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Phylogenetic Analysis of the Complete Mitochondrial Genomes in the Ten Rupicapra Subspecies and Implications for the Existence of Multiple Glacial Refugia in Europe. Animals (Basel) 2022; 12:ani12111430. [PMID: 35681894 PMCID: PMC9179332 DOI: 10.3390/ani12111430] [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: 05/04/2022] [Revised: 05/23/2022] [Accepted: 05/30/2022] [Indexed: 02/01/2023] Open
Abstract
Simple Summary The successive glaciations that took place during the Pleistocene shaped de distribution of temperate species in Europe, both plants and animals. Traditionally, it has been hypothesized that during the coldest periods, species took refuge in three areas of southern Europe (Iberian, Italian and Balkan peninsulas) and then recolonized the north when temperatures rose and conditions were more favorable. In the present work, the complete mitochondrial sequences of the ten described chamois populations have been analyzed to identify which areas of the continent have served as refuges for the species during the glaciations. The results of the present work are consistent with the existence of multiple glacial refugia across Europe, revealing a much more complex picture of the effect of glaciations on the genetics of temperate species than is commonly accepted, giving us a better understanding of how past events determine the present species. Abstract The current distribution of populations in Europe is marked by the effects of glaciations that occurred during the Pleistocene. Temperate species were isolated in glacial refugia that were the sources of postglacial recolonization. The traditional glacial refuge areas were the Iberian, the Italian and the Balkan peninsulas. Here we revisit the evolutionary history of chamois (Rupicapra genus) to evaluate other sites in continental Europe and Anatolia that have been suggested as potential refuges. We have obtained the complete mitochondrial sequence of seven chamois, including the subspecies parva, carpatica, caucasica, and asiatica whose mitochondrial genome had not been yet reported. These, together with the other fourteen sequences already in the GenBank, represent the different geographical populations of the Rupicapra genus. The phylogenetic analysis showed the three old clades, dating from the early Pleistocene, already reported: mtW in the Iberian Peninsula, mtC in the Appenines and the Massif of Chartreuse, and mtE comprising all the population from the Alps to the east. The genomes within each of the clades mtW and mtE, showed divergence times larger than 300 thousand years. From here, it can be argued that the present-day lineages across Europe are very old and their split dates back to the middle Pleistocene.
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2
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Marin I, Palatov D. Cryptic refugee on the northern slope of the Greater Caucasian Ridge: Discovery of niphargus (Crustacea: Amphipoda: Niphargidae) in the North Ossetia–Alania, North Caucasus, separated from its relatives in the late Miocene. ZOOL ANZ 2021. [DOI: 10.1016/j.jcz.2021.03.002] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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3
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Zolotareva KI, Belokon MM, Belokon YS, Rutovskaya MV, Hlyap LA, Starykov VP, Politov DV, Lebedev VS, Bannikova AA. Genetic diversity and structure of the hedgehogs Erinaceus europaeus and Erinaceus roumanicus: evidence for ongoing hybridization in Eastern Europe. Biol J Linn Soc Lond 2020. [DOI: 10.1093/biolinnean/blaa135] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Abstract
Abstract
Secondary contact zones between related species are key to understanding speciation mechanisms. The Central European sympatry zone of West European (Erinaceus europaeus) and northern white-breasted (Erinaceus roumanicus) hedgehogs is well studied, whereas data on the Eastern European sympatry zone are scarce. We examined the genetic variation in Russian populations using the mitochondrial Cytb gene, TTR intron 1 and 11 microsatellites to assess genetic variability and distribution patterns. In contrast to the Central European sympatry zone, we found evidence of ongoing hybridization between the two species in the sympatry zone of European Russia, where the proportion of individuals with mixed ancestry was c. 20%. Our data indicate bi-directional mtDNA introgression, but with a higher frequency of E. europaeus haplotypes in hybrids. The proportion of pure specimens with introgressed mitotypes is higher in E. roumanicus than in E. europaeus. Nuclear data showed the prevalence of the genetic contribution from E. roumanicus in admixed individuals. Demographic analyses indicated recent population growth in E. europaeus and little change in E. roumanicus, suggesting that E. europaeus colonized East Europe later than E. roumanicus.
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Affiliation(s)
| | - Mariana M Belokon
- Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
| | - Yuri S Belokon
- Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
| | - Marina V Rutovskaya
- Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Moscow, Russia
| | - Ludmila A Hlyap
- Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences, Moscow, Russia
| | | | - Dmitry V Politov
- Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia
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4
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Rato C, Stratakis M, Sousa‐Guedes D, Sillero N, Corti C, Freitas S, Harris DJ, Carretero MA. The more you search, the more you find: Cryptic diversity and admixture within the Anatolian rock lizards (Squamata,
Darevskia
). ZOOL SCR 2020. [DOI: 10.1111/zsc.12462] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Catarina Rato
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
| | - Manos Stratakis
- Department of Biology School of Sciences and Engineering University of Crete Greece
- Natural History Museum of Crete School of Sciences and Engineering University of Crete Irakleio Greece
| | - Diana Sousa‐Guedes
- Centro de Investigação em Ciências Geo‐Espaciais (CICGE) Faculdade de Ciências da Universidade do Porto Vila Nova de Gaia Portugal
| | - Neftali Sillero
- Centro de Investigação em Ciências Geo‐Espaciais (CICGE) Faculdade de Ciências da Universidade do Porto Vila Nova de Gaia Portugal
| | - Claudia Corti
- Museo di Storia Naturale dell'Università di Firenze Firenze Italy
| | - Susana Freitas
- Department of Ecology and Evolution University of Lausanne Lausanne Switzerland
| | - D. James Harris
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
- Departamento de Biologia Faculdade de Ciências da Universidade do Porto Porto Portugal
| | - Miguel A. Carretero
- CIBIO Research Centre in Biodiversity and Genetic Resources InBIO Universidade do Porto Vila do Conde Portugal
- Departamento de Biologia Faculdade de Ciências da Universidade do Porto Porto Portugal
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5
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Mehdizadeh R, Akmali V, Sharifi M. Population genetic structure and phylogeography of the greater horseshoe bat ( Rhinolophus ferrumequinum) along Alborz and Zagros Mts. in Iran. Mitochondrial DNA A DNA Mapp Seq Anal 2020; 31:87-97. [PMID: 32202175 DOI: 10.1080/24701394.2020.1741562] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
In this paper, we investigate the genetic structure and phylogeography of Rhinolophus ferrumequinum, using the mitochondrial cytochrome b gene (1017 bp) in Iran and adjacent regions. The total haplotype and nucleotide diversity are 0.63 ± 0.055 and 0.0021 ± 0.00017, respectively which suggest that R. ferrumequinum exhibits low genetic diversity. AMOVA analysis shows that more variation of genetic differentiation is present among populations of phylogenetic groupings than within populations. Our phylogenetic results support the monophyly of R. ferrumequinum and suggest this taxon comprises three allopatric/parapatric phylogroups that are distributed in Europe-western Turkey, eastern Turkey-northern Iran, and southern Iran. The Europe-western Turkey lineage (clade 2) split from the eastern Turkey-Iran lineage (clade 1) during the middle Pleistocene (0.8534 (ca.I)-0.6454 (ca.II) Ma). The divergence time among subclades A and B occurred during the mid-Pleistocene (0.4849 (ca.I)-0.369 (ca.II) Ma). All phylogenetic analyses also indicate that the Iranian and eastern Turkey R. ferrumequinum diverged from Europe and western Turkey R. ferrumequinum, with the mean percentage sequence differences ranging from 0.92%-0.75% between them. We infer that long-term isolation of R. ferrumequinum in spatially distinct refugia in parts of southwestern and northeastern Iran has promoted distinct phylogeographic lineages during the Pleistocene.
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Affiliation(s)
- Robab Mehdizadeh
- Department of Biology, Faculty of Science, Razi University, Baghabrisham, Kermanshah, Iran
| | - Vahid Akmali
- Department of Biology, Faculty of Science, Razi University, Baghabrisham, Kermanshah, Iran
| | - Mozafar Sharifi
- Department of Biology, Faculty of Science, Razi University, Baghabrisham, Kermanshah, Iran
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6
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Mutun S, Dinç S. The Anatolian Diagonal and Paleoclimatic Changes Shaped the Phylogeography of Cynips quercus (Hymenoptera, Cynipidae). ANN ZOOL FENN 2019. [DOI: 10.5735/086.056.0107] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Affiliation(s)
- Serap Mutun
- Department of Biology, Faculty of Science and Art, Bolu Abant İzzet Baysal University, TR-14030 Bolu, Turkey
| | - Serdar Dinç
- Department of Biology, Faculty of Science and Art, Bolu Abant İzzet Baysal University, TR-14030 Bolu, Turkey
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7
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Yu Y, Zhou S, Zhu X, Xu X, Wang W, Zha L, Wang P, Wang J, Lai K, Wang S, Hao L, Zhou B. Genetic Differentiation of Eastern Honey Bee ( Apis cerana) Populations Across Qinghai-Tibet Plateau-Valley Landforms. Front Genet 2019; 10:483. [PMID: 31178896 PMCID: PMC6538771 DOI: 10.3389/fgene.2019.00483] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2018] [Accepted: 05/06/2019] [Indexed: 11/13/2022] Open
Abstract
Many species of high-altitude plateaus tend to be narrowly distributed along river valleys at lower elevations due to a limitation of suitable habitats. The eastern honeybee (Apis cerana) is such a species and this study explored the effects of long and narrow geographic distributions on honeybee populations. Genetic differentiation and diversity were assessed across populations of the southeastern Qinghai-Tibet Plateau. A total of 492 honeybee samples from eight sampling sites in four valleys were analyzed for the genetic differentiation and diversity of 31 microsatellite loci and mitochondrial tRNAleu-COII fragments. The following results were obtained: (1) Microsatellite genetic differentiation coefficients (F ST) ranged from 0.06 to 0.16, and mitochondrial F ST estimates ranged from 0.18 to 0.70 for different sampling sites in the same valley, indicating genetic differentiation. (2) Honeybees in adjacent valleys were also genetically differentiated. The F ST of microsatellites and mitochondria were 0.04-0.29 and 0.06-0.76, respectively. (3) Likely a result of small population sizes, the observed genetic diversity was low. The observed impedance of honeybee gene flow among valleys increased both genetic differentiation and population numbers in the Qinghai-Tibet Plateau. This study contributes significantly to the current understanding of the mechanism underlying population genetic differentiation and highlights the potential effects of utilizing genetic resources that are subject to the ecological conditions of the long and narrow geographic distributions of plateau-valley landforms.
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Affiliation(s)
- Yinglong Yu
- College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, China.,College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Shujing Zhou
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Xiangjie Zhu
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Xinjian Xu
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Wenfeng Wang
- Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, China
| | - Luo Zha
- Tibet Academy of Agricultural and Animal Husbandry Sciences, Lhasa, China
| | - Ping Wang
- Ganzi Tibetan Autonomous Prefecture Apiculture Management Station, Ganzi, China
| | - Jianwen Wang
- Sichuan Province Apiculture Management Station, Chengdu, China
| | - Kang Lai
- Sichuan Province Apiculture Management Station, Chengdu, China
| | - Shunhai Wang
- Sichuan Province Apiculture Management Station, Chengdu, China
| | - Lunan Hao
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
| | - Bingfeng Zhou
- College of Bee Science, Fujian Agriculture and Forestry University, Fuzhou, China
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8
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Aghbolaghi MA, Ahmadzadeh F, Kiabi B, Keyghobadi N. The permanent inhabitant of the oak trees: phylogeography and genetic structure of the Persian squirrel (Sciurus anomalus). Biol J Linn Soc Lond 2019. [DOI: 10.1093/biolinnean/blz032] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Marzieh Asadi Aghbolaghi
- Department of Biodiversity and Ecosystem Management, Environmental Sciences Research Institute, Shahid Beheshti University, Tehran, Iran
| | - Faraham Ahmadzadeh
- Department of Biodiversity and Ecosystem Management, Environmental Sciences Research Institute, Shahid Beheshti University, Tehran, Iran
| | - Bahram Kiabi
- Department of Aquatic Biotechnology, Faculty of Life Sciences and Biotechnology, Shahid Beheshti University, Tehran, Iran
| | - Nusha Keyghobadi
- Department of Biology, the University of Western Ontario, London, ON, Canada
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9
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Zagrobelny M, Dalsten L, Hille A. Colonization of Northern Europe by Zygaena filipendulae (Lepidoptera). Ecol Evol 2019; 9:4796-4804. [PMID: 31031945 PMCID: PMC6476778 DOI: 10.1002/ece3.5082] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Revised: 12/22/2018] [Accepted: 02/27/2019] [Indexed: 11/23/2022] Open
Abstract
Northern and mountainous ice sheets have expanded and contracted many times due to ice ages. Consequently, temperate species have been confined to refugia during the glacial periods wherefrom they have recolonized warming northern habitats between ice ages. In this study, we compare the gene CYP405A2 between different populations of the common burnet moth Zygaena filipendulae from across the Western Palearctic region to illuminate the colonization history of this species. These data show two major clusters of Z. filipendulae populations possibly reflecting two different refugial populations during the last ice age. The two types of Z. filipendulae only co-occur in Denmark, Sweden, and Scotland indicating that Northern Europe comprise the hybridization zone where individuals from two different refugia met after the last ice age. Bayesian phylogeographic and ecological clustering analyses show that one cluster probably derives from an Alpe Maritime refugium in Southern France with ancestral expansive tendencies to the British Isles in the west, touching Northern Europe up to Denmark and Sweden, and extending throughout Central Europe into the Balkans, the Peleponnes, and South East Europe. The second cluster encompasses East Anatolia as the source area, from where multiple independent dispersal events to Armenia, to the Alborz mountains in north-western Iran, and to the Zagros mountains in western Iran are suggested. Consequently, the classical theory of refugia for European temperate species in the Iberian, Italian, and Balkan peninsulas does not fit with the data from Z. filipendulae populations, which instead support more Northerly, mountainous refugia.
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Affiliation(s)
- Mika Zagrobelny
- Department of Plant and Environmental Sciences and Copenhagen Plant Science CentreUniversity of CopenhagenFrederiksberg CDenmark
| | - Lene Dalsten
- Department of Plant and Environmental Sciences and Copenhagen Plant Science CentreUniversity of CopenhagenFrederiksberg CDenmark
| | - Axel Hille
- Institute of Applied Statistics Dr Jörg SchnitkerGermany
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10
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Liu J, Guo X, Chen D, Li J, Yue B, Zeng X. Diversification and historical demography of the rapid racerunner (Eremias velox) in relation to geological history and Pleistocene climatic oscillations in arid Central Asia. Mol Phylogenet Evol 2019; 130:244-258. [DOI: 10.1016/j.ympev.2018.10.029] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2018] [Revised: 10/21/2018] [Accepted: 10/22/2018] [Indexed: 10/28/2022]
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11
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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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12
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Balasanyan V, Yavruyan E, Somerová B, Abramjan A, Landová E, Munclinger P, Frynta D. High Diversity of mtDNA Haplotypes Confirms Syntopic Occurrence of Two Field Mouse Species Apodemus uralensis and A. witherbyi (Muridae: Apodemus) in Armenia. RUSS J GENET+ 2018. [DOI: 10.1134/s1022795418060030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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13
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Potential distribution under different climatic scenarios of climate change of the vulnerable Caucasian salamander (Mertensiella caucasica): A case study of the Caucasus Hotspot. Biologia (Bratisl) 2018. [DOI: 10.2478/s11756-018-0020-y] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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14
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van Riemsdijk I, Arntzen JW, Bogaerts S, Franzen M, Litvinchuk SN, Olgun K, Wielstra B. The Near East as a cradle of biodiversity: A phylogeography of banded newts (genus Ommatotriton) reveals extensive inter- and intraspecific genetic differentiation. Mol Phylogenet Evol 2017; 114:73-81. [DOI: 10.1016/j.ympev.2017.05.028] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2016] [Revised: 04/04/2017] [Accepted: 05/31/2017] [Indexed: 01/04/2023]
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15
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Hung C, Drovetski SV, Zink RM. The roles of ecology, behaviour and effective population size in the evolution of a community. Mol Ecol 2017; 26:3775-3784. [DOI: 10.1111/mec.14152] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2016] [Revised: 04/14/2017] [Accepted: 04/17/2017] [Indexed: 01/06/2023]
Affiliation(s)
- Chih‐Ming Hung
- Biodiversity Research Center Academia Sinica Taipei Taiwan
| | - Sergei V. Drovetski
- Division of Birds National Museum of Natural History Smithsonian Institution Washington DC USA
| | - Robert M. Zink
- School of Natural Resources Nebraska State Museum, and School of Biological Sciences University of Nebraska Lincoln NE USA
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16
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Černa Bolfíková B, Eliášová K, Loudová M, Kryštufek B, Lymberakis P, Sándor AD, Hulva P. Glacial allopatry vs. postglacial parapatry and peripatry: the case of hedgehogs. PeerJ 2017; 5:e3163. [PMID: 28462018 PMCID: PMC5407276 DOI: 10.7717/peerj.3163] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2016] [Accepted: 03/08/2017] [Indexed: 11/20/2022] Open
Abstract
Although hedgehogs are well-known examples of postglacial recolonisation, the specific processes that shape their population structures have not been examined by detailed sampling and fast-evolving genetic markers in combination with model based clustering methods. This study aims to analyse the impacts of isolation within glacial refugia and of postglacial expansion on the population structure of the Northern White-breasted hedgehog (Erinaceus roumanicus). It also discusses the role of the processes at edges of species distribution in its evolutionary history. The maternally inherited mitochondrial control region and the bi-parentally inherited nuclear microsatellites were used to examine samples within the Central Europe, Balkan Peninsula and adjacent islands. Bayesian coalescent inference and neutrality tests proposed a recent increase in the population size. The most pronounced pattern of population structure involved differentiation of the insular populations in the Mediterranean Sea and the population within the contact zone with E. europaeus in Central Europe. An interspecies hybrid was detected for the first time in Central Europe. A low genetic diversity was observed in Crete, while the highest genetic distances among individuals were found in Romania. The recent population in the post-refugial area related to the Balkan Peninsula shows a complex pattern with pronounced subpopulations located mainly in the Pannonian Basin and at the Adriatic and Pontic coasts. Detailed analyses indicate that parapatry and peripatry may not be the only factors that limit range expansion, but also strong microevolutionary forces that may change the genetic structure of the species. Here we present evidence showing that population differentiation may occur not only during the glacial restriction of the range into the refugia, but also during the interglacial range expansion. Population differentiation at the Balkan Peninsula and adjacent regions could be ascribed to diversification in steppe/forest biomes and complicated geomorphology, including pronounced geographic barriers as Carpathians.
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Affiliation(s)
- Barbora Černa Bolfíková
- Faculty of Tropical AgriSciences, Czech University of Life Sciences Prague, Prague, Czech Republic
| | - Kristýna Eliášová
- Faculty of Science, Charles University in Prague, Prague, Czech Republic.,Department of Zoology, National Museum, Prague, Czech Republic
| | - Miroslava Loudová
- Faculty of Science, Charles University in Prague, Prague, Czech Republic
| | | | - Petros Lymberakis
- Natural History Museum of Crete, University of Crete, Heraklion, Greece
| | - Attila D Sándor
- Faculty of Veterinary Medicine, University of Agricultural Sciences and Veterinary Medicine Cluj-Napoca, Cluj-Napoca, Romania
| | - Pavel Hulva
- Faculty of Science, Charles University in Prague, Prague, Czech Republic.,Faculty of Science, University of Ostrava, Ostrava, Czech Republic
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17
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Kinoshita E, Kosintsev PA, Raichev EG, Haukisalmi VK, Kryukov AP, Wiig Ø, Abramov AV, Kaneko Y, Masuda R. Molecular phylogeny of Eurasian badgers ( Meles ) around the distribution boundaries, revealed by analyses of mitochondrial DNA and Y-chromosomal genes. BIOCHEM SYST ECOL 2017. [DOI: 10.1016/j.bse.2017.01.011] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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18
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Parthenogenesis through the ice ages: A biogeographic analysis of Caucasian rock lizards (genus Darevskia). Mol Phylogenet Evol 2016; 102:117-27. [DOI: 10.1016/j.ympev.2016.05.035] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Revised: 05/23/2016] [Accepted: 05/26/2016] [Indexed: 11/22/2022]
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19
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Vitali F, Schmitt T. Ecological patterns strongly impact the biogeography of western Palaearctic longhorn beetles (Coleoptera: Cerambycoidea). ORG DIVERS EVOL 2016. [DOI: 10.1007/s13127-016-0290-6] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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20
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Kaya S, Çiplak B. Budding speciation via peripheral isolation: thePsorodonotus venosus(Orthoptera, Tettigoniidae) species group example. ZOOL SCR 2016. [DOI: 10.1111/zsc.12174] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
Affiliation(s)
- Sarp Kaya
- Department of Biology; Faculty of Science; Akdeniz University Antalya; Antalya Turkey
| | - Battal Çiplak
- Department of Biology; Faculty of Science; Akdeniz University Antalya; Antalya Turkey
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21
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Neiber MT, Hausdorf B. Phylogeography of the land snail genus Circassina (Gastropoda: Hygromiidae) implies multiple Pleistocene refugia in the western Caucasus region. Mol Phylogenet Evol 2015. [DOI: 10.1016/j.ympev.2015.07.012] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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22
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Wennerström L, Ryman N, Tison JL, Hasslow A, Dalén L, Laikre L. Genetic landscape with sharp discontinuities shaped by complex demographic history in moose (
Alces alces
). J Mammal 2015. [DOI: 10.1093/jmammal/gyv146] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Abstract
The moose ( Alces alces ) is the most intensely managed game species in Fennoscandia; approximately one-third of the population, ca. 160,000 animals, is harvested annually. Despite the species’ biological and socioeconomic importance, there are knowledge gaps with respect to its intraspecific diversity and genetic structure. Recent studies of moose in neighboring countries report 2 genetic groups in Finland, 3 in Norway with one of them suggested to be of ancient origin, and no indications of bottlenecks. To delineate the spatial genetic landscape of the Swedish moose, we used allozyme variability from over 20,000 georeferenced moose collected all over Sweden in combination with 12 microsatellites ( n > 1,200) and mitochondrial DNA (mtDNA) sequences ( n = 44). We combined individual-based and traditional statistical approaches with coalescence-based simulations. The results indicate a complex history with bottlenecks and recent expansions that is consistent with historical records. Swedish moose are separated into 2 major genetic groups, a northern and a southern one, where the southern group is further divided into 3 subgroups. The 2 main subpopulations are moderately differentiated ( FST = 0.1; RST = 0.07) and separated by sharp genetic discontinuities occurring over a relatively narrow transition zone in central Sweden that coincides with a similar, previously reported transition zone in Norway. This differentiation is not reflected in mtDNA variation, where no significant divergence was observed. Together with the FST and RST similarities, this suggests that the 2 major subpopulations in Sweden reflect divergence shaped after the postglacial recolonization of Scandinavia. Neighborhood size assessments indicate that gene flow is relatively restricted with an estimated average dispersal distance of 3.5–11.1 km, and spatial autocorrelograms suggest that genetic similarity decreases almost linearly over space resulting in continuous genetic clines within major subgroups. Management areas largely coincide with genetic clusters, simplifying the integration of genetic information into management.
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Pfäffle M, Černá Bolfíková B, Hulva P, Petney T. Different parasite faunas in sympatric populations of sister hedgehog species in a secondary contact zone. PLoS One 2014; 9:e114030. [PMID: 25469872 PMCID: PMC4254975 DOI: 10.1371/journal.pone.0114030] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2014] [Accepted: 11/03/2014] [Indexed: 11/18/2022] Open
Abstract
Providing descriptive data on parasite diversity and load in sister species is a first step in addressing the role of host-parasite coevolution in the speciation process. In this study we compare the parasite faunas of the closely related hedgehog species Erinaceus europaeus and E. roumanicus from the Czech Republic where both occur in limited sympatry. We examined 109 hedgehogs from 21 localities within this secondary contact zone. Three species of ectoparasites and nine species of endoparasites were recorded. Significantly higher abundances and prevalences were found for Capillaria spp. and Brachylaemus erinacei in E. europaeus compared to E. roumanicus and higher mean infection rates and prevalences for Hymenolepis erinacei, Physaloptera clausa and Nephridiorhynchus major in E. roumanicus compared to E. europaeus. Divergence in the composition of the parasite fauna, except for Capillaria spp., which seem to be very unspecific, may be related to the complicated demography of their hosts connected with Pleistocene climate oscillations and consequent range dynamics. The fact that all parasite species with different abundances in E. europaeus and E. roumanicus belong to intestinal forms indicates a possible diversification of trophic niches between both sister hedgehog species.
