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Published May 1, 2022 | Version v1
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The story of a rock-star: multilocus phylogeny and species delimitation in the starred or roughtail rock agama, Laudakia stellio (Reptilia: Agamidae)

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Karameta, Emmanouela, Lymberakis, Petros, Grillitsch, Heinz, Ilgaz, Çetin, Avci, Aziz, Kumlutaş, Yusuf, Candan, Kamil, Wagner, Philipp, Sfenthourakis, Spyros, Pafilis, Panayiotis, Poulakakis, Nikos (2022): The story of a rock-star: multilocus phylogeny and species delimitation in the starred or roughtail rock agama, Laudakia stellio (Reptilia: Agamidae). Zoological Journal of the Linnean Society 195 (1): 195-219, DOI: 10.1093/zoolinnean/zlab107, URL: https://academic.oup.com/zoolinnean/article/195/1/195/6517658

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URL
https://www.checklistbank.org/dataset/55597
LSID
urn:lsid:plazi.org:pub:FFDCFFA7FFFFFFD530650A38FFAEFFFF
URL
http://publication.plazi.org/id/FFDCFFA7FFFFFFD530650A38FFAEFFFF

Has part
Taxonomic treatment: 10.5281/zenodo.6536710 (DOI)
Taxonomic treatment: http://treatment.plazi.org/id/03E587DFFFEEFFC430C8093CFD33F93F (URL)
Taxonomic treatment: 10.5281/zenodo.6536712 (DOI)
Taxonomic treatment: http://treatment.plazi.org/id/03E587DFFFEEFFC4308F0CC8FA3EFC3D (URL)
Taxonomic treatment: 10.5281/zenodo.6536714 (DOI)
Taxonomic treatment: http://treatment.plazi.org/id/03E587DFFFEEFFC4330609C6FCD6FA0F (URL)
Figure: 10.5281/zenodo.6530773 (DOI)
Figure: 10.5281/zenodo.6530775 (DOI)
Figure: 10.5281/zenodo.6530777 (DOI)
Figure: 10.5281/zenodo.6530779 (DOI)
Dataset: http://table.plazi.org/id/DF336641FFF5FFDF30F4080BFE63FD5E (URL)
Dataset: http://table.plazi.org/id/DF336641FFF4FFDE30C50AFCFE2CFEB0 (URL)
Figure: 10.5281/zenodo.6530783 (DOI)
Figure: 10.5281/zenodo.6530785 (DOI)
Is source of
Dataset: https://www.gbif.org/dataset/6e437bd5-bce3-4f86-97f6-8d40fff86b84 (URL)

References

  • Ahmadzadeh F, Flecks M, Rodder D, Bohme W, Ilgaz C, Harris DJ, Engler JO, Uzum N, Carretero MA. 2013. Multiple dispersal out of Anatolia: biogeography and evolution of oriental green lizards. Biological Journal of the Linnean Society 110: 398-408.
  • Akar M. 2009. The role of harbour towns in the re-urbanization of the Levant in the middle Bronze Age (1800-1600 BC) perspectives from eastern Cilicia and the Amuq Plain of Hatay. ArchAtlas workshop: routes and landscapes in Eurasia: exchange and movement from prehistory to the present. Sheffield: Dept. of Archaeology, University of Sheffield.
  • Aksu AE, Hall J, Yaltirak C. 2005. Miocene to recent tectonic evolution of the eastern Mediterranean: new pieces of the old Mediterranean puzzle. Marine Geology 221: 1-13.
  • Ali T, Munoz-Fuentes V, Buch AK, Celik A, Dutbayev A, Gabrielyan I, Glynou K, Kachour L, Khaliq I, Kitner M, Nigrelli L. 2019. Out of Transcaucasia: origin of Western and Central Palearctic populations of Microthlaspi perfoliatum. Flora 253: 127-141.
  • Allegrucci G, Ketmaier V, Di Russo C, Rampini M, Sbordoni V, Cobolli M. 2017. Molecular phylogeography of Troglophilus cave crickets (Orthoptera, Rhaphidophoridae): a combination of vicariance and dispersal drove diversification in the East Mediterranean region. Journal of Zoological Systematics and Evolutionary Research 55: 310-325.
  • Almog A, Bonen H, Herman K, Werner YL. 2005. Subspeciation or none? The hardun in the Aegean (Reptilia: Sauria): Agamidae: Laudakia stellio. Journal of Natural History 39: 567-586.
  • Arslan Y, Demirtas S, Herman JS, Pustilnik JD , Searle JB, Gunduz I. 2020. The Anatolian glacial refugium and human-mediated colonization: a phylogeographical study of the stone marten (Martes foina) in Turkey. Biological Journal of the Linnean Society 129: 470-491.
