Biodiversity Literature Repository
Published July 18, 2023 | Version v1
Journal article Restricted

Notes from the Anatolian underground: two new mole taxa from Eastern Turkey, together with a revised phylogeny of the genus Talpa (Mammalia: Eulipotyphla: Talpidae)

Creators

  • 1. Department of Biology, Faculty of Sciences, Ondokuz Mayıs University, Samsun, Turkey
  • 2. Department of Earth & Atmospheric Sciences, Indiana University, Bloomington, IN, USA
  • 3. School of Biological and Marine Sciences, University of Plymouth, Drake Circus, Plymouth PL4 8AA, Devon, UK & Department of Zoology, University of Johannesburg, PO Box 524, Auckland Park, Johannesburg 2006, South Africa

Description

Gündüz, İslam, Demirtaş, Sadık, Silsüpür, Metin, Özmen, Medine, Polly, P. David, Bilton, David T. (2023): Notes from the Anatolian underground: two new mole taxa from Eastern Turkey, together with a revised phylogeny of the genus Talpa (Mammalia: Eulipotyphla: Talpidae). Zoological Journal of the Linnean Society 199 (3): 567-593, DOI: 10.1093/zoolinnean/zlad049, URL: http://dx.doi.org/10.1093/zoolinnean/zlad049

Files

Restricted

The record is publicly accessible, but files are restricted to users with access.

Linked records

Additional details

Has part
Taxonomic treatment: http://treatment.plazi.org/id/03F787F4FFCF61102F14FC72FBBD0068 (URL)
Taxonomic treatment: http://treatment.plazi.org/id/03F787F4FFC8610E2D4DF916FF4001B1 (URL)
Taxonomic treatment: http://treatment.plazi.org/id/03F787F4FFD6610A2DFEF92AFDFC0783 (URL)
Taxonomic treatment: http://treatment.plazi.org/id/03F787F4FFD2610A2F01FE17FADC055D (URL)
Figure: 10.5281/zenodo.10469938 (DOI)
Figure: 10.5281/zenodo.10469940 (DOI)
Figure: 10.5281/zenodo.10469942 (DOI)
Figure: 10.5281/zenodo.10469944 (DOI)
Figure: 10.5281/zenodo.10469946 (DOI)
Figure: 10.5281/zenodo.10469948 (DOI)
Figure: 10.5281/zenodo.10469950 (DOI)
Figure: 10.5281/zenodo.10469952 (DOI)
Figure: 10.5281/zenodo.10469954 (DOI)
Figure: 10.5281/zenodo.10469956 (DOI)
Figure: 10.5281/zenodo.10469958 (DOI)
Figure: 10.5281/zenodo.10469962 (DOI)
Figure: 10.5281/zenodo.10469964 (DOI)

