Abstract
A new gekkonid lizard, Cyrtodactylus maelanoi sp. nov., from Mae Hong Son Province of the Thai Highlands is described using an integrative taxonomic analysis based on morphology, color pattern, and the mitochondrial gene NADH dehydrogenase subunit 2 (ND2) and its flanking tRNAs. Phylogenetic analyses place the new species within clade 1 of the C. sinyineensis group and as the sister species to C. inthanon with an uncorrected pairwise sequence divergence of 3.9%. Collection data gathered in the field indicate that C. maelanoi sp. nov. is a habitat generalist. Reconstruction of the ancestral habitat preference for the C. sinyineensis group by way of stochasitc character mapping (SCM) indicates that karstic environments were the ancestral condition out of which the general habitat preference of the ancestor of C. maelanoi sp. nov. and C. inthanon and that of C. amphipetreaus and C. doisuthep evolved three times independently. Additionally, SCM demonstrated that the evolution of a granitic habitat preference from a karst-adapted ancestor happened in C. aequalis. The discovery of a new upland species in the Thai Highlands brings into focus the understudied nature of the mountain systems of western Thailand and the need for their continued exploration and conservation.
References
Barraclough, T.G., Birky, C.W. Jr. & Burt, A. (2003) Diversification in sexual and asexual organisms. Evolution, 57, 2166–2172.
https://doi.org/10.1554/02-339
Chomdej, S., Suwannapoom, C., Pawangkhanant, P., Pradit, W., Nazarov, R.A., Grismer, L.L. & Poyarkov, N.A. (2020) A new species Cyrtodactytlus Gray (Squamata: Gekkonidae) from western Thailand and the phylogenetic placement of C. inthanon and C. doisuthep. Zootaxa, 4838 (2), 179–209.
https://doi.org/10.11646/zootaxa.4838.2.2
Coyne, J.A. & Orr, H.A. (1998) The evolutionary genetics of speciation. Philosophical Transactions of the Royal Society of London B, 353, 287–305.
https://doi.org/10.1098/rstb.1998.0210
De Queiroz, K. (2007) Species concepts and species delimitation. Systematic Biology, 56, 879–886.
https://doi.org/10.1080/10635150701701083
Drummond, A.J., Suchard, M.A., Xie, D. & Rambaut, A. (2012) Bayesian Phylogenetics with BEAUti and BEAST 1.7. Molecular Biology and Evolution, 29, 1969–1973.
https://doi.org/10.1093/molbev/mss075
Fontaneto, D., Herniou, E.A., Boschetti, C., Caprioli, M., Melone, G., Ricci, C. & Barrenclough, T.G. (2007) Independently evolving species in asexual bdelloid rotifers. PLoS Biology, 5, e87.
https://doi.org/10.1371/journal.pbio.0050087
Grismer, L.L., Wood Jr., P.L., Le, M.D., Quah, E.S.H. & Grismer, J.L. (2020b) Evolution of habitat preference in 239 species of Bent-toed geckos (Genus Cyrtodactylus Gray, 1827) with a discussion of karst habitat conservation. Ecology & Evolution. [in press]
Grismer, L.L., Wood Jr., P.L., Thura, M.K., Zin, T., Quah, E.S.H., Murdoch, M.L., Grismer, M.S., Lin, A., Kyaw, H & Ngwe, L. (2018a) Twelve new species of Cyrtodactylus Gray (Squamata: Gekkonidae) from isolated limestone habitats in east-central and southern Myanmar demonstrate high localized diversity and unprecedented microendemism. Zoological Journal of the Linnean Society, 182, 862–959.
https://doi.org/10.1093/zoolinnean/zlx057
Grismer, L.L., Wood Jr., P.L., Quah, E.S.H., Grismer, M.S., Thura, M.K., Oaks, J.R. & Lin, A. (2020a) Two new species of Cyrtodactylus Gray, 1827 (Squamata: gekkonidae) from a karstic archipelago in the Salween Basin of southern Myanmar (Burma). Zootaxa, 4718 (2), 151–183.
https://doi.org/10.11646/zootaxa.4718.2.1
Grismer, L.L., Wood Jr., P.L., Thura, M.K., Quah, E.S.H., Grismer, M.S., Murdoch, M.L., Espinoza, R.E. & Lin, A. (2018b) A new Cyrtodactylus Gray (Squamata, Gekkonidae) from the Shan Hills and the biogeography of Bent-toed Geckos from eastern Myanmar. Zootaxa, 4446, 477–500.
https://doi.org/10.11646/zootaxa.4446.4.4
Hillis, D.M. (2019) Species delimitation in herpetology. Journal of Herpetology, 53, 3–12.
https://doi.org/10.1670/18-123
Hoang, D.T., Chernomor, O., von Haeseler, A., Minh, B.Q. & Vinh, L.S. (2018) UFBoot2: Improving the ultrafast bootstrap approximation. Molecular Biology and Evolution, 35, 518–522.
https://doi.org/10.1093/molbev/msx281
Huelsenbeck, J.P., Ronquist, F., Nielsen, R. & Bollback, J.P. (2001) Bayesian Inference of Phylogeny and Its Impact on Evolutionary Biology. Science, 294, 2310–2314.
https://doi.org/10.1126/science.1065889
Jombart, T., Devillard, S. & Balloux, F. (2010) Discriminant analysis of principal components: a new method for the analysis of genetically structured populations. BMC Genetics, 11, 94.
https://doi.org/10.1186/1471-2156-11-94
Kalyaanamoorthy, S., Minh, B.Q., Wong, T.K., von Haeseler, A. & Jermiin, L.S. (2017) ModelFinder: fast model selection for accurate phylogenetic estimates. Nature methods, 14, 587.