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Affiliation(s)
- Miriam Pfäffle
- Department of Ecology and Parasitology, Zoological Institute, Karlsruhe Institute of Technology, Karlsruhe, Germany
- * E-mail:
| | - Barbora Černá Bolfíková
- Faculty of Tropical AgriSciences, Czech University of Life Sciences Prague, Prague, Czech Republic
| | - Pavel Hulva
- Department of Zoology, Faculty of Science, Charles University Prague, Prague, Czech Republic
- Department of Biology and Ecology, Life Science Research Centre, University of Ostrava, Ostrava, Czech Republic
| | - Trevor Petney
- Department of Ecology and Parasitology, Zoological Institute, Karlsruhe Institute of Technology, Karlsruhe, Germany
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Sağlam İK, Küçükyıldırım S, Çağlar SS. Diversification of montane species via elevation shifts: the case of the Kaçkar cricket Phonochorion
(Orthoptera). J ZOOL SYST EVOL RES 2013. [DOI: 10.1111/jzs.12051] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- İsmail K. Sağlam
- Department of Biology; Faculty of Science; Hacettepe University; Beytepe, Ankara Turkey
| | - Sibel Küçükyıldırım
- Department of Biology; Faculty of Science; Hacettepe University; Beytepe, Ankara Turkey
| | - Selim S. Çağlar
- Department of Biology; Faculty of Science; Hacettepe University; Beytepe, Ankara Turkey
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25
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Ahmadzadeh F, Flecks M, Rödder D, Böhme W, Ilgaz Ç, Harris DJ, Engler JO, Üzüm N, Carretero MA. Multiple dispersal out of Anatolia: biogeography and evolution of oriental green lizards. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12129] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
| | - Morris Flecks
- Zoologisches Forschungsmuseum Alexander Koenig; Adenauerallee 160; 53113; Bonn; Germany
| | - Dennis Rödder
- Zoologisches Forschungsmuseum Alexander Koenig; Adenauerallee 160; 53113; Bonn; Germany
| | - Wolfgang Böhme
- Zoologisches Forschungsmuseum Alexander Koenig; Adenauerallee 160; 53113; Bonn; Germany
| | - Çetin Ilgaz
- Dokuz Eylül University; Faculty of Science; Department of Biology; 35150; Buca; İzmir; Turkey
| | - D. James Harris
- CIBIO; Centro de Investigação em Biodiversidade e Recursos Genéticos; Universidade do Porto; Campus Agrário de Vairão; 4485-661; Vairão; Portugal
| | | | - Nazan Üzüm
- Faculty of Science and Arts; Department of Biology; Adnan Menderes University; 09010; Aydın; Turkey
| | - Miguel A. Carretero
- CIBIO; Centro de Investigação em Biodiversidade e Recursos Genéticos; Universidade do Porto; Campus Agrário de Vairão; 4485-661; Vairão; Portugal
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Ahmadzadeh F, Carretero MA, Rödder D, Harris DJ, Freitas SN, Perera A, Böhme W. Inferring the effects of past climate fluctuations on the distribution pattern of Iranolacerta (Reptilia, Lacertidae): Evidence from mitochondrial DNA and species distribution models. ZOOL ANZ 2013. [DOI: 10.1016/j.jcz.2012.05.002] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Rajaei Sh H, Rödder D, Weigand AM, Dambach J, Raupach MJ, Wägele JW. Quaternary refugia in southwestern Iran: insights from two sympatric moth species (Insecta, Lepidoptera). ORG DIVERS EVOL 2013. [DOI: 10.1007/s13127-013-0126-6] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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Antoniou A, Magoulas A, Platis P, Kotoulas G. Assessing the genetic landscape of a contact zone: the case of European hare in northeastern Greece. Genetica 2013; 141:23-40. [PMID: 23381134 DOI: 10.1007/s10709-013-9703-z] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2012] [Accepted: 01/30/2013] [Indexed: 12/28/2022]
Abstract
The European hare populations of the Balkan Peninsula comprise two divergent phylogenetic lineages with discrete geographical distribution slightly overlapping in the area of northeastern Greece and Bulgaria. Here we elucidate their contact zone, by defining the spatial distributional pattern of the two highly divergent groups, detecting individuals of hybrid origin, and identifying genetic barriers present in the area of their co-existence. Specimens from northeastern Greece were assayed for lineage assignment and population genetic inference based on a 511 bp fragment of mitochondrial DNA control region and allelic data from 10 microsatellite loci. Bayesian analyses on original and simulated genotypes were performed allowing for the contact zone delineation. Our results indicate high genetic diversity in both nuclear and mitochondrial DNA, strong population structure and non random spatial distribution of the differentiated gene pools. The information provided by the two types of molecular markers yielded consistent results. This study comprises a fine scale analysis of the contact zone between the two evolutionary lineages of European brown hares in northeastern Greece. Specific questions on the spatial patterns where addressed for the first time. Furthermore, hypotheses regarding the presence of hybrids were also tested. As a result, interpretive power to the diversity patterns observed today in the Balkans was added and previously overlooked aspects of the species biology were highlighted.
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Affiliation(s)
- Aglaia Antoniou
- Department of Biology, University of Crete, Herakleio, Crete, Greece.
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Waters JM, Fraser CI, Hewitt GM. Founder takes all: density-dependent processes structure biodiversity. Trends Ecol Evol 2013; 28:78-85. [PMID: 23000431 DOI: 10.1016/j.tree.2012.08.024] [Citation(s) in RCA: 225] [Impact Index Per Article: 20.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2012] [Revised: 08/23/2012] [Accepted: 08/24/2012] [Indexed: 01/01/2023]
Abstract
Density-dependent processes play a key role in the spatial structuring of biodiversity. Specifically, interrelated demographic processes, such as gene surfing, high-density blocking, and competitive exclusion, can generate striking geographic contrasts in the distributions of genes and species. Here, we propose that well-studied evolutionary and ecological biogeographic patterns of postglacial recolonization, progressive island colonization, microbial sectoring, and even the 'Out of Africa' pattern of human expansion, are fundamentally similar, underpinned by a 'founder takes all' density-dependent principle. Additionally, we hypothesize that older historic constraints of density-dependent processes are seen today in the dramatic biogeographic shifts that occur in response to human-mediated extinction events, whereby surviving lineages rapidly expand their ranges to replace extinct sister taxa.
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Affiliation(s)
- Jonathan M Waters
- Allan Wilson Centre for Molecular Ecology and Evolution, Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand.
