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Amir Afzali Y, Naderloo R, Keikhosravi A, Klaus S. Phylogeography of the freshwater crab Potamon persicum (Decapoda: Potamidae): an ancestral ring species? J Hered 2024; 115:277-291. [PMID: 38501510 DOI: 10.1093/jhered/esae016] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2023] [Accepted: 03/17/2024] [Indexed: 03/20/2024] Open
Abstract
The Zagros Mountains, characterized by complex topography and three large drainage systems, harbor the endemic freshwater crab Potamon persicum in Iran. Our study delves into the evolutionary history of P. persicum, utilizing two mitochondrial and one nuclear marker. We collected 214 specimens from 24 localities, identifying 21 haplotypes grouped into two major evolutionary lineages. Substantial differentiation exists between drainage systems and lineages. Historical demographic analysis revealed a significant decrease in population size during the late Holocene, accompanied by a recent population bottleneck. Species distribution modeling has revealed eastward shifts in suitable habitats between the last glacial maximum and the present day. Following the last glacial maximum, habitat fragmentation occurred, resulting in the establishment of small populations. These smaller populations are more vulnerable to climatic and geological events, thereby limiting gene flow and accelerating genetic differentiation within species. Historical biogeographic analysis traced the origin of P. persicum to the western Zagros Mountains, with major genetic divergence occurring during the Pleistocene. Our genetic analyses suggest that P. persicum may have shown a genetic pattern similar to a classical ring species before the Pleistocene. The Namak Lake sub-basin could have served as a contact zone where populations did not interbreed but were connected through gene flow in a geographic ring. Currently, genetic separation is evident between basins, indicating that P. persicum in the Zagros Mountains is not a contemporary ring species. Also, our biogeographical analysis estimated that range evolution may have been driven initially by dispersal, and only during the late Pleistocene by vicariance.
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Affiliation(s)
- Yaser Amir Afzali
- Department of Biology, College of Science, University of Tehran, Tehran 1417935840, Iran
| | - Reza Naderloo
- Department of Biology, College of Science, University of Tehran, Tehran 1417935840, Iran
| | - Alireza Keikhosravi
- Department of Biology, Hakim Sabzevari University, Sabzevar 9617976487, Iran
| | - Sebastian Klaus
- Environmental Resources Management, Managing Consultant, ERM GmbH, Siemensstr. 9, Neu-Isenburg 63263, Germany
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2
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Sangster G, Luksenburg JA, Päckert M, Roselaar CS, Irestedt M, Ericson PGP. Integrative taxonomy documents two additional cryptic
Erithacus
species on the Canary Islands (Aves). ZOOL SCR 2022. [DOI: 10.1111/zsc.12561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- George Sangster
- Naturalis Biodiversity Center Leiden The Netherlands
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
| | - Jolanda A. Luksenburg
- Institute of Environmental Sciences Leiden University Leiden The Netherlands
- Department of Environmental Science and Policy George Mason University Fairfax Virginia USA
| | - Martin Päckert
- Senckenberg Natural History Collections Dresden Dresden Germany
| | | | - Martin Irestedt
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
| | - Per G. P. Ericson
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
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3
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Oboudi R, Malekian M, Khosravi R, Fadakar D, Adibi MA. Genetic structure and ecological niche segregation of Indian gray mongoose ( Urva edwardsii) in Iran. Ecol Evol 2021; 11:14813-14827. [PMID: 34765143 PMCID: PMC8571580 DOI: 10.1002/ece3.8168] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/25/2021] [Revised: 09/06/2021] [Accepted: 09/10/2021] [Indexed: 01/01/2023] Open
Abstract
Combining genetic data with ecological niche models is an effective approach for exploring climatic and nonclimatic environmental variables affecting spatial patterns of intraspecific genetic variation. Here, we adopted this combined approach to evaluate genetic structure and ecological niche of the Indian gray mongoose (Urva edwardsii) in Iran, as the most western part of the species range. Using mtDNA, we confirmed the presence of two highly differentiated clades. Then, we incorporated ensemble of small models (ESMs) using climatic and nonclimatic variables with genetic data to assess whether genetic differentiation among clades was coupled with their ecological niche. Climate niche divergence was also examined based on a principal component analysis on climatic factors only. The relative habitat suitability values predicted by the ESMs for both clades revealed their niche separation. Between-clade climate only niche comparison revealed that climate space occupied by clades is similar to some extent, but the niches that they utilize differ between the distribution ranges of clades. We found that in the absence of evidence for recent genetic exchanges, distribution models suggest the species occurs in different niches and that there are apparent areas of disconnection across the species range. The estimated divergence time between the two Iranian clades (4.9 Mya) coincides with the uplifting of the Zagros Mountains during the Early Pliocene. The Zagros mountain-building event seems to have prevented the distribution of U. edwardsii populations between the western and eastern parts of the mountains as a result of vicariance events. Our findings indicated that the two U. edwardsii genetic clades in Iran can be considered as two conservation units and can be utilized to develop habitat-specific and climate change-integrated management strategies.
