Molecular phylogeny of the subgenus Syrrhophus (Amphibia: Anura: Eleutherodactylidae), with the description of a new species from Eastern Mexico

References

• AmphibiaWeb. (2021). AmphibiaWeb: Information on Amphibian Biology and Conservation (Accessed 21 April 2021). Electronic Database accessible at: http://amphibiaweb.org. Berkeley, California, USA.
   Google Scholar
• Bioacoustics Research Program. (2013). Raven Pro: Interactive Sound Analysis Software (Version 1.5) [Computer Software]. The Cornell Lab of Ornithology.
   Google Scholar
• Blackburn, D. C., Keeffe, R. M., Vallejo-Pareja, M. C., & Vélez-Juarbe, J. (2020). The earliest record of Caribbean frogs: a fossil coquí from Puerto Rico. Biology Letters, 16(4), 20190947. https://doi.org/10.1098/rsbl.2019.0947
   PubMed Web of Science ®Google Scholar
• Canedo, C., & Haddad, C. F. B. (2012). Phylogenetic relationships within anuran clade Terrarana, with emphasis on the placement of Brazilian Atlantic rainforest frogs genus Ischnocnema (Anura: Brachycephalidae). Molecular Phylogenetics and Evolution, 65(2), 610–620.
   PubMed Web of Science ®Google Scholar
• Clark, K., Karsch-Mizrachi, I., Lipman, D. J., Ostell, J., & Sayers, E. W. (2016). GenBank. Nucleic Acids Res, 44(D1), D67–D72. https://doi.org/10.1093/nar/gkv1276
   PubMed Web of Science ®Google Scholar
• Duellman, W. E. (1958). A Review of the Frogs of the Genus Syrrhophus in Western Mexico (Vol 1958, pp 1–18). Occasional papers of the Museum of Zoology University of Michigan
   Google Scholar
• Dugo-Cota, A., Vilá, C., Rodríguez, A., & González-Voyer, A. (2019). Ecomorphological convergence in Eleutherodactylus frogs: a case of replicate radiations in the Caribbean. Ecology Letters, 22(5), 884–893. https://doi.org/10.1111/ele.13246
   PubMed Web of Science ®Google Scholar
• Firschein, I. L. (1954). Definition of some little-understood members of the leptodactylid genus Syrrhophus, with a description of a new species. Copeia, 1954(1), 48–58. https://doi.org/10.2307/1440637
   Google Scholar
• Frost, D. R., Grant, T., Faivovich, J., Bain, R. H., Haas, A., Haddad, C. F. B., De Sa, R. O., Channing, A., Wilkinson, M., Donnellan, S. C., Raxworthy, C. J., Campbell, J. A., Blotto, B. L., Moler, P., Drewes, R. C., Nussbaum, R. A., Lynch, J. D., Green, D. M., & Wheeler, W. C. (2006). The amphibian tree of life. Bulletin of the American Museum of Natural History, 297, 1–371. https://doi.org/10.1206/0003-0090(2006)297[0001:TATOL2.0.CO;2]
   Web of Science ®Google Scholar
• Frost, D. R. (2021). Amphibian Species of the World: An Online Reference. Version 6.0 (Accessed 21 April 2021). Electronic Database accessible at http://research.amnh.org/herpetology/amphibia/index.html. American Museum of Natural History, New York, USA.
   Google Scholar
• Grünwald, C. I., Reyes-Velasco, J., Franz-Chávez, H., Morales-Flores, K. I., Ahumada-Carrillo, I. T., Jones, J. M., & Boissinot, S. (2018). Six new species of Eleutherodactylus (Anura: Eleutherodactylidae: subgenus Syrrhophus) from Mexico, with a discussion of their systematic relationships and the validity of related species. Mesoamerican Herpetology, 5, 6–83.
   Google Scholar
• Grünwald, C. I., Reyes-Velasco, J., Franz-Chávez, H., Morales-Flores, K. I., Ahumada-Carrillo, I. T., Rodríguez, C. M., & Jones, J. M. (2021). Two new species of Eleutherodactylus (Anura: Eleutherodactylidae) from Southern Mexico, with comments on the taxonomy of related species and their advertisement calls. Amphibian & Reptile Conservation, 15, 1–35.
   Web of Science ®Google Scholar
• Hammer, O., Harpe, D. A. T., & Ryan, P. D. (2015). PAST: Paleontological Statistics software package for education and data analysis. Paleontological Electronica, 4, 1–9.
   Google Scholar
• Hedges, S. B. (1989). Evolution and biogeography of West Indian Frogs of the genus Eleutherodactylus: Slow-evolving loci and the major groups. In C.A. Woods (Ed.), Biogeography of the West Indies: Past, Present, and Future. (pp. 305–370). Sandhill Crane Press.
   Google Scholar
• Hedges, S. B., Duellman, W. E., & Heinicke, M. P. (2008). New World direct-developing frogs (Anura: Terrarana): Molecular phylogeny, classification, biogeography, and conservation. Zootaxa, 1737(1), 1–182. https://doi.org/10.11646/zootaxa.1737.1.1
   Google Scholar
• Heinