Vol. 77 2025

ARTICLES

Assessing the Taxonomic Status and Evolutionary History of Acomys cilicicus: Insights from mtDNA Analysis

Ferhat Matur1,*, Ortaç Çetintaş2, Sercan Irmak3, Faruk Çolak2, Hamza Ekmen4, Gökhan Mustafaoğlu5 & Mustafa Sözen2

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*1Department of Biology, Faculty of Science, Dokuz Eylül University, İzmir, Türkiye; ferhat.matur@deu.edu.tr
2Department of Biology, Faculty of Arts and Sciences, Zonguldak Bülent Ecevit University, Zonguldak, Türkiye;
ortaccetintas@gmail.com, farukcolak@gmail.com, Spalaxtr@hotmail.com
3Application and Research Centre, Balıkesir University, sercanirmak@gmail.com
4Department of Archaeology, Faculty of Arts and Sciences, Zonguldak Bülent Ecevit University, Zonguldak, Türkiye;
hamzaekmen@hotmail.com,
5Department of Archaeology, Faculty of Letters, Hacı Bayram Veli University, Ankara, Türkiye; gokhan.mustafaoglu@hbv.edu.tr

https://doi.org/10.71424/azb77.4.002901

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Abstract

The spiny mouse Acomys cilicicus is confined to a ~120 km² coastal strip between Silifke and Erdemli in southern Turkey. The species has long been of uncertain taxonomic status. We sequenced a 950-bp fragment of the mitochondrial cytochrome b (CYTB) gene from 16 individuals of A. cilicicus across five localities and integrated these data with published CYTB sequences of A. minous, A. nesiotes and A. cahirinus. Median-joining network and Kimura-2-parameter distance analyses revealed two geographically structured haplotypes of A. cilicicus within an overall low diversity background (< 2% divergence). Phylogenetic reconstructions, using maximum likelihood and Bayesian relaxed-clock approaches, identified A. cilicicus as a strongly supported, monophyletic sister clade to A. minous. Divergence dating placed the split between A. cilicicus and A. minous at ~0.17 million years ago (95% highest posterior density: 0.03–0.37 mya). Coalescent-based migration modelling (MIGRATE) supports a two-stage colonisation scenario: an ancestral dispersal of A. cahirinus into Crete giving rise to A. minous, followed by Pleistocene maritime colonisation from Crete to southern Anatolia, yielding A. cilicicus. These results validate the distinct species status of A. cilicicus as a discrete conservation unit and highlight the need for multilocus nuclear markers to resolve incomplete lineage sorting in this recently diverged Mediterranean clade.

Key words

Anatolian spiny mouse, introduced species, phylogeography, species status

How to Cite
Matur F., Çetintaş O., Irmak S., Çolak F., Ekmen H., Mustafaoğlu G., Söze M. 2025. Assessing the Taxonomic Status and Evolutionary History of Acomys cilicicus: Insights from mtDNA Analysis. Acta zoologica bulgarica 77 (4): 537-543.