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Affiliation(s)
- Razie Oboudi
- Department of Natural ResourcesIsfahan University of TechnologyIsfahanIran
| | - Mansoureh Malekian
- Department of Natural ResourcesIsfahan University of TechnologyIsfahanIran
| | - Rasoul Khosravi
- Department of Natural ResourcesSchool of AgricultureShiraz UniversityShirazIran
| | - Davoud Fadakar
- Department of Natural ResourcesIsfahan University of TechnologyIsfahanIran
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4
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Javaheri Tehrani S, Kvist L, Mirshamsi O, Ghasempouri SM, Aliabadian M. Genetic divergence, admixture and subspecific boundaries in a peripheral population of the great tit, Parus major (Aves: Paridae). Biol J Linn Soc Lond 2021. [DOI: 10.1093/biolinnean/blab064] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Abstract
Secondary contact zones have been formed between several pairs of avian species and subspecies in northern and north-eastern Iran during the post-Pleistocene and Holocene periods. Three subspecies groups out of the four in the great tit (Parus major), major, bokharensis and cinereus, are believed to have come into local or regional secondary contact in north-eastern Iran. Parus major intermedius is also known from this region and has long been suggested to have a hybrid origin from hybridization between the yellow western (major) subspecies group and the grey-coloured eastern (bokharensis or cinereus) subspecies group based on its intermediate plumage coloration. Here, we investigated the evidence of intergradation between subspecies groups and the evolutionary origin of P. m. intermedius using mitochondrial DNA sequences and microsatellites, and approximate Bayesian computation to test competing scenarios for the demographic history of the populations. Our analyses indicate a divergence origin for intermedius that resulted from expansion of the major subspecies group. Low mitochondrial diversity and high genetic differentiation in comparison with central populations suggest that intermedius is a peripheral population. Microsatellite data show no signs of nuclear admixture between the bokharensis and major subspecies groups. However, one phenotypically intermedius specimen had bokharensis mtDNA and major nuclear DNA in the assumed hybrid zone (Lotf Abad), supporting past introgression.
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Affiliation(s)
- Sahar Javaheri Tehrani
- Department of Biology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad 9177 9489 74, Iran
| | - Laura Kvist
- Ecology and Genetics Research Unit, University of Oulu, POB 3000, 90014 Oulu, Finland
| | - Omid Mirshamsi
- Department of Biology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad 9177 9489 74, Iran
- Research Department of Zoological Innovations, Institute of Applied Zoology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad 9177 9489 74, Iran
| | - Seyed Mahmoud Ghasempouri
- Department of Environmental Science, Natural Resources and Marine Sciences Faculty, Tarbiat Modares University, Noor POB 46414-356, Iran
| | - Mansour Aliabadian
- Department of Biology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad 9177 9489 74, Iran
- Research Department of Zoological Innovations, Institute of Applied Zoology, Faculty of Science, Ferdowsi University of Mashhad, Mashhad 9177 9489 74, Iran
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Asgharzadeh A, Kaboli M, Rajabi-Maham H, Naderi M. Phylogeny and genetic structure of the Yellow ground squirrel, Spermophilus fulvus (Lichtenstein, 1823), in Iran. Mamm Biol 2019. [DOI: 10.1016/j.mambio.2019.09.007] [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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6
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Asadi A, Montgelard C, Nazarizadeh M, Moghaddasi A, Fatemizadeh F, Simonov E, Kami HG, Kaboli M. Evolutionary history and postglacial colonization of an Asian pit viper (Gloydius halys caucasicus) into Transcaucasia revealed by phylogenetic and phylogeographic analyses. Sci Rep 2019; 9:1224. [PMID: 30718614 PMCID: PMC6362119 DOI: 10.1038/s41598-018-37558-8] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2018] [Accepted: 12/10/2018] [Indexed: 11/17/2022] Open
Abstract
It has been generally acknowledged that glacial climates at the time of the Pleistocene altered the patterns of species distributions, prompting latitudinal and altitudinal distribution shifts in several species, including poikilothermic species commonly known for their thermal sensitivity. However, the historical phylogeographic patterns of such species have remained largely unknown. Here, we present the historical biogeographic, phylogenetic, and phylogeographic relationships of the Caucasian pit viper, G. h. caucasicus, based on two mtDNA (cyt b and ND4) and one nDNA (c-mos) genes. This pit viper represents the westernmost member of the Crotalinae subfamily in the Palearctic and occurs in a variety of habitats, from 30 m to 3,000 m above sea level. In Iran, it is distributed on the northern and southern slopes of the Alborz Mountains, rendering it a target for phylogenetic and phylogeographic studies of a terrestrial poikilothermic animal. Our study identified four Iranian lineages of G. h. caucasicus along the northeastern to northwestern slopes of the Alborz Mountains and southern Azerbaijan (Talysh Mountains). Diversification of the Iranian lineages highlights population expansion and subsequent isolation into four plausible refugial areas during the Quaternary paleo-climatic oscillations, confirmed by our molecular dating and historical biogeographic analyses. The results of coalescence-based simulations support the incursion of the species from northeastern Iran to the western end of the Alborz, and then toward Transcaucasia via two directions: northern and southern slopes of the Alborz Mountains. Furthermore, our results clearly implied that G. h. caucasicus should be elevated to species rank and further referred to as G. caucasicus (Nikolsky, 1916).