  • Avise JC, Walker D, Johns GC. 1998. Speciation durations and Pleistocene effects on vertebrate phylogeography. Proceedings of the Royal Society B: Biological Sciences 265: 1707-1712.
  • Baier F, Schmitz A, Sauer-Gurth H, Wink M. 2017. Pre-Quaternary divergence and subsequent radiation explain longitudinal patterns of genetic and morphological variation in the striped skink, Heremites vittatus. BMC Ecology and Evolution 17: 132.
  • Baig KJ. 1992. Systematic studies of the Stellio -group of Agama (Sauria: Agamidae). Unpublished D. Phil. Thesis, Quaid-i-Azam University Islamabad, Pakistan.
  • Baig KJ, Bohme W. 1997. Partition of the' Stellio ' group of Agama into two distinct genera: Acanthocercus Fitzinger, 1843, and Laudakia Gray, 1845 (Sauria: Agamidae). In: Bohme W, Bischoff W, Ziegler T. eds. Proceedings of the 8th ordinary general meeting of the Societas Europaea Herpetologica, Bonn: SEH.
  • Baig KJ, Wagner P, Ananjeva NB, Bohme W. 2012. A morphology-based taxonomic revision of Laudakia Gray, 1845 (Squamata: Agamidae). Vertebrate Zoology 62: 213-260.
  • Baran I, Oz M. 1985. Anadolu Agama stellio (Agamidae, Reptilia) populasyonlarinin taksonomik arastirilmasi [A taxonomic investigation of Anatolian Agama stellio populations (Agamidae, Reptilia)]. Doga Bilimleri Dergisi 9: 161-169.
  • Bellati A, Carranza S, Garcia-Porta J, Fasola M, Sindaco R. 2015. Cryptic diversity within the Anatololacerta species complex (Squamata: Lacertidae) in the Anatolian Peninsula: evidence from a multilocus approach. Molecular Phylogenetics and Evolution 82: 219-233.
  • Beutler A, Fror E. 1980. Die Amphibien und Reptilien der Nordkykladen (Griechenland). Mitteilungen der Zoologischen Gesellschaft Braunau 3: 255-290.
  • Bilgin R. 2011. Back to the suture: the distribution of intraspecific genetic diversity in and around Anatolia. International Journal of Molecular Sciences 12 : 4080-4103.
  • Bird C. 1936. The distribution of reptiles and Amphibians in Asiatic Turkey, with notes on a collection from the vilayets of Adana, Gaziantep, and Malatya. Journal of Natural History 18: 257-281.
  • Blondel J. 2010. The Mediterranean region: biological diversity in space and time. Oxford: Oxford University Press.
  • Bodenheimer FS. 1944. Introduction into knowledge of the Amphibia and Reptilia of Turkey. Review of Faculty of Science University of Istanbul 9: 1-78.
  • Bohme W, Wiedl H. 1994. Status and zoogeography of the herpetofauna of Cyprus, with taxonomic and natural history notes on selected species (genera Rana, Coluber, Natrix, Vipera). Zoology in the Middle East 10: 31-52.
  • Bouckaert R, Heled J, Kuhnert D, Vaughan T, Wu CH, Xie D, Suchard MA, Rambaut A, Drummond AJ. 2014. BEAST 2: a software platform for Bayesian evolutionary analysis. PLoS Computational Biology 10: pe1003537.
  • Bouckaert R , Vaughan TG , Barido-Sottani J, Duchene S, Fourment M, Gavryushkina A, Heled J, Jones G, Kuhnert D, De Maio N, Matschiner M. 2019. BEAST 2.5: an advanced software platform for Bayesian evolutionary analysis. PLoS Computational Biology 15: pe1006650.
  • Brammah M, Hoffman JI, Amos W. 2010. Genetic divergence between and within two subspecies of Laudakia stellio on islands in the Greek Cyclades. Herpetological Journal 20: 91-98.
  • Bruford MW, Hanotte O, Burke T. 1998. Multi and single locus DNA fingerprinting. In: Hoelzel AR, ed. Molecular genetic analysis of populations: a practical approach. Oxford: IRL Press at Oxford University Press, 225-269.
  • Ciplak B, Demirsoy A, Bozcuk AN. 1993. Distribution of Orthoptera in relation to the Anatolian Diagonal in Turkey. Articulata 8: 1-20.
  • Clark RJ, Clark E. 1973. Report on a collection of amphibians and reptiles from Turkey. Occasional Papers of the California Academy of Sciences 104: 1-62.
  • Crochet PA, Lymberakis P, Werner YL. 2006. The type specimens of Laudakia stellio (Linnaeus) (Reptilia: Agamidae) and its subspecies. Journal of Natural History 40: 461-471.
  • Daan S. 1967. Variation and taxonomy of the Hardun, Agama stellio (Linnaeus, 1758) (Reptilia, Agamidae). Beaufortia 14: 109-134.
  • Davis PH. 1971. Distribution patterns in Anatolia with particular reference to endemism. In: Davis PH, Harper PC, Hedge IC, eds. Plant life of South West Asia. Edinburgh: Botanical Society of Edinburgh, 15-27.
  • Delfino M, Kotsakis T, Arca M, Tuveri C, Pitruzzella G, Rook L. 2008. Agamid lizards from the Plio-Pleistocene of Sardinia (Italy) and an overview of the European fossil record of the family. Geodiversitas 30: 641-656.
  • Disi AM. 2011. Review of the lizard fauna of Jordan: (Reptilia: Sauria). Zoology in the Middle East 54: 89-102.
  • Disi AM, Bohme W. 1996. Zoogeography of the amphibians and reptiles of Syria, with additional new records. Herpetozoa 9: 63-70.
  • Duggen S, Hoernle K, Van den Bogaard P, Rupke L, Morgan JP. 2003. Deep roots of the Messinian salinity crisis. Nature 422: 602-606.
  • Edwards LE, Melville E. 2011. Extensive phylogeographic and morphological diversity in Diporiphora nobbi (Agamidae) leads to a taxonomic review and a new species description. Journal of Herpetology 45: 530-546.
  • Ekim T, Guner A. 1986. The Anatolian Diagonal: fact or fiction? Proceedings of the Royal Society of Edinburgh Section B: Biology 89: 69-77.
  • Fassoulas C. 2018. The geodynamic and paleogeographic evolution of the Aegean in the Tertiary and Quaternary: a review. In: Sfenthourakis S, Pafilis P, Parmakelis A, Poulakakis N, Triantis KA, eds. Biogeography and biodiversity of the Aegean. In honour of Prof. Moysis Mylonas. Nicosia: Broken Hill Publishers Ltd, 25-46.
  • Federman R, Werner YL. 2007. Man-made environmental changes affect the boundary between two taxa of Laudakia. Journal of Zoology 273: 281-288.
  • Felsenstein J. 1973. Maximum likelihood and minimumsteps methods for estimating evolutionary trees from data on discrete characters. Systematic Zoology 22: 240-249.
  • Felsenstein J. 1981. Evolutionary trees from DNA sequences: a maximum likelihood approach. Journal of Molecular Evolution 17: 368-376.
  • Flouri T,Jiao X,Rannala B,Yang Z. 2018. Species tree inference with BPP using genomic sequences and the multispecies coalescent. Molecular Biology and Evolution 35: 2585-2593.
  • Flower MSS. 1933. Notes on the recent reptiles and amphibians of Egypt, with a list of the species recorded from that kingdom. Journal of Zoology 103: 735-851.
  • Gocmen B, Tosunoglu M, Taskavak E. 2003. A taxonomic comparison of the Hardun, Laudakia stellio (Reptilia, Agamidae), populations of southern Turkey (Hatay) and Cyprus. Zoology in the Middle East 28: 25-32.
  • Goncalves DV, Brito JC, Crochet PA, Geniez P, Padial JM, Harris DJ. 2012. Phylogeny of North African agama lizards (Reptilia: Agamidae) and the role of the Sahara Desert in vertebrate speciation. Molecular Phylogenetics and Evolution 64: 582-591.
  • Gul C, Tosunoglu M. 2011. External morphological and osteological features of Turkish populations of Laudakia stellio (Linnaeus, 1758) (Squamata: Sauria: Agamidae). Herpetozoa 24: 73-88.
  • Gul C, Dincaslan Y, Tosunoglu M. 2010. A new locality of the roughtail rock agama Laudakia stellio (Linnaeus 1758), from Sinop, North Anatolia. Herpetozoa 23: 98-100.
  • Gunduz I, Jaarola M, Tez C, Yeniyurt C, Polly PD, Searle JB. 2007 . Multigenic and morphometric differentiation of ground squirrels (Spermophilus, Scuiridae, Rodentia) in Turkey, with a description of a new species. Molecular Phylogenetics and Evolution 43: 916-935.
  • Gur H. 2013. The effects of the Late Quaternary glacialinterglacial cycles on Anatolian ground squirrels: range expansion during the glacial periods? Biological Journal of the Linnean Society 109: 19-32.
  • Gur H. 2016. The Anatolian diagonal revisited: testing the ecological basis of a biogeographic boundary. Zoology in the Middle East 62: 189-199.
  • Gvozdik V, Moravec J, Klutsch C, Kotlik P. 2010. Phylogeography of the Middle Eastern tree frogs (Hyla, Hylidae,Amphibia) as inferred from nuclear and mitochondrial DNA variation, with a description of a new species. Molecular Phylogenetics and Evolution 55: 1146-1166.
  • Haas G. 1951. A new subspecies of Agama stellio (L.) from southern Israel (Negev), Agama stellio brachydactyla, subsp. nov. Annals and Magazine of Natural History 4: 1052-1053.
  • Henle K. 1995. A brief review of the origin and use of 'stellio' in herpetology and a comment on the nomenclature and taxonomy of agamids of the genus Agama (sensu lato). Herpetozoa 8: 3-9.
  • Hewitt GM. 1996. Some genetic consequences of ice ages, and their role in divergence and speciation. Biological Journal of the Linnean Society 58: 247-276.
  • Huelsenbeck JP, Rannala B. 2004. Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models. Systematic Biology 53: 904-913.
  • Huelsenbeck JP, Ronquist F, Nielsen R, Bollback JP. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294: 2310-2314.
  • Izhaki I, Haim A. 1996. Adaptive morphometric variation in lizards of the genus Agama in Israel. Israel Journal of Zoology 42: 385-394.
  • Jackson ND, Carstens BC, Morales AE, O'Meara BC. 2017. Species delimitation with gene flow. Systematic Biology 66: 799-812.
  • Kadry MA, Al-Qahtani AR, Amer SA. 2020. Morphometric and molecular differentiation between Egyptian Stellagama stellio vulgaris and S. stellio salehi (Reptilia: Agamidae). Zoology in the Middle East 66: 295-301.
  • Kapli P, Lymberakis P, Poulakakis N, Mantziou G, Parmakelis A, Mylonas M. 2008. Molecular phylogeny of three Mesalina (Reptilia: Lacertidae) species (M. guttulata, M. brevirostris and M. bahaeldini) from North Africa and the Middle East: another case of paraphyly? Molecular Phylogenetics and Evolution 49: 102-110.
  • Kapli P, Botoni D, Ilgaz C, Kumlutas Y, Avci A, Rastegar-Pouyani N, Fathinia B Lymberakis P, Ahmadzadeh F, Poulakakis N. 2013. Molecular phylogeny and historical biogeography of the Anatolian lizard Apathya (Squamata, Lacertidae). Molecular Phylogenetics and Evolution 66: 992-1001.
  • Kapli P, Lymberakis P, Crochet PA, Geniez P, Brito JC, Almutairi M, Ahmadzadeh F, Schmitz A, Wilms T, Pouyani NR, Poulakakis N. 2014. Historical biogeography of the lacertid lizard Mesalina in North Africa and the Middle East. Journal of Biogeography 42: 267-279.
  • Karakasi D, Ilgaz C, Kumlutas Y, Candan K, Guclu O, Kankilic T, Beser N, Sindaco R, Lymberakis P, Poulakakis N. 2021. More evidence of cryptic diversity in Anatololacerta species complex Arnold, Arribas and Carranza. 2007 (Squamata: Lacertidae) and re-evaluation of its current taxonomy. Amphibia-Reptilia 42: 201-216.
  • Katoh K, Misawa K, Kuma KI, Miyata T. 2002. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Research 30: 3059-3066.
  • Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C , Thierer T , Ashton B, Meintjes P , Drummond A. 2012. Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28: 1647-1649.
  • Kete R, Yylmaz I. 2006. Antakya ve Gaziantep Bolgesinde yasayan Laudakia stellio (Linnaeus, 1758) (Agamidae, Lacertilia) uzerine morfolojik-taksonomik bir arastirma. [A morphological-taxonomical investigation on the lizard Laudakia stellio (Linnaeus, 1758) (Agamidae, Lacertilia) distributing in Antakya and Gaziantep regions.] Anadolu Universitesi Bilim ve Teknoloji Dergisi 7: 377-386.
  • Klaptocz A. 1910. Beitrag zur Herpetologie der europaischen Turkei. Zoologische Jahrbucher Abteilung fur Systematik, Geographie und Biologie der Tiere 29: 415-424.
  • Koch C. 1932. Sammeltage auf der Insel Korfu, Oktober- November 1929. Blatter fur Aquarien - und Terrarien - Kunde, Braunschweig 43: 200-203.
  • Korkmaz EM , Lunt DH, Ciplak B , Degerli N , Basibuyuk HH. 2014. The contribution of Anatolia to European phylogeography: the centre of origin of the meadow grasshopper, Chorthippus parallelus. Journal of Biogeography 41: 1793-1805.
  • Kornilios P, Ilgaz C, Kumlutas Y, Giokas S, Fraguedakis-Tsolis S, Chondropoulos B. 2011. The role of Anatolian refugia in herpetofaunal diversity: an mtDNA analysis of Typhlops vermicularis Merrem, 1820 (Squamata, Typhlopidae). Amphibia-Reptilia 32: 351-363.
  • Kornilios P, Ilgaz C, Kumlutas Y, Lymberakis P, Moravec J , Sindaco R , Rastegar-Pouyani N, Afroosheh M, Giokas S, Fraguedakis-Tsolis S, Chondropoulos B. 2012. Neogene climatic oscillations shape the biogeography and evolutionary history of the Eurasian blindsnake. Molecular Phylogenetics and Evolution 62: 856-873.
  • Kornilios P,Thanou E, Lymberakis P,Ilgaz C,Kumlutas Y, Leache A. 2019. Genome-wide markers untangle the green-lizard radiation in the Aegean Sea and support a rare biogeographical pattern. Journal of Biogeography 46: 552-567.
  • Krijgsman W, Hilgen FJ, Raffi I, Sierro FJ, Wilson DS. 1999. Chronology, causes and progression of the Messinian salinity crisis. Nature 400: 652-655.
  • Krijgsman W, Stoica M, Vasiliev I, Popov VV. 2010. Rise and fall of the Paratethys Sea during the Messinian Salinity Crisis. Earth and Planetary Science Letters 290: 183-191.
  • Kron G. 2013. Classical Greek trade in comparative perspective: Literary and archaeological evidence. In: EM Harris, DM Lewis, DM Lewis, M Woolmer eds. Beyond selfsufficiency: household city-states and markets in the ancient Greek world. Cambridge: Cambridge University Press, 29-138.
  • Kumar S, Stecher G, Li M, Knyaz C, Tamura K. 2018. MEGA X: molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution 35: 1547-1549.
  • Kumlutas Y, Oz M, Durmus H, Tunc MR, Ozdemir A, Dusen S. 2004. On some lizard species of the western Taurus range. Turkish Journal of Zoology 28: 225-236.
  • Kumlutas Y, Ugurtas IH, Koyun M, Ilgaz C. 2015. A new locality records of Stellagama stellio (Linnaeus, 1758) (Sauria: Agamidae) in Anatolia. Russian Journal of Herpetology 22: 149-153.
  • Kurschner WM, Kvacek Z, Dilcher DL. 2008. The impact of Miocene atmospheric carbon dioxide fluctuations on climate and the evolution of terrestrial ecosystems. Proceedings of the National Academy of Sciences of the USA 105: 449-453.
  • Kyriazi P, Poulakakis N, Parmakelis A, Crochet PA, Moravec J, Rastegar-Pouyani N, Tsigenopoulos CS, MagoulasA,Mylonas M,Lymberakis P. 2008.Mitochondrial DNA reveals the genealogical history of the snake-eyed lizards (Ophisops elegans and O. occidentalis) (Sauria: Lacertidae). Molecular Phylogenetics and Evolution 49: 795-805.
  • Lachman E, Carmely H, Werner YL. 2006. Subspeciation befogged by the 'Seligmann effect': the case of Laudakia stellio (Reptilia: Sauria: Agamidae) in southern Sinai, Egypt. Journal of Natural History 40: 1259-1284.
  • Lanfear R, Frandsen PB, Wright AM, Senfeld T , Calcott B. 2016. PartitionFinder 2: new methods for selecting partitioned models of evolution for molecular and morphological phylogenetic analyses. Molecular Biology and Evolution 34: 772-773.
  • Lateef AS. 2007. Geological history of the Bekaa Valley. In: Second International Conference on the geology of the Tethys. Cairo: Cairo University, 391-402.
  • Leache AD,Wagner P,Linkem CW,Bohme W,Papenfuss TJ, Chong RA, Lavin BR, Bauer AM, Nielsen SV, Rodel M, Schmitz A, Lebreton M, Ineich I, Greenbaum E, Ofori-Boateng C, Eniang EA, Baha El Din S, Chirio L, Lemmon AR, Burbrink FT. 2014. A hybrid phylogeneticphylogenomic approach for species tree estimation in African Agama lizards with applications to biogeography, character evolution, and diversification. Molecular Phylogenetics and Evolution 79: 215-230.
  • Leache AD, Zhu T, Rannala B, Yang Z. 2019. The spectre of too many species. Systematic Biology 68: 168-181.
  • Leigh JW, Bryant D. 2015. Popart: full-feature software for haplotype network construction. Methods in Ecology and Evolution 6: 1110-1116.
  • Loos J, Dayan T, Drescher N, Levanony T, Maza E, Shacham B,Talbi R, Assmann T. 2011. Habitat preferences of the Levant green lizard, Lacerta media israelica (Peters, 1964) (Reptilia: Lacertidae). Zoology in the Middle East 52: 17-28.
  • Lymberakis P, Poulakakis N. 2010. Three continents claiming an archipelago: the evolution of Aegean's herpetofaunal diversity. Diversity 2: 233-255.
  • Macey JR, Schulte JA, Larson A, Ananjeva NB, Wang Y, Pethiyagoda R, Rastegar-Pouyani N, Papenfuss TJ. 2000. Evaluating trans-Tethys migration: an example using acrodont lizard phylogenetics. Systematic Biology 49: 233-256.