References

  • Ahrens D,Fujisawa T,Krammer H, et al. Rarity and incomplete sampling in DNA-based species delimitation.Systematic Biology 2016;65:478-94.
  • Aleix-Mata G, Gutierrez J, Ruiz-Ruano FJ, et al. The complete mitochondrial genome of Talpa aquitania (Talpidae; Insectivora), a mole species endemic to northern Spain and southern France. Molecular Biology Reports 2020;47:2397-403.
  • Arrigoni R, Berumen ML, Chen CA, et al. Species delimitation in the reef coral genera Echinophyllia and Oxypora (Scleractinia, Lobophylliidae) with a description of two new species. Molecular Phylogenetics and Evolution 2016;105:146-59.
  • Baker RJ, Bradley RD. Speciation in mammals and the Genetic Species Concept. Journal of Mammalology 2006;87:643-62.
  • Bannikova AA, Zemlemerova ED, Colangelo P,et al. An underground burst of diversity-a new look at the phylogeny and taxonomy of the genus Talpa Linnaeus, 1758 (Mammalia: Talpidae) as revealed by nuclear and mitochondrialgenes.ZoologicalJournaloftheLinneanSociety 2015;175:930-48.
  • Begall S, Burda H, Schleich CE. Subterranean Rodents: News from underground. In: Begall S, Burda H, Schleich CE (eds), Subterranean Rodents. Berlin, Heidelberg: Springer, 2007:3-9.
  • Bensasson D,Zhang D,Hartl DL,et al.Mitochondrial pseudogenes:evolution's misplaced witnesses.Trends in Ecology and Evolution 2001;16:314-21.
  • Bookstein FL. Morphometric Tools for Landmark Data. Cambridge University Press. 1991:435.
  • Bouckaert R, Heled J, Kuhnert D, et al. BEAST 2: a sossware platform for Bayesian evolutionary analysis. PLoS Computational Biology 2014;10:e1003537.
  • Bradley RD, Baker RJ.A test of the Genetic Species Concept:cytochromeb sequences and mammals. Journal of Mammalogy 2001;82:960-73.
  • Burbrink FT, Crother BI, Murray CM, et al. Empirical and philosophical problems with the subspecies rank. Ecology and Evolution 2022;12:e9069.
  • Burgin CJ, Wilson DE, Miuermeier T, Rylands AB, Lacher TE, Sechrest W.Illustrated Checklist of the Mammals of the World. Barcelona, Spain: Lynx Edicions. 2020.
  • Carballo DA, Rossi MS. Integrative lineage delimitation in rodents of the Ctenomys corrientes group. Mammalia 2018;82:35-47.
  • Carotenuto AR, Guarracino F, Sumbera R, et al. Burrowing below ground: Interaction between soil mechanics and evolution of subterranean mammals. Journal of the Royal Society Interface 2020;17:1-13.
  • Carstens BC, Pelletier TA, Reid NM, et al. How to fail at species delimitation. Molecular Ecology 2013;22:4369-83.
  • Corbet GB. The Mammals of the Palaearctic Region. A Taxonomic Review. London and Ithaca (NY): British Museum (Natural History) and Cornell University Press. 1978.
  • Cracrass J. Species concepts and speciation analysis. Current Ornithology 1983;1:159-87.
  • Darriba D, Taboada GL, Doallo R, et al. jModelTest 2: more models, new heuristics and parallel computing. Nature Methods 2012;9:772.
  • Davies KTJ, Benneu NC, Tsagkogeorga G, et al. Family wide molecular adaptations to underground life in African mole-rats revealed by phylogenomic analysis. Molecular Biology and Evolution 2015;32:3089-107.
  • Dellicour S, Flot JF. Delimiting species-poor datasets using single molecular markers: a study of barcode gaps, haplowebs and GMYC. Systematic Biology 2015;64:900-8.
  • Dellicour S, Flot JF. The hitchhiker's guide to single-locus species delimitation. Molecular Ecology Resources 2018;18:1234-46.
  • Demirtas S, Silsupur M, Searle JB, et al. What should we call the Levant mole? Unravelling the systematics and demography of Talpa levantis Thomas, 1906 sensu lato (Mammalia: Talpidae). Mammalian Biology 2020;100:1-18.
  • Demirtas S, Budak M, Korkmaz EM, et al. The complete mitochondrial genome of Talpa martinorum (Mammalia: Talpidae), a mole species endemic to Thrace:genome content and phylogenetic considerations. Genetica 2022;150:317-25.
  • Dogramaci S. Taxonomy and distribution of moles (genus: Talpa) in Turkey. Doga TU Zooloji 1989;13:204-219 [in Turkish].
  • Dryden IL, Mardia KV. Statistical Shape Analysis. Chichester, U.K.: John Wiley and Sons, 1998:347.
  • D'Elia G, Teta P, Lessa EP. A short overview of the systematics of Ctenomys: Species limits and phylogenetic relationships. In: de Fretas TRO, Lopes GG, Maestri R (eds), Tuco-Tucos. Nature Switzerland: Springer, 2021:17-41.
