| | - P Breyne
- Research Institute for Nature and
Forest, Geraardsbergen, Belgium
| | - E Do Linh San
- Department of Zoology and Entomology,
University of Fort Hare, Alice, South Africa
| | - E O Ågren
- National Veterinary Institute,
Department of Pathology and Wildlife Diseases, Uppsala,
Sweden
| | - F Suchentrunk
- Research Institute of Wildlife Ecology,
University of Veterinary Medicine Vienna, Vienna,
Austria
| | - L Schley
- Administration de la nature et des
forêts, Luxembourg, Luxembourg
| | - R Kowalczyk
- Mammal Research Institute,
Bialowieza, Poland
| | - B I Kostka
- Queen's University Belfast,
Northern Ireland, UK
| | - D Ćirović
- Faculty of Biology, University of
Belgrade, Belgrade, Serbia
| | - N Šprem
- Department of Fisheries, Beekeeping,
Game Management and Special Zoology, University of Zagreb,
Zagreb, Croatia
| | - M Colyn
- CNRS, UMR 6553, ECOBIO,
Université de Rennes 1, Rennes, France
| | - M Ghirardi
- Università degli Studi di
Torino, Torino, Italy
| | - V Racheva
- Balkani Wildlife Society,
Sofia, Bulgaria
| | - C Braun
- 9 chemin du Kilbs,
Bischoffsheim, France
| | - R Oliveira
- Departamento de Zoologia e
Antropologia, Faculdade de Ciências da Universidade do Porto,
Porto, Portugal
| | - J Lanszki
- Department of Nature Conservation,
University of Kaposvár, Kaposvár,
Hungary
| | - A Stubbe
- Domplatz 4,
Halle/Saale, Germany
| | - M Stubbe
- Domplatz 4,
Halle/Saale, Germany
| | - N Stier
- Institute of Forest Botany and Forest
Zoology, Dresden University of Technology, Tharandt,
Germany
| | - T Burke
- NERC Biomolecular Analysis Facility,
Department of Animal and Plant Sciences, University of Sheffield,
Sheffield, UK
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20
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Arntzen JW, Wielstra B, Wallis GP. The modality of nineTriturusnewt hybrid zones assessed with nuclear, mitochondrial and morphological data. Biol J Linn Soc Lond 2014. [DOI: 10.1111/bij.12358] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
- Jan W. Arntzen
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
| | - Ben Wielstra
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
- Department of Animal and Plant Sciences; University of Sheffield; S10 2TN Sheffield UK
| | - Graham P. Wallis
- Naturalis Biodiversity Center; PO Box 9517 2300 RA Leiden the Netherlands
- Department of Zoology; University of Otago; PO Box 56 Dunedin 9054 New Zealand
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21
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Herman JS, McDevitt AD, Kawałko A, Jaarola M, Wójcik JM, Searle JB. Land-bridge calibration of molecular clocks and the post-glacial Colonization of Scandinavia by the Eurasian field vole Microtus agrestis. PLoS One 2014; 9:e103949. [PMID: 25111840 PMCID: PMC4128820 DOI: 10.1371/journal.pone.0103949] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2014] [Accepted: 07/03/2014] [Indexed: 11/19/2022] Open
Abstract
Phylogeography interprets molecular genetic variation in a spatial and temporal context. Molecular clocks are frequently used to calibrate phylogeographic analyses, however there is mounting evidence that molecular rates decay over the relevant timescales. It is therefore essential that an appropriate rate is determined, consistent with the temporal scale of the specific analysis. This can be achieved by using temporally spaced data such as ancient DNA or by relating the divergence of lineages directly to contemporaneous external events of known time. Here we calibrate a Eurasian field vole (Microtus agrestis) mitochondrial genealogy from the well-established series of post-glacial geophysical changes that led to the formation of the Baltic Sea and the separation of the Scandinavian peninsula from the central European mainland. The field vole exhibits the common phylogeographic pattern of Scandinavian colonization from both the north and the south, however the southernmost of the two relevant lineages appears to have originated in situ on the Scandinavian peninsula, or possibly in the adjacent island of Zealand, around the close of the Younger Dryas. The mitochondrial substitution rate and the timescale for the genealogy are closely consistent with those obtained with a previous calibration, based on the separation of the British Isles from mainland Europe. However the result here is arguably more certain, given the level of confidence that can be placed in one of the central assumptions of the calibration, that field voles could not survive the last glaciation of the southern part of the Scandinavian peninsula. Furthermore, the similarity between the molecular clock rate estimated here and those obtained by sampling heterochronous (ancient) DNA (including that of a congeneric species) suggest that there is little disparity between the measured genetic divergence and the population divergence that is implicit in our land-bridge calibration.
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Affiliation(s)
- Jeremy S. Herman
- Department of Natural Sciences, National Museums Scotland, Edinburgh, United Kingdom
| | - Allan D. McDevitt
- Mammal Research Institute, Polish Academy of Sciences, Białowieża, Poland
| | - Agata Kawałko
- Mammal Research Institute, Polish Academy of Sciences, Białowieża, Poland
- Statistical Office, Centre for Forestry and Preservation of Nature, Białystok, Poland
| | - Maarit Jaarola
- Department of Clinical and Experimental Medicine, Linköping University, Linköping, Sweden
| | - Jan M. Wójcik
- Mammal Research Institute, Polish Academy of Sciences, Białowieża, Poland
| | - Jeremy B. Searle
- Department of Ecology and Evolution, Cornell University, Ithaca, New York, United States of America
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22
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Rueness EK, Naidenko S, Trosvik P, Stenseth NC. Large-scale genetic structuring of a widely distributed carnivore--the Eurasian lynx (Lynx lynx). PLoS One 2014; 9:e93675. [PMID: 24695745 PMCID: PMC3973550 DOI: 10.1371/journal.pone.0093675] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2013] [Accepted: 03/10/2014] [Indexed: 11/18/2022] Open
Abstract
Over the last decades the phylogeography and genetic structure of a multitude of species inhabiting Europe and North America have been described. The flora and fauna of the vast landmasses of north-eastern Eurasia are still largely unexplored in this respect. The Eurasian lynx is a large felid that is relatively abundant over much of the Russian sub-continent and the adjoining countries. Analyzing 148 museum specimens collected throughout its range over the last 150 years we have described the large-scale genetic structuring in this highly mobile species. We have investigated the spatial genetic patterns using mitochondrial DNA sequences (D-loop and cytochrome b) and 11 microsatellite loci, and describe three phylogenetic clades and a clear structuring along an east-west gradient. The most likely scenario is that the contemporary Eurasian lynx populations originated in central Asia and that parts of Europe were inhabited by lynx during the Pleistocene. After the Last Glacial Maximum (LGM) range expansions lead to colonization of north-western Siberia and Scandinavia from the Caucasus and north-eastern Siberia from a refugium further east. No evidence of a Berinigan refugium could be detected in our data. We observed restricted gene flow and suggest that future studies of the Eurasian lynx explore to what extent the contemporary population structure may be explained by ecological variables.
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Affiliation(s)
- Eli K. Rueness
- Centre for Ecological and Evolutionary Synthesis (CEES), Dept. of Biosciences, University of Oslo, Oslo, Norway
- * E-mail:
| | - Sergei Naidenko
- A. N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Leninsky pr. 33, Moscow, Russia
| | - Pål Trosvik
- Centre for Ecological and Evolutionary Synthesis (CEES), Dept. of Biosciences, University of Oslo, Oslo, Norway
| | - Nils Chr. Stenseth
- Centre for Ecological and Evolutionary Synthesis (CEES), Dept. of Biosciences, University of Oslo, Oslo, Norway
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