  • Macey JR, Schulte JA, Fong JJ, Das I, Papenfuss TJ. 2006. The complete mitochondrial genome of an agamid lizard from the Afro-Asian subfamily Agaminae and the phylogenetic position of Bufoniceps and Xenagama. Molecular Phylogenetics and Evolution 39: 881-886.
  • Melville J, Hale J, Mantziou G, Ananjeva NB, Milto K, Clemann N. 2009. Historical biogeography, phylogenetic relationships and intraspecific diversity of agamid lizards in the Central Asian deserts of Kazakhstan and Uzbekistan. Molecular Phylogenetics and Evolution 53: 99-112.
  • Miller MA, Pfeiffer W, Schwartz T. 2010. Creating the CIPRES science gateway for inference of large phylogenetic trees in Proceedings of the Gateway Computing Environments Workshop (GCE), 14 Nov. 2010, New Orleans, LA. pp. 1-8.
  • Milto KD. 2017. New records of reptiles on the Red Sea Coast, Egypt, with notes on zoogeography. Russian Journal of Herpetology 24: 11-21.
  • Mittermeier RA, Turner WR, Larsen FW, Brooks TM, Gascon C. 2011. Global biodiversity conservation: the critical role of hotspots. In: Zachos F, Habel J, eds. Biodiversity hotspots. Berlin, Heidelberg: Springer, 3-22.
  • Moody SM. 1980. Phylogenetic and historical biogeographical relationships of the genera in family Agamidae (reptilia: Lacertilia). Unpublished D.Phil.Thesis, University of Michigan.
  • Mutun S. 2010. Intraspecific genetic variation and phylogeography of the oak gallwasp Andricus caputmedusae (Hymenoptera: Cynipidae): effects of the Anatolian Diagonal. Acta Zoologica Academiae Scientiarum Hungaricae 56: 153-172.
  • Myers N. Mittermeier RA , Mittermeier CG , Da Fonseca GAB, Kent J. 2000. Biodiversity hotspots for conservation priorities. Nature 403: 853-858.
  • Nevo E. 1981. Genetic variation and climatic selection in the lizard Agama stellio in Israel and Sinai. Theoretical and Applied Genetics 60: 369-380.
  • Ogilvie HA, Bouckaert RR Drummond AJ. 2017. StarBEAST2 brings faster species tree inference and accurate estimates of substitution rates. Molecular Biology and Evolution 34: 2101-2114.
  • Osenegg K. 1989. Die Amphibien und Reptilien der Insel Zypern. Unpublished M. Sc. Thesis, University of Bonn.
  • Ozdemir N, Gul C, Tosunoglu M. 2011. Genomic variation within Laudakia stellio (Linnaeus, 1758) (Sauria: Agamidae) in Turkey, based on analyses of mitochondrial 12s rRNA sequences. Journal of Animal and Veterinary Advances 10: 415-420.
  • Pang J, Wang Y, Zhong Y, Hoelzel AR, Papenfuss TJ, Zeng X, Ananjeva NB, Zhang YP. 2003. A phylogeny of Chinese species in the genus Phrynocephalus (Agamidae) inferred from mitochondrial DNA sequences. Molecular Phylogenetics and Evolution 27: 398-409.
  • Panov EN, Zykova LY. 1997 . Differentiation and interrelations of two representatives of Laudakia stellio complex (reptilia: Agamidae) in Israel. Russian Journal of Herpetology 4: 102-114.
  • Panov EN, Zykova LY. 2016. Rock agamas of Eurasia. Moscow: KMK Scientific Press.
  • Parker HW. 1935. A new melanic lizard from Transjordania, and some speculations concerning melanism. Proceedings of the Zoological Society of London 135: 137-142.
  • Popov SV, Shcherba IG, Ilyina LB, Nevesskaya LA, Paramonova NP, Khondkarian SO, Magyar I. 2006. Late Miocene to Pliocene palaeogeography of the Paratethys and its relation to the Mediterranean. Palaeogeography, Palaeoclimatology, Palaeoecology 238: 91-106.
  • Poulakakis N, Parmakelis A. 2018. The Aegean Archipelago: from zoogeography to phylogeography. In: Sfenthourakis S, Pafilis P, Parmakelis A, Poulakakis N, Triantis KA, eds. Biogeography and biodiversity of the Aegean. In honour of Prof. Moysis Mylonas. Nicosia: Broken Hill Publishers Ltd, 269-278.
  • Poulakakis N, Kapli P, Kardamaki A, Skourtanioti E, Gocmen B, Ilgaz C, Kumlutas Y, Avci A, Lymberakis P. 2013. Comparative phylogeography of six herpetofauna species in Cyprus: late Miocene to Pleistocene colonization routes. Biological Journal of the Linnean Society 108: 619-635.