  • Dubey S, Michaux J, Brunner H, et al. False phylogenies on wood mice due to cryptic cytochrome- b pseudogene. Molecular Phylogenetics and Evolution 2009;50:633-41.
  • Excoffier L, Lischer HE. Arlequin suite v.3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Molecular Ecology Resources 2010;10:564-7.
  • Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783-91.
  • Fujisawa T, Barraclough TG.Delimiting species using single locus data and the generalized mixed Yule coalescent approach: a revised method and evaluation on simulated datasets. Systematic Biology 2013;62:707-24.
  • Groves CP, Couerill FPD, Gippoliti S, et al. Species definitions and conservation: a review and case studies from African mammals. Conservation Genetics 2017;18:1247-56.
  • Gutierrez J, Lamelas L, Aleix-Mata G, et al. Complete mitochondrial genome of the Iberian mole Talpa occidentalis (Talpidae, Insectivora) and comparison with Talpa europaea. Genetica 2018;146:415-23.
  • He K, Shinohara A, Jiang XL, et al. Multilocus phylogeny of talpine moles (Talpini, Talpidae, Eulipotyphla) and its implications for systematics. Molecular Phylogenetics and Evolution 2014;70:513-21.
  • He K, Shinohara A, Helgen KM, et al. Talpid mole phylogeny unites shrew moles and illuminates overlooked cryptic species diversity. Molecular Biology and Evolution 2017;34:78-87.
  • Huuerer R. Order Soricomorpha. In: Wilson DE, Reeder DM (eds), Mammal Species of the World, Vol. 1, 3rd edn, Baltimore: Johns Hopkins University Press, 2005:220-311.
  • Irwin DM, Kocher TD, Wilson AC. Evolution of the cytochrome b gene of mammals. Journal of Molecular Evolution 1991;32:128-44.
  • Jaarola M, Searle JB. Phylogeography of field voles (Microtus agrestis) in Eurasia inferred from mitochondrial DNA sequences. Molecular Ecology 2002;11:2613-21.
  • Ji Y, Yang J, Landis JB, et al. Deciphering the Taxonomic Delimitation of Ottelia acuminate (Hydrocharitaceae) using complete plastomes as super-barcodes. Frontiers in Plant Science 2021;12:681270.
  • Jiang M, Shi L, Li X, et al. Genome-wide adaptive evolution to underground stresses in subterranean mammals: Hypoxia adaption, immunity promotion, and sensory specialization. Ecology and Evolution 2020;10:7377-88.
  • Kapli P, Luueropp S, Zhang J, et al. Multi-rate Poisson tree processes for single-locus species delimitation under maximum likelihood and Markov chain Monte Carlo. Bioinformatics 2017;33:1630-8.
  • Kefelioglu H, Krystufek B, Selcuk AY, et al. Taxonomic revision of the Levant moles of Turkey (Mammalia: Talpidae). Bonn Zoological Bulletin 2020;69:275-91.
  • Kekkonen M, Hebert PDN. DNA barcode-based delineation of putative species: efficient start for taxonomic workflows. Molecular Ecology Resources 2014;14:706-15.
  • Kimura M. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 1980;16:111-20.
  • Kishino H, Miyata T, Hasegawa M. Maximum likelihood inference of protein phylogeny and the origin of chloroplasts. Journal of Molecular Evolution 1990;31:151-60.
  • Krystufek B, Motokawa M. Family Talpidae (moles, desmans, star-nosed moles and shrew moles). In: Wilson DE, Lacher TA, Miuermeier T (eds), Handbook of the Mammals of the World, Vol. 8, Insectivores, sloths and colugos, Barcelona: Lynx Edicions, 2018:552-619.
  • Krystufek B, Vohralik V. Mammals of Turkey and Cyprus. Introduction, checklist, Insectivora. ZRS Koper, 2001.
  • Krystufek B, Vohralik V. Mammals of Turkey and Cyprus. Rodentia I. Sciuridae, Dipodidae, Gliridae, Arvicolinae. Koper, Slovenia: Knjiznica Annales Majora. 2005.
  • Krystufek B, Spitzenberger F, Kefelioglu H. Description, taxonomy and distribution of Talpa davidiana. Mammalian Biology 2001;66:135-43.
  • Krystufek B, Nedyalkov N, Astrin JJ, et al. News from the Balkan refugium: Thrace has an endemic mole species (Mammalia: Talpidae). Bonn Zoological Bulletin 2018;67:41-57.
  • Kumar S, Stecher G, Li M, et al. MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution 2018;35:1547-9.
  • Lacey EA. Spatial and social systems of subterranean rodents Eileen. In: Lacey EA, Pauon JL, Cameron GN (eds), Life Underground: The Biology of Subterranean Rodents. Chicago, USA:University of Chicago Press. 2000.
  • Lang AS, Bocksberger G, Stech M. Phylogeny and species delimitations in European Dicranum (Dicranaceae, Bryophyta) inferred from nuclear and plastid DNA. Molecular Phylogenetics and Evolution 2015;92:217-25.