References

  1. Abdelkrim J., Pascal M. & Samadi S. 2005. Island colonization and founder effects: the invasion of the Guadeloupe Islands by ship rats (Rattus rattus). Molecular Ecology 14 (10): 2923-2931.
  2. Aghová T., Palupčíková K., Šumbera R., Frynta D., Lavrenchenko L. A., Meheretu Y., Sádlová Y., Votýpka J., Mbau J. S., Modrý D. & Bryja J. 2019. Multiple radiations of spiny mice (Rodentia: Acomys) in dry open habitats of Afro-Arabia: evidence from a multi-locus phylogeny. BMC Evolutionary Biology 19: 69.
  3. Bandelt H., Forster P. & Röhl A. 1999. Median-joining networks for inferring intraspecific phylogenies. Molecular Biology and Evolution 16 (1): 37-48.
  4. Barome P. O., Lymberakis P., Monnerot M. & Gautun J. C. 2001. Cytochrome b sequences reveal Acomys minous (Rodentia: Muridae) paraphyly and answer the question about the ancestral karyotype of Acomys dimidiatus. Molecular Phylogenetics and Evolution 18: 37-46.
  5. Bates P. J. J. 1994. The distribution of Acomys (Rodentia: Muridae) in Africa and Asia. Israel Journal of Ecology and Evolution 40: 199-214.
  6. Beerli P. 2009. How to use MIGRATE or why are Markov chain Monte Carlo programs difficult to use? In: Bertorelle G., Bruford M. W., Hauffe H. C., Rizzoli A. & Vernesi C. (Eds): Population Genetics for Animal Conservation. Cambridge: Cambridge University Press, pp. 79-92.
  7. Beerli P. & Felsenstein J. 2001. Maximum likelihood estimation of a migration matrix and effective population sizes in n subpopulations by using a coalescent approach. Proceedings of the National Academy of Sciences of the USA 98 (8): 4563-4568.
  8. Bouckaert R., Vaughan T. G., Barido-Sottani J., Duchêne S., Fourment M., Gavryushkina A., Heled J., Jones G., Kühnert D., De Maio N., Matschiner M., Mendes F. K., Müller N. F., Ogilvie H. A., Du Plessis L., Popinga A., Rambaut A., Rasmussen D. A., Siveroni I., Suchard M. A., Wu C., Xie D., Zhang C., Stadler T. & Drummond A. J. 2019. BEAST 2.5: An advanced software platform for Bayesian evolutionary analysis. PLoS Computational Biology 15 (4): e1006650.
  9. Bradley R. D. & Baker R. J. 2001. A test of the genetic species concept: cytochrome b sequences and mammals. Journal of Mammalogy 82 (4): 960-973.
  10. Çetintaş O., Matur F. & Sözen M. 2017. Distribution and conservation of Acomys cilicicus (Mammalia: Rodentia) in Türkiye. Turkish Journal of Zoology 41: 1059-1068.
  11. Darriba D., Taboada G. L., Doallo R. & Posada D. 2012. jModelTest 2: more models, new heuristics and parallel computing. Nature Methods 9 (8): 772-772.
  12. Frynta D., Palupčíková K., Bellinvia E., Benda P., Skarlantová H., Schwarzová L. & Modrý D. 2010. Phylogenetic relationships within the cahirinus-dimidiatus group of the genus Acomys (Rodentia: Muridae): new mitochondrial lineages from Sahara, Iran and the Arabian Peninsula. Zootaxa 2636: 46-56.
  13. Gaffney D. 2021. Pleistocene water crossings and adaptive flexibility within the Homo genus. Journal of Archaeological Research 29: 255-326.
  14. Giagia-Athanasopoulou E. B., Rovatsos M. T. H., Mitsainas G. P., Martimianakis S., Lymberakis P., Angelou L. X. D., Marchal J. A. & Sánchez A. 2011. New data on the evolution of the Cretan spiny mouse, Acomys minous (Rodentia: Murinae), shed light on the phylogenetic relationships in the cahirinus group. Biological Journal of the Linnean Society 102: 498-509.
  15. Guindon S. J., Dufayard F., Lefort V., Anisimova M., Hordijk W. & Gascuel O. 2010. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Systematic Biology 59: 307-321.
  16. Hall T. A. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41: 95-98.
  17. Irwin D., Kocher T. & Wilson A. 1991. Evolution of the cytochrome b gene of mammals. Journal of Molecular Evolution 32: 128-144.
  18. Kaya Özdemirel B., Çetintaş O., Sözen M., Çoğal M. & Matur F. 2022. Modelling distribution of Asia Minor spiny mouse (Acomys cilicicus) using maximum entropy. International Journal of Environment and Geoinformatics 9: 118-125.
  19. Kıvanç E., Sözen M., Çolak E. & Yiğit N. 1997. Karyological and phallic aspects of the spiny mouse, Acomys cilicicus Spitzenberger 1978 (Rodentia: Muridae) in Türkiye. Turkish Journal of Zoology 21: 167-169.
  20. Kıvanç E., Eyison H. M., Kiralp S. & Ekim O. 2013. Reproductive biology of Acomys cilicicus Spitzenberger 1978 (Rodentia: Muridae) in Türkiye. Turkish Journal of Zoology 37: 133-142.
  21. Kryštufek B. & Vohralík V. 2009. Mammals of Turkey and Cyprus. Rodentia II: Cricetinae, Muridae, Spalacidae, Calomyscidae, Capromyidae, Hystricidae, Castoridae. Koper: Annales Majora. 292 p.
  22. Lee C. E. 2002. Evolutionary genetics of invasive species. Trends in Ecology and Evolution 17 (8): 386-391.
  23. Lehmann E. von. 1966. Ein Nachweis der Stachelmaus (Acomys cahirinus) in der Türkei. Zoologische Beiträge 12: 465-467.
  24. Librado P. & Rozas J. 2009. DnaSP v5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452.
  25. Macholán M., Zima J., Cervená A. & Cervený J. 1995. Karyotype of Acomys cilicicus Spitzenberger 1978 (Rodentia: Muridae). Mammalia 59: 397-402.
  26. Rambaut A. 2009. FigTree version 1.3.1. Available online:
  27. http://tree.bio.ed.ac.uk (accessed on 15 April 2025).
  28. Rambaut A. & Drummond A. J. 2009. Tracer version 1.5. Available online:
  29. http://beast.bio.ed.ac.uk (accessed on 15 April 2025).
  30. Renaud S., Hardouin E. A., Chevret P., Papayiannis K., Lymberakis P., Matur F., Garcia-Rodriguez O., Andreou D., Çetintaş O., Sözen M., Hadjisterkotis E. & Mitsainas G. P. 2020. Morphometrics and genetics highlight the complex history of Eastern Mediterranean spiny mice. Biological Journal of the Linnean Society 130 (3): 599-614.
  31. https://doi.org/10.1093/biolinnean/blaa063
  32. Simmons A. 2012. Archaeology: Mediterranean island voyages. Science 338 (6109): 895-897.
  33. https://doi.org/10.1126/science.1228880
  34. Spitzenberger F. 1978. Die Stachelmaus von Kleinasien, Acomys cilicicus n. sp. (Rodentia: Muridae). Annalen des Naturhistorischen Museums in Wien 81: 443-446.
  35. Tamura K., Stecher G. & Kumar S. 2011. MEGA11: molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution 38: 3022-3027.
  36. Wilson D. E. & Reeder D. M. 2005. Mammal Species of the World: A Taxonomic and Geographic Reference, 3rd edition. Baltimore: The Johns Hopkins University Press. 2142 p.