https://doi.org/10.1038/nmeth.4285
Katoh, K., Misawa, K., Kuma, K. I., & Miyata, T. (2002). MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic acids research, 30(14), 3059-3066
https://doi.org/10.1093/nar/gkf436
Knowles, L.L. & Carstens, B.C. (2007) Delimiting species without monophyletic gene trees. Systematic Biology, 56, 887–895.
https://doi.org/10.1080/10635150701701091
Kumar, S., Stecher, G. & Tamura, K. (2016) MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology and Evolution, 33, 1870–1874.
https://doi.org/10.1093/molbev/msw054
Kunya, K., Panmongkol, A., Pauwels, O.S.G., Sumontha, M., Meewasana, J., Bunkhwamdi, W. & Dangsri, S. (2014) A new forest-dwelling Bent-toed Gecko (Squamata: Gekkonidae: Cyrtodactylus) from Doi Suthep, Chiang Mai Province, northern Thailand. Zootaxa, 3811 (2), 251–261.
https://doi.org/10.11646/zootaxa.3811.2.6
Kunya, K., Sumontha, M., Panitvong, N., Dongkumfu, W., Sirisamphan, T. & Pauwels, O.S.G. (2015) A new forest-dwelling Bent-toed Gecko (Squamata: Gekkonidae: Cyrtodactylus) from Doi Inthanon, Chiang Mai Province, northern Thailand. Zootaxa, 3905 (4), 573–584.
https://doi.org/10.11646/zootaxa.3905.4.9
Leaché, A.D., Koo, M.S., Spencer, C.L., Papenfuss, T.J., Fisher, R.N. & McGuire, J.A. (2009) Quantifying ecological, morphological, and genetic variation to delimit species in the coast horned lizard species complex (Phrynosoma). Proceedings of the National Academy of Sciences, 106, 12418–12423.
https://doi.org/10.1073/pnas.0906380106
Linkem, C.W., Hesed, K.M., Diesmos, A.C. & Brown, R.M. (2010) Species boundaries and cryptic lineage diversity in a Philippine forest skink complex (Reptilia; Squamata; Scincidae: Lygosominae). Molecular Phylogenetics and Evolution, 56, 572–585.
https://doi.org/10.1016/j.ympev.2010.03.043
Macey, J.R., Larson, A., Ananjeva, N.B., Fang, Z. & Papenfuss, T.J. (1997) Two novel gene orders and the role of light-strand replication in rearrangement of the vertebrate mitochondrial genome. Molecular Biology and Evolution, 14, 91–104.
https://doi.org/10.1006/mpev.1997.0478
Maddison, W.P. & Maddison, D.R. (2015) Mesquite: a modular system for evolutionary analysis. Version 3.04. Available from: http://www.mesquiteproject.org (accessed 25 August 2020)
https://doi.org/10.1093/sysbio/42.2.218
Miller, M.A., Pfeiffer, W. & Schwartz, T. (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Proceedings of the Gateway Computing Environments Workshop (GCE), New Orleans, Louisiana, 14 November 2010, 1–8.
https://doi.org/10.1109/GCE.2010.5676129
Minh, Q., Nguyen, M.A.T. & von Haeseler, A. (2013) Ultrafast approximation for phylogenetic bootstrap. Molecular Biology and Evolution, 30, 1188–1195.
https://doi.org/10.1093/molbev/mst024
Nguyen, L.-T., Schmidt, H.A., von Haeseler, A. & Minh, B.Q. (2015) IQ-TREE: A fast and effective stochastic algorithm for estimating maximum likelihood phylogenies. Molecular Biology and Evolution, 32, 268–274.
https://doi.org/10.1093/molbev/msu300
Paradis, E. & Schliep, K. (2018) ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R. Bioinformatics, 35, 526–528.
https://doi.org/10.1093/bioinformatics/bty633
R Core Team. (2018) R: A language and environment for statistical computing. R
Foundation for Statistical Computing. Vienna. Available from: http://www.R-project.org (accessed 29 December 2018)
Rambaut, A., Drummond, A.J. (2013) TreeAnnotator v1.8.0 MCMC Output Analysis.
https://doi.org/10.1017/cbo9780511819049.020
Rambaut, A., Suchard, M.A., Xie, D. & Drummond, A.J. (2014) Tracer v1.6. https://doi.org/10.1093/sysbio/syy032
Revell, LJ. (2012) Phytools: An R package for phylogenetic comparative biology (and other things), Methods in Ecology and Evolution, 3, 217–223.
https://doi.org/10.1111/j.2041-210x.2011.00169.x
Sabaj, M.H. (2016) Standard symbolic codes for institutional resource collections in herpetology and ichthyology: an Online Reference. Version 6.5. 16 August 2016. American Society of Ichthyologists and Herpetologists, Washington, D.C. Electronically accessible. Available from: http://www.asih.org/ (accessed 25 August 2020)
Trifinopoulos, J., Nguyen, L.-T., von Haeseler, A. & Minh, B.Q. (2016) W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis. Nucleic Acids Research, 44, W232–W235.
https://doi.org/10.1093/nar/gkw256
Uetz, P., Freed, P. & Hošek, J. (Eds.) (2020) The Reptile Database. Available from: http://www.reptile-database.org, accessed (accessed 11 May 2020)
Wilcox, T.P., Zwickl, D.J., Heath, T.A. & Hillis, D.M. (2002) Phylogenetic relationships of the Dwarf Boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Molecular Phylogenetics and Evolution, 25, 361–371.
https://doi.org/10.1016/S1055-7903(02)00244-0