  • Lay DM. A new species of mole (genus Talpa) from Kurdistan province, western Iran. Fieldiana: Zoology 1965;44:227-30.
  • Lay DM. A study of the mammals of Iran resulting from the Street expedition of 1962-63. Fieldiana: Zoology 1967;54:1-282.
  • Librado P, Rozas J. DnaSP v5: a sossware for comprehensive analysis of DNA polymorphism data. Bioinformatics 2009;25:1451-2.
  • Luo A, Ling C, Ho SYW, et al. Comparison of methods for molecular species delimitation across a range of speciation scenarios. Systematic Biology 2018;67:830-46.
  • Magoga G, Fontaneto D, Montagna M. Factors affecting the efficiency of molecular species delimitation in a species-rich insect family. Molecular Ecology Resources 2021;21:1475-89.
  • Mallo D, Posada D. Multilocus inference of species trees and DNA barcoding. Philosophical Transactions of The Royal Society B Biological Sciences 2016;371:20150335.
  • Meyer A, Kocher TD, Basasibwaki P, et al. Monophyletic origin of Lake Victoria cichlid fishes suggested by mitochondrial DNA sequences. Nature 1990;347:550-3.
  • Milne-Edwards A. Sur la Classification des Taupes de l'ancien continent. Comptes rendus des seances de Academie des Sciences 1884;99:1141-3.
  • Montoya-Sanhueza G, Saffa G, Sumbera R, et al. Fossorial adaptations in African mole-rats (Bathyergidae) and the unique appendicular phenotype of naked mole-rats. Communications Biology 2022;5:1-13.
  • Mouchaty SK, Gullberg A, Janke A, et al. The phylogenetic position of the Talpidae within Eutheria based on analysis of complete mitochondrial sequences. Molecular Biology and Evolution 2000;17:60-7.
  • Mutanen M, Kekkonen M, Prosser SWJ, et al. One species in eight: DNA barcodes from type specimens resolve a taxonomic quagmire. Molecular Ecology Resources 2015;15:967-84.
  • Nei M. Molecular Evolutionary Genetics. New York: Columbia University Press. 1987.
  • Nevo E. Adaptive convergence and divergence of subterranean mammals. Annual Review of Ecology and Systematics 1979;10:269-308.
  • Nicolas V, Martinez-Vargas J, Hugot J-P. Molecular data and ecological niche modelling reveal the evolutionary history of the common and Iberian moles (Talpidae) in Europe. Zoologica Scripta 2017a;46:12-26.
  • Nicolas V,Martinez-Vargas J,Hugot J-P.Talpa aquitania sp. nov.(Talpidae, Soricomorpha), a new mole species from SW France and N Spain. Mammalia 2017b;81:641-2.
  • Niethammer J. Zur Taxonomie europaischer Zwergmaulwurfe (Talpa 'mizura '). Bonner Zoologische Beitrage 1969;20:360-72.
  • Oates JF, Woodman N, Gaubert P, et al. A new species of tree hyrax (Procaviidae: Dendrohyrax) from West Africa and the significance of the Niger-Volta interfluvium in mammalian biogeography. Zoological Journal of the Linnean Society 2022;194:527-52.
  • Partha R, Chauhan BK, Ferreira Z, et al. Subterranean mammals show convergent regression in ocular genes and enhancers, along with adaptation to tunneling. eLife 2017;6:e25884.
  • Paz A, Crawford AJ. Molecular-based rapid inventories of sympatric diversity: a comparison of DNA barcode clustering methods applied to geography-based vs clade-based sampling of amphibians. Journal of Biosciences 2012;37:887-96.
  • Pentinsaari M, Vos R, Mutanen M. Algorithmic single-locus species delimitation: effects of sampling effort, variation and nonmonophyly in four methods and 1870 species of beetles. Molecular Ecology Resources 2017;17:393-404.
  • Peppers LL, Bradley RD. Cryptic species in Sigmodon hispidus: evidence from DNA sequences. Journal of Mammalogy 2000;81:332-43.
  • Pimm SL, Jenkins CN, Abell R, et al. The biodiversity of species and their rates of extinction,distribution, and protection.Science 2014;344:6187.
  • PollyPD.PhylogeneticsforMathematica,v.6.5.2019.hups://github.com/pdpolly/ Phylogenetics-for-Mathematica. (25January 2023,datelastaccessed).
  • Polly PD. Geometric Morphometrics for Mathematica, v.12.4. 2022. hups://github.com/pdpolly/Morphometrics-for-Mathematica. (25 January 2023, date last accessed).
  • Pons J, Barraclough TG, Gomez-Zurita J, et al. Sequence-based species delimitation for the DNA taxonomy of undescribed insects.Systematic Biology 2006;55:595-609.
  • Puillandre N, Lambert A, Brouillet S, et al. ABGD, automatic barcode gap discovery for primary species delimitation. Molecular Ecology 2012;21:1864-77.