  • Poulakakis N, Kapli P, Lymberakis P, Trichas A, Vardinoyiannis K, Sfenthourakis S, Mylonas M. 2015. A review of phylogeographic analyses of animal taxa from the Aegean and surrounding regions. Journal of Zoological Systematics and Evolutionary Research 53:18-32.
  • Psonis N, Antoniou A, Kukushkin O, Jablonski D, Petrov B, Crnobrnja-Isailovic J, Sotiropoulos K, Gherghel I, Lymberakis P, Poulakakis N. 2017. Hidden diversity in the Podarcis tauricus (Sauria, Lacertidae) species subgroup in the light of multilocus phylogeny and species delimitation. Molecular Phylogenetics and Evolution 106: 6-17.
  • Pyron RA, Burbrink FT, Wiens JJ. 2013. A phylogeny and revised classification of squamata, including 4161 species of lizards and snakes. BMC Ecology and Evolution 13: 1-54.
  • Rambaut A, Drummond AJ. 2009. Tracer: MCMC trace analysis tool, v.1.5. Oxford: University of Oxford.
  • Rambaut A, Drummond AJ, Xie D, Baele G, Suchard MA. 2018. Posterior summarization in Bayesian phylogenetics using Tracer 1.7. Systematic Biology 67: 901-904.
  • Rannala B, Yang Z. 2003. Bayes estimation of species divergence times and ancestral population sizes using DNA sequences from multiple loci. Genetics 164: 1645-1656.
  • Raymo ME, Grant B, Horowitz M, Rau GH. 1996. Mid- Pliocene warmth: stronger greenhouse and stronger conveyor. Marine Micropaleontology 27: 313-326.
  • Rogl F. 1999a. Mediterranean and Paratethys facts and hypotheses of an Oligocene to Miocene paleogeography (short review). Geologica Carpathica 50: 339-349.
  • Rogl F. 1999b. Palaeogeographic considerations for Mediterranean and Paratethys seaways. Annalen des Naturhistorischen Museums in Wien 99A: 279-310.
  • Rokas A, Atkinson RJ, Webster L,Csoka G,Stone GN. 2003. Out of Anatolia: longitudinal gradients in genetic diversity support an eastern origin for a circum-Mediterranean oak gallwasp Andricus quercustozae. Molecular Ecology 12: 2153-2174.
  • Ronquist F, Teslenko M, Van der Mark P, Ayres DL, Darling A, Hohna S, Larget B, Liu L, Suchard MA, Huelsenbeck JP. 2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology 61: 539-542.
  • Rozas J, Ferrer-Mata A, Sanchez-DelBarrio JC, Guirao-Rico S, Librado P, Ramos-Onsins SE, Sanchez-Gracia A. 2017. DnaSP 6: DNA sequence polymorphism analysis of large data sets. Molecular Biology and Evolution 34: 3299-3302.
  • Rozen S, Skaletsky HJ. 2000. Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S, eds. Bioinformatics methods and protocols: methods in molecular biology. Totowa: Humana Press, 365-386.
  • Sagonas K, Poulakakis N, Lymberakis P, Parmakelis A, Pafilis P, Valakos ED. 2014. Molecular systematics and historical biogeography of the green lizards (Lacerta) in Greece: insights from mitochondrial and nuclear DNA. Molecular Phylogenetics and Evolution 76: 144-154.
  • Sanchooli N, Rahimian H, Rastegar-Pouyani N, Rastegar-Pouyani E. 2015. Sequence variation in the mtDNA, ND4-tRNALEU, segments of Laudakia nupta (De Filippi, 1843) in Iran. Iranian Journal of Animal Biosystematics 11: 157-164.
  • Seyrek A, Demir T, Pringle M, Yurtmen S, Westaway R, Bridgland D, Beck A, Rowbotham G. 2008. Late Cenozoic uplift of the Amanos Mountains and incision of the Middle Ceyhan river gorge, southern Turkey; Ar-Ar dating of the Duzici basalt. Geomorphology 97: 321-355.
  • Sfenthourakis S,Triantis KA. 2017. The Aegean archipelago: a natural laboratory of evolution, ecology and civilisations. Journal of Biological Research - Thessaloniki 24: 1-13.
  • Simmons AH. 1999. Faunal extinction in an island society: pygmy hippopotamus hunters of Cyprus. New York: Springer Science and Business Media.
  • Simonato M, Mendel Z, Kerdelhue C, Rousselet J, Magnoux E, Salvato P, Roques A, Battisti A, Zane L. 2007. Phylogeography of the pine processionary moth Thaumetopoea wilkinsoni in the Near East. Molecular Ecology 16: 2273-2283.
  • Sindaco R, Kornilios P, Roberto S, Lymberakis P. 2014. Taxonomic reassessment of Blanus strauchi (Bedriaga, 1884) (Squamata: Amphisbaenia: Blanidae), with the description of a new species from south-east Anatolia (Turkey). Zootaxa 3795: 311-326.