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30
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Pinhasi R, Nioradze M, Tushabramishvili N, Lordkipanidze D, Pleurdeau D, Moncel MH, Adler D, Stringer C, Higham T. New chronology for the Middle Palaeolithic of the southern Caucasus suggests early demise of Neanderthals in this region. J Hum Evol 2012; 63:770-80. [DOI: 10.1016/j.jhevol.2012.08.004] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2012] [Revised: 08/16/2012] [Accepted: 08/17/2012] [Indexed: 11/29/2022]
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31
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Helvaci Z, Renaud S, Ledevin R, Adriaens D, Michaux J, Çolak R, Kankiliç T, Kandemir İ, Yiğit N, Çolak E. Morphometric and genetic structure of the edible dormouse (Glis glis): a consequence of forest fragmentation in Turkey. Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01952.x] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Zeycan Helvaci
- Department of Biology; Faculty of Science and Letter; Aksaray University; Campus 68100 Aksaray Turkey
- Department of Biology; Faculty of Science; Ankara University; Tandoğan Campus 06100 Ankara Turkey
| | - Sabrina Renaud
- Laboratoire de Biométrie et Biologie Evolutive; UMR 5558; CNRS; University Lyon 1; Campus de la Doua 69622 Villeurbanne France
| | - Ronan Ledevin
- Anthropologisches Institut & Museum; Universität Zürich-Irchel; Winterthurerstrasse 190 8057 Zürich Switzerland
| | - Dominique Adriaens
- Evolutionary Morphology of Vertebrates; Ghent University; K.L. Ledeganckstraat 35 B-9000 Ghent Belgium
| | - Johan Michaux
- Laboratoire de Génétique des micro-organismes; Université de Liège; Institut de Botanique (Bat. 22) 4000 Liège Belgium
- INRA; UMR CBGP 1062; Campus international de Baillarguet; CS 30016 F-34988 Montferrier-sur-Lez Cedex France
| | - Reyhan Çolak
- Department of Biology; Faculty of Science; Ankara University; Tandoğan Campus 06100 Ankara Turkey
| | - Teoman Kankiliç
- Department of Biology; Faculty of Arts and Science; Niğde University; Campus 51240 Niğde Turkey
| | - İrfan Kandemir
- Department of Biology; Faculty of Science; Ankara University; Tandoğan Campus 06100 Ankara Turkey
| | - Nuri Yiğit
- Department of Biology; Faculty of Science; Ankara University; Tandoğan Campus 06100 Ankara Turkey
| | - Ercüment Çolak
- Department of Biology; Faculty of Science; Ankara University; Tandoğan Campus 06100 Ankara Turkey
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MOUTON ALICE, GRILL ANDREA, SARA MAURIZIO, KRYŠTUFEK BORIS, RANDI ETTORE, AMORI GIOVANNI, JUŠKAITIS RIMVYDAS, ALOISE GAETANO, MORTELLITI ALESSIO, PANCHETTI FABIANA, MICHAUX JOHAN. Evidence of a complex phylogeographic structure in the common dormouse, Muscardinus avellanarius (Rodentia: Gliridae). Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2011.01807.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Microevolution of sympatry: landscape genetics of hedgehogs Erinaceus europaeus and E. roumanicus in Central Europe. Heredity (Edinb) 2011; 108:248-55. [PMID: 21863052 DOI: 10.1038/hdy.2011.67] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022] Open
Abstract
We used the mitochondrial control region and nuclear microsatellites to assess the distribution patterns, population structure, demography and landscape genetics for the hedgehogs Erinaceus europaeus and Erinaceus roumanicus in a transect of the mid-European zone of sympatry. E. roumanicus was less frequent and restricted to regions with lower altitudes. Demographic analyses suggested recent population growth in this species. A comparison of patterns in the spatial variability of mitochondrial and nuclear DNA indicated less sex-biased dispersal and higher levels of gene flow in E. roumanicus. No evidence of recent hybridisation or introgression was detected. We interpreted these results by comparing with phylogeographic and palaeontological studies as well as with the occurrence of hybridisation in the Russian contact zone. We propose that Central Europe was colonised by E. roumanicus by the beginning of the Neolithic period and that there was a subsequent reinforcement stage as well as the formation of a zone of sympatry after the complete reproductive isolation of both species.
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Habel JC, Lens L, Rödder D, Schmitt T. From Africa to Europe and back: refugia and range shifts cause high genetic differentiation in the Marbled White butterfly Melanargia galathea. BMC Evol Biol 2011; 11:215. [PMID: 21777453 PMCID: PMC3155922 DOI: 10.1186/1471-2148-11-215] [Citation(s) in RCA: 41] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2011] [Accepted: 07/21/2011] [Indexed: 12/03/2022] Open
Abstract
Background The glacial-interglacial oscillations caused severe range modifications of biota. Thermophilic species became extinct in the North and survived in southern retreats, e.g. the Mediterranean Basin. These repeated extinction and (re)colonisation events led to long-term isolation and intermixing of populations and thus resulted in strong genetic imprints in many European species therefore being composed of several genetic lineages. To better understand these cycles of repeated expansion and retraction, we selected the Marbled White butterfly Melanargia galathea. Fourty-one populations scattered over Europe and the Maghreb and one population of the sibling taxon M. lachesis were analysed using allozyme electrophoresis. Results We obtained seven distinct lineages applying neighbour joining and STRUCTURE analyses: (i) Morocco, (ii) Tunisia, (iii) Sicily, (iv) Italy and southern France, (v) eastern Balkans extending to Central Europe, (vi) western Balkans with western Carpathian Basin as well as (vii) south-western Alps. The hierarchy of these splits is well matching the chronology of glacial and interglacial cycles since the Günz ice age starting with an initial split between the galathea group in North Africa and the lachesis group in Iberia. These genetic structures were compared with past distribution patterns during the last glacial stage calculated with distribution models. Conclusions Both methods suggest climatically suitable areas in the Maghreb and the southern European peninsulas with distinct refugia during the last glacial period and underpin strong range expansions to the North during the Postglacial. However, the allozyme patterns reveal biogeographical structures not detected by distribution modelling as two distinct refugia in the Maghreb, two or more distinct refugia at the Balkans and a close link between the eastern Maghreb and Sicily. Furthermore, the genetically highly diverse western Maghreb might have acted as source or speciation centre of this taxon, while the eastern, genetically impoverished Maghreb population might result from a relatively recent recolonisation from Europe via Sicily.
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Affiliation(s)
- Jan C Habel
- Musée national d'histoire naturelle Luxembourg.
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35
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Bilgin R. Back to the suture: the distribution of intraspecific genetic diversity in and around anatolia. Int J Mol Sci 2011; 12:4080-103. [PMID: 21747726 PMCID: PMC3131610 DOI: 10.3390/ijms12064080] [Citation(s) in RCA: 86] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2011] [Accepted: 06/10/2011] [Indexed: 11/16/2022] Open
Abstract
The effect of ice ages in speciation and diversification is well established in the literature. In Europe, the Iberian, the Italian and the Balkan peninsulas comprise the main glacial refugia, where the subsequent re-population of Europe started. Though not studied as extensively, Anatolia has also been hinted to be a potential glacial refugium for Europe, and with its proximity to the Caucasus and the Middle East at the same time, has potential to exhibit high levels of intraspecific diversity. The more ubiquitous use and cheaper availability of molecular methods globally now makes it possible to better understand molecular ecology and evolution of the fauna and flora in the genetically understudied regions of the world, such as Anatolia. In this review, the molecular genetic studies undertaken in Anatolia in the last decade, for 29 species of plants and animals, are examined to determine general phylogeographic patterns. In this regard, two major patterns are observed and defined, showing genetic breaks within Anatolia and between Anatolia and the Balkans. A third pattern is also outlined, which suggests Anatolia may be a center of diversity for the surrounding regions. The patterns observed are discussed in terms of their relevance to the location of suture zones, postglacial expansion scenarios, the effect of geographic barriers to gene flow and divergence time estimates, in order to better understand the effect of the geological history of Anatolia on the evolutionary history of the inhabitant species. In view of the current state of knowledge delineated in the review, future research directions are suggested.