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Affiliation(s)
- Atefeh Asadi
- CEFE, PSL-EPHE (Biogéographie et Ecologie des Vertébrés), CNRS, University Montpellier, Univ Paul Valéry Montpellier 3, IRD, Montpellier, France
| | - Claudine Montgelard
- CEFE, PSL-EPHE (Biogéographie et Ecologie des Vertébrés), CNRS, University Montpellier, Univ Paul Valéry Montpellier 3, IRD, Montpellier, France
- Centre for Ecological Genomics and Wildlife Conservation, Department of Zoology, University of Johannesburg, Johannesburg, South Africa
| | - Masoud Nazarizadeh
- Department of Environmental Science, Faculty of Natural Resources, University of Tehran, Karaj, Iran
| | - Akram Moghaddasi
- Department of Environmental Science, Faculty of Natural Resources, University of Tehran, Karaj, Iran
| | - Faezeh Fatemizadeh
- Department of Environmental Science, Faculty of Natural Resources, University of Tehran, Karaj, Iran
| | - Evgeniy Simonov
- Laboratory of Forest Genomics Siberian Federal University, 660036, Akademgorodok 50a/2, rasnoyarsk, Russia
| | - Haji Gholi Kami
- Department of Biology, Faculty of Sciences, Golestan University, Gorgan, Iran
| | - Mohammad Kaboli
- Department of Environmental Science, Faculty of Natural Resources, University of Tehran, Karaj, Iran.
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Chen YC, Nazarizadeh M, Lei FM, Yang XJ, Yao CT, Dong F, Dong L, Zou FS, Drovetski SV, Liu Y, Huang CC, Hung CM. The niches of nuthatches affect their lineage evolution differently across latitude. Mol Ecol 2018; 28:803-817. [PMID: 30565765 DOI: 10.1111/mec.14980] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2018] [Revised: 12/07/2018] [Accepted: 12/10/2018] [Indexed: 11/28/2022]
Abstract
Ecological niche evolution can promote or hinder the differentiation of taxa and determine their distribution. Niche-mediated evolution may differ among climatic regimes, and thus, species that occur across a wide latitudinal range offer a chance to test these heterogeneous evolutionary processes. In this study, we examine (a) how many lineages have evolved across the continent-wide range of the Eurasian nuthatch (Sitta europaea), (b) whether the lineages' niches are significantly divergent or conserved and (c) how their niche evolution explains their geographic distribution. Phylogenetic reconstruction and ecological niche models (ENMs) showed that the Eurasian nuthatch contained six parapatric lineages that diverged within 2 Myr and did not share identical climatic niches. However, the niche discrepancy between these distinct lineages was relatively conserved compared with the environmental differences between their ranges and thus was unlikely to drive lineage divergence. The ENMs of southern lineages tended to cross-predict with their neighbouring lineages whereas those of northern lineages generally matched with their abutting ranges. The coalescence-based analyses revealed more stable populations for the southern lineages than the northern ones during the last glaciation cycle. In contrast to the overlapping ENMs, the smaller parapatric distribution suggests that the southern lineages might have experienced competitive exclusion to prevent them from becoming sympatric. On the other hand, the northern lineages have expanded their ranges and their current abutting distribution might have resulted from lineages adapting to different climatic conditions in allopatry. This study suggests that niche evolution may affect lineage distribution in different ways across latitude.
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Affiliation(s)
- Yu-Chi Chen
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
| | | | - Fu-Min Lei
- Chinese Academy of Sciences, Institute of Zoology, Beijing, China
| | - Xiao-Jun Yang
- Kunming Institute Zoology, Chinese Academy of Sciences, Kunming, China
| | - Cheng-Te Yao
- Division of Zoology, Endemic Species Research Institute, Nantou, Taiwan
| | - Feng Dong
- Kunming Institute Zoology, Chinese Academy of Sciences, Kunming, China
| | - Lu Dong
- Department of Life Science, Beijing Normal University, Beijing, China
| | - Fa-Sheng Zou
- South China Institute of Endangered Animals, Guangzhou, China
| | - Sergei V Drovetski
- Laboratories of Analytical Biology, National Museum of Natural History, Smithsonian Institution, Washington, District of Columbia
| | - Yang Liu
- State Key Laboratory of Biocontrol, Department of Ecology and School of Life Sciences, Sun Yat-sen University, Guangzhou, China
| | | | - Chih-Ming Hung
- Biodiversity Research Center, Academia Sinica, Taipei, Taiwan
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8
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Alireza M, Morteza N, Reza RH, Mohammad K. Population Genetic Structure of Transcaucasian Mole Vole (Ellobius lutescens) Along Zagros Mountains, Iran. CONTEMP PROBL ECOL+ 2018. [DOI: 10.1134/s1995425518020075] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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