  • Sivan N, Werner YL. 1992. Survey of the reptiles of the Golan Plateau and Mt Hermon, Israel. Israel Journal of Zoology 37: 193-211.
  • Skourtanioti E, Kapli P, Ilgaz C, Kumlutas Y, Avci A, Ahmadzadeh F, Crnobrnja-Isailovic J, Gherghel I, Lymberakis P, Poulakakis N. 2016. A reinvestigation of phylogeny and divergence times of the Ablepharus kitaibelii species complex (Sauria: Scincidae) based on mtDNA and nuDNA genes. Molecular Phylogenetics and Evolution 103: 199-214.
  • Sonnini CS, Latreille PA. 1802. Histoire naturelle des reptiles: avec figures dessinees d'apres nature. Paris: Crapelet.
  • Spaneli V, Lymberakis P. 2014. First record of Stellagama stellio (Linnaeus, 1758) from Crete, Greece. Herpetology Notes 7: 367-369.
  • Speybroeck J, Beukema W, Dufresnes C, Fritz U, Jablonski D, Lymberakis P, Martinez-Solano I, Razzetti E, Vamberger M, Vences M, Voros J. 2020. Species list of the European herpetofauna-2020 update by the Taxonomic Committee of the Societas Europaea Herpetologica. Amphibia-Reptilia 41: 139-189.
  • Stamatakis A. 2014.RAxML v.8:a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 30: 1312-1313.
  • Stein M. 2001. The sedimentary and geochemical record of Neogene-Quaternary water bodies in the Dead Sea Basin - inferences for the regional paleoclimatic history. Journal of Paleolimnology 26: 271-282.
  • Stephens M,Donelly P. 2003. A comparison of Bayesian methods for haplotype reconstruction from populations genotype data. American Journal of Human Genetics 73: 1162-1169.
  • Stephens M, Smith NJ, Donnelly P. 2001. A new statistical method for haplotype reconstruction from population data. American Journal of Human Genetics 68: 978-989.
  • Stover BC, Muller KF. 2010. TreeGraph 2: combining and visualizing evidence from different phylogenetic analyses. BMC Bioinformatics 11: 1-9.
  • Sukumaran J, Knowles LL. 2017. Multispecies coalescent delimits structure, not species. Proceedings of the National Academy of Sciences of the USA 114: 1607-1612.
  • Templeton AR, Crandall KA, Singh CF. 1992. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132: 619-633.
  • Uetz P, Freed P, Aguilar R, Hosek J. 2021. The reptile database. Available from: http://www.reptile-database.org (accessed September 2021).
  • Webb T, Bartlein PJ. 1992. Global changes during the last 3 million years: climatic controls and biotic responses. Annual Review of Ecology, Evolution, and Systematics 23: 141-173.
  • Werner YL. 1988. Herpetofaunal survey of Israel (1950-85), with comments on Sinai and Jordan and on zoogeographical heterogeneity. Monographiae Biologicae 62: 355-388.
  • Werner YL. 1992. Identity and distribution of Agama stellio picea Parker (Sauria: Agamidae), endemic to the volcanic desert of Jordan. Zoology in the Middle East 6: 41-44.
  • Xyda A. 1983. Differentiation between the local Greek and Cypriot populations of Agama stellio (Reptilia: Agamidae). Unpublished Ph. D. Thesis, National and Kapodistrian University of Athens.
  • Xyda A. 1986. Supplementary evidence on the biometry and ecology of the lizard Stellio stellio of Greece and Cyprus. Biologia Gallo-Hellenica 12: 451-458.
  • Yaacov DB, Arbel-Thau K, Zilka Y, Ovadia O, Bouskila A Mishmar D. 2012. Mitochondrial DNA variation, but not nuclear DNA, sharply divides morphologically identical chameleons along an ancient geographic barrier. PLoS One 7: pe31372.
  • Yang Z. 2006. Computational molecular evolution. Oxford and New York: Oxford University Press.
  • Yang Z, Rannala B. 1997. Bayesian phylogenetic inference using DNA sequences: a Markov chain Monte Carlo method. Molecular Biology and Evolution 14: 717-724.
  • Yang Z, Rannala B. 2010. Bayesian species delimitation using multilocus sequence data. Proceedings of the National Academy of Sciences of the USA 107: 9264-9269.
  • Yilmaz Y. 1993. New evidence and model on the evolution of the southeast Anatolian orogen. Geological Society of America Bulletin 105: 251-271.
  • Zhang J, Kapli P, Pavlidis P, Stamatakis A. 2013. A general species-delimitation method with applications to phylogenetic placements. Bioinformatics 29: 2869-2876.
  • Zinner H. 1967. Herpetological collection trips to the Lebanon 1965 and 1966. Israel Journal of Ecology and Evolution 16: 49-58.