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Affiliation(s)
- Rasit Bilgin
- Institute of Environmental Sciences, Boğaziçi University, Bebek 34342, Istanbul, Turkey; E-Mail: ; Tel.: +90-537-988-4734
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36
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Tashima S, Kaneko Y, Anezaki T, Baba M, Yachimori S, Abramov AV, Saveljev AP, Masuda R. Phylogeographic Sympatry and Isolation of the Eurasian Badgers (Meles, Mustelidae, Carnivora): Implications for an Alternative Analysis using Maternally as Well as Paternally Inherited Genes. Zoolog Sci 2011; 28:293-303. [PMID: 21466348 DOI: 10.2108/zsj.28.293] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- Sara Tashima
- Department of Natural History Sciences, Graduate School of Science, Hokkaido University, Sapporo 060-0810, Japan
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Hewitt GM. Quaternary phylogeography: the roots of hybrid zones. Genetica 2011; 139:617-38. [DOI: 10.1007/s10709-011-9547-3] [Citation(s) in RCA: 244] [Impact Index Per Article: 18.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2010] [Accepted: 01/03/2011] [Indexed: 10/18/2022]
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Bogdanowicz W, Van Den Bussche RA, Gajewska M, Postawa T, Harutyunyan M. Ancient and Contemporary DNA Sheds Light on the History of Mouse-Eared Bats in Europe and the Caucasus. ACTA CHIROPTEROLOGICA 2009. [DOI: 10.3161/150811009x485530] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Furman A, Çoraman E, Bilgin R, Karataş A. Molecular ecology and phylogeography of the bent-wing bat complex (Miniopterus schreibersii) (Chiroptera: Vespertilionidae) in Asia Minor and adjacent regions. ZOOL SCR 2009. [DOI: 10.1111/j.1463-6409.2008.00365.x] [Citation(s) in RCA: 18] [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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DUBEY SYLVAIN, DIKER EBRU, KURTONUR CENGIZ, VOGEL PETER. Secondary contact zones and hybridizations: the case of the lesser white-toothed shrew (Crocidura suaveolens group, Soricidae). Biol J Linn Soc Lond 2008. [DOI: 10.1111/j.1095-8312.2008.01070.x] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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41
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Knapp M, Rohland N, Weinstock J, Baryshnikov G, Sher A, Nagel D, Rabeder G, Pinhasi R, Schmidt HA, Hofreiter M. First DNA sequences from Asian cave bear fossils reveal deep divergences and complex phylogeographic patterns. Mol Ecol 2008; 18:1225-38. [PMID: 19226321 DOI: 10.1111/j.1365-294x.2009.04088.x] [Citation(s) in RCA: 72] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Until recently, cave bears were believed to have only inhabited Europe. However, recent morphological evidence suggests that cave bears' geographic range extended as far east as Transbaikalia, Eastern Siberia. These Asian cave bears were morphologically distinct from European cave bears. However, how they related to European lineages remains unclear, stressing the need to assess the phylogenetic and phylogeographic relationship between Asian cave bears and their European relatives. In this work, we address this issue using a 227 base-pair fragment of the mitochondrial control region obtained from nine fossil bone samples from eight sites from the Urals, Caucasus, Altai Mountains, Ukraine and Yana River region in Eastern Siberia. Results of the phylogenetic analyses indicate that (i) the cave bear from the Yana River is most closely related to cave bears from the Caucasus region; (ii) the Caucasus/Yana group of bears is genetically very distinct from both European cave bears and brown bears, suggesting that these bears could represent an independent species; and (iii) the Western European cave bear lineage reached at least temporarily to the Altai Mountains, 7000 km east of their known centre of distribution. These results suggest that the diversity of cave bears was greater than previously believed, and that they could survive in a much wider range of ecological conditions than previously assumed. They also agree with recent studies on other extinct and extant species, such as wolves, hyenas and steppe bison, which have also revealed higher genetic and ecological diversity in Pleistocene populations than previously known.
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Affiliation(s)
- Michael Knapp
- Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
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42
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Joger U, Fritz U, Guicking D, Kalyabina-Hauf S, Nagy ZT, Wink M. Phylogeography of western Palaearctic reptiles – Spatial and temporal speciation patterns. ZOOL ANZ 2007. [DOI: 10.1016/j.jcz.2007.09.002] [Citation(s) in RCA: 86] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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ROSSITER STEPHENJ, BENDA PETR, DIETZ CHRISTIAN, ZHANG SHUYI, JONES GARETH. Rangewide phylogeography in the greater horseshoe bat inferred from microsatellites: implications for population history, taxonomy and conservation. Mol Ecol 2007; 16:4699-714. [DOI: 10.1111/j.1365-294x.2007.03546.x] [Citation(s) in RCA: 70] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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44
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Dubey S, Cosson JF, Magnanou E, Vohralík V, Benda P, Frynta D, Hutterer R, Vogel V, Vogel P. Mediterranean populations of the lesser white-toothed shrew (Crocidura suaveolens group): an unexpected puzzle of Pleistocene survivors and prehistoric introductions. Mol Ecol 2007; 16:3438-52. [PMID: 17688544 DOI: 10.1111/j.1365-294x.2007.03396.x] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
An earlier study revealed the strong phylogeographical structure of the lesser white-toothed shrew (Crocidura suaveolens group) within the northern Palaearctic. Here, we aim to reconstruct the colonization history of Mediterranean islands and to clarify the biogeography and phylogeographical relationships of the poorly documented Middle East region with the northern Palaearctic. We performed analyses on 998-bp-long haplotypes of the mitochondrial cytochrome b gene of 143 samples collected around the Mediterranean basin, including islands and the Middle East. The analyses suggest that the Cypriot shrew belongs to the rare group of relict insular Pleistocene mammal taxa that have survived to the present day. In contrast, the Cretan, Corsican and Menorcan populations were independently introduced from the Middle East during the Holocene. The phylogeographical structure of this temperate Palaearctic species within the Middle East appears to be complex and rich in diversity, probably reflecting fragmentation of the area by numerous mountain chains. Four deeply divergent clades of the C. suaveolens group occur in the area, meaning that a hypothetical contact zone remains to be located in central western Iran.
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Affiliation(s)
- S Dubey
- Department of Ecology and Evolution, University of Lausanne, 1015 Lausanne, Switzerland.
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Sommer RS. When east met west: the sub-fossil footprints of the west European hedgehog and the northern white-breasted hedgehog during the Late Quaternary in Europe. J Zool (1987) 2007. [DOI: 10.1111/j.1469-7998.2007.00302.x] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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Dubey S, Cosson JF, Vohralík V, Krystufek B, Diker E, Vogel P. Molecular evidence of Pleistocene bidirectional faunal exchange between Europe and the Near East: the case of the bicoloured shrew (Crocidura leucodon, Soricidae). J Evol Biol 2007; 20:1799-808. [PMID: 17714297 DOI: 10.1111/j.1420-9101.2007.01382.x] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We sequenced 1077 bp of the mitochondrial cytochrome b gene and 511 bp of the nuclear Apolipoprotein B gene in bicoloured shrew (Crocidura leucodon, Soricidae) populations ranging from France to Georgia. The aims of the study were to identify the main genetic clades within this species and the influence of Pleistocene climatic variations on the respective clades. The mitochondrial analyses revealed a European clade distributed from France eastwards to north-western Turkey and a Near East clade distributed from Georgia to Romania; the two clades separated during the Middle Pleistocene. We clearly identified a population expansion after a bottleneck for the European clade based on mitochondrial and nuclear sequencing data; this expansion was not observed for the eastern clade. We hypothesize that the western population was confined to a small Italo-Balkanic refugium, whereas the eastern population subsisted in several refugia along the southern coast of the Black Sea.
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Affiliation(s)
- S Dubey
- Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland.
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Gündüz I, Jaarola M, Tez C, Yeniyurt C, Polly PD, Searle JB. Multigenic and morphometric differentiation of ground squirrels (Spermophilus, Scuiridae, Rodentia) in Turkey, with a description of a new species. Mol Phylogenet Evol 2007; 43:916-35. [PMID: 17500011 DOI: 10.1016/j.ympev.2007.02.021] [Citation(s) in RCA: 68] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/24/2006] [Revised: 01/09/2007] [Accepted: 02/01/2007] [Indexed: 10/23/2022]
Abstract
This study reports on the molecular phylogenetics of ground squirrels, genus Spermophilus, in Turkey using cytochrome b (1140bp), part of the D-loop and flanking tRNAs (572bp), X chromosome (867-1051bp) and Y chromosome (983-989bp) DNA sequences. Individuals also were characterized by karyotype and with geometric morphometric analyses of mandibles and skulls. Two hundred fourteen individuals from 91 localities were studied. All the data support the recognition of a new species in SW Anatolia: the Taurus ground squirrel Spermophilus taurensis sp. nov. The new species has a small distribution in the Taurus Mountains in an area that is a hotspot for biodiversity. Molecular clock analysis suggests that the new species diverged from the European ground squirrel, Spermophilus citellus, about 2.5 million years ago and that the ancestor of these two species diverged from the widespread Anatolian ground squirrel, Spermophilus xanthoprymnus, about 5 million years ago. Morphometric differentiation in skull and mandible shape among the three species is incomplete, but statistically significant. S. xanthoprymnus is subdivided into five cytochrome b phylogroups and we use these data to infer the location of glacial refugia where the species lived during the last glacial maximum. This study illustrates the potential of combined molecular and morphometric studies to uncover new Anatolian species and to reconstruct their phylogeographic history. The new species is important for squirrel taxonomy and for understanding Eurasian mammal evolution.
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Affiliation(s)
- Islam Gündüz
- Department of Biology, Faculty of Arts and Sciences, University of Ondokuz Mayis, Samsun, Turkey.
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48
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Abstract
Investigating the geographical distribution of genetic lineages within species is critical to our understanding of how species evolve. As many species inhabit large and complex ranges, it is important that phylogeographical research take into account the entire range of widespread species to clarify how myriad extrinsic variables have affected their evolutionary history. Using phylogenetic, nested clade, and mismatch distribution analyses on a portion of the mitochondrial COI gene, I demonstrate that the wide-ranging freshwater snail Theodoxus fluviatilis possesses in parallel many of the phylogeographical patterns seen in less widespread freshwater species of Europe. Fragmentary forces play a major part in structuring the range of this species, with 12 of 14 geographically structured nested clades displaying a distribution consistent with fragmentation or restricted dispersal. Certain regions of southern Europe harbour the majority of genetic diversity (total haplotype diversity, H = 0.87), particularly Italy (H = 0.87) and areas surrounding the Black Sea (H = 0.81). Post-Pleistocene range expansion is pronounced, with the majority of northern European populations (95% of sample sites) having arisen from northern Italian individuals that initially colonized northern Germany. Additionally, two highly divergent haplotype lineages present in northern Germany imply that there were at least two postglacial recolonization routes. Estuaries may also provide a means of dispersal given that no genetic differentiation was found between estuarine populations and neighbouring freshwater populations. Taken together, these data reveal a species with a complex genetic history resulting from the fragmentary effects of European geology as well as continuous and discrete range expansion related to their aquatic biology.
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Affiliation(s)
- Paul M E Bunje
- Department of Integrative Biology and Museum of Paleontology, University of California, Berkeley.
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Dubey S, Zaitsev M, Cosson JF, Abdukadier A, Vogel P. Pliocene and Pleistocene diversification and multiple refugia in a Eurasian shrew (Crocidura suaveolens group). Mol Phylogenet Evol 2006; 38:635-47. [PMID: 16426868 DOI: 10.1016/j.ympev.2005.11.005] [Citation(s) in RCA: 83] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2005] [Revised: 10/17/2005] [Accepted: 11/09/2005] [Indexed: 10/25/2022]
Abstract
We sequenced 998 base pairs (bp) of mitochondrial DNA cytochrome b and 799 bp of nuclear gene BRCA1 in the Lesser white-toothed shrew (Crocidura suaveolens group) over its geographic range from Portugal to Japan. The aims of the study were to identify the main clades within the group and respective refugia resulting from Pleistocene glaciations. Analyses revealed the Asian lesser white-toothed shrew (C. shantungensis) as the basal clade, followed by a major branch of C. suaveolens, subdivided sensu stricto into six clades, which split-up in the Upper Pliocene and Lower Pleistocene (1.9-0.9 Myr). The largest clade, occurring over a huge range from east Europe to Mongolia, shows evidence of population expansion after a bottleneck. West European clades originated from Iberian and Italo-Balkanic refugia. In the Near East, three clades evolved in an apparent hotspot of refugia (west Turkey, south-west and south-east of the Caucasus). Most clades include specimens of different morphotypes and the validity of many taxa in the C. suaveolens group has to be re-evaluated.
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Affiliation(s)
- Sylvain Dubey
- Department of Ecology and Evolution, University of Lausanne, CH-1015 Lausanne, Switzerland.
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