  • Puillandre N, Brouillet S, Achaz G. ASAP: assemble species by automatic partitioning. Molecular Ecology Resources 2021;21:609-20.
  • RambautA,DrummondAJ,XieD,etal.PosteriorsummarisationinBayesian phylogenetics using Tracer 1.7. Systematic Biology 2018;67:901-4.
  • Rannala B, Yang Z. Species delimitation. In: Scornavacca C, Delsuc F, Galtier N (eds), Phylogenetics in the Genomic Era. No commercial publisher. Authors open access book 2020;5.5:1-18.
  • Rasband WS. ImageJ. Bethesda, Maryland, USA: U.S. National Institutes of Health, 2022. hups://imagej.nih.gov/ij/, 1997-2022.
  • Reid NM, Carstens BC. Phylogenetic estimation error can decrease the accuracy of species delimitation:a Bayesian implementation of the General Mixed Yule Coalescent model. BMC Evolutionary Biology 2012;12:196.
  • Renner MAM, Heslewood MM, Patzak SDF, et al. By how much do we underestimate species diversity of liverworts using morphological evidence? An example from Australasian Plagiochila (Plagiochilaceae: Jungermanniopsida). Molecular Phylogenetics and Evolution 2017;107:576-93.
  • Rohlf FJ, Slice D. Extensions of the Procrustes method for the optimal superimposition of landmarks. Systematic Zoology 1990;39:40-59.
  • Ronquist F, Teslenko M, van der Mark P, et al. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology 2012;61:539-42.
  • Sansalone G, Castiglione S, Raia P, et al. Decoupling functional and morphological convergence, the study case of fossorial mammalia. Frontiers in Earth Science 2020;8:112.
  • Savic I, Cirovic D, Bugarski-Stanojevic V. Exceptional chromosomal evolution and cryptic speciation of blind mole rats Nannospalax leucodon (Spalacinae, Rodentia) from South-Eastern Europe. Genes 2017;8:292.
  • Shimodaira H. An approximately unbiased test of phylogenetic tree selection. Systematic Biology 2002;51:492-508.
  • Shimodaira H, Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 1999;16:1114-6.
  • Sikes RS; Animal Care and Use Commiuee of the American Society of Mammalogists. Guidelines of the American Society of Mammalogists for the use of wild mammals in research and education. Journal of Mammalogy 2016;97:663-88.
  • Song H, Buhay JE,Whiting MF,et al. Many species in one, DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. The Proceedings of the National Academy of Sciences (PNAS) 2008;105:13486-91.
  • Sozen M, Matur F, Colak F, et al. Karyological characteristics, morphological peculiarities, and a new distribution locality for Talpa davidiana (Mammalia: Soricomorpha) in Turkey. Turkish Journal of Zoology 2012;36:806-13.
  • Stamatakis A. TxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014;30:1312-3.
  • Suchard MA, Lemey P, Baele G, et al. Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10. Virus Evolution 2018;4:vey016.
  • Swofford DL. PAUP*: phylogenetic analysis using parsimony (*and other methods), v.4. Sunderland: Sinauer Associates. 2002.
  • Tang Cº, Humphreys AM, Fontaneto D, et al. Effects of phylogenetic reconstruction method on the robustness of species delimitation using single-locus data. Methods in Ecology and Evolution 2014;5:1086-94.
  • Tautz D, Arctander P, Minelli A, et al. A plea for DNA taxonomy.Trends in Ecology and Evolution 2003;18:70-4.
  • Trifinopoulos J, Nguyen T-L, von Haeseler A, et al. W-Iº-TREE: a fast online phylogenetic tool for maximum likelihood analysis. Nucleic Acids Research 2016;44:W232-235.
  • Vogler AP, Monaghan MT. Recent advances in DNA taxonomy.Journal of Zoological Systematics and Evolutionary Research 2007;45:1-10.
  • Wang C, Agrawal S, Laudien J, et al. Discrete phenotypes are not underpinned by genome-wide genetic differentiation in the squat lobster Munida gregaria (Crustacea: Decapoda: Munididae): a multi-marker study covering the Patagonian shelf. BMC Evolutionary Biology 2016;16:258.
  • Zaitsev MV, Voita LL, Shessel BI. Mammals of the Fauna of Russia and Adjacent Territories. Insectivores. St. Petersburg. 2014:1-390 [in Russian].
  • Zelditch ML, Swiderski DL, Fink WL. Geometric Morphometrics for Biologists: a Primer, 2nd edn. San Diego: Academic Press, 2012:488.
  • Zhang J, Kapli P, Pavlidis P, et al. A general species delimitation method with applications to phylogenetic placements. Bioinformatics 2013;29:2869-76.
  • Ziegler AC. Dental homologies and possible relationships of recent Talpidae. Journal of Mammalogy 1971;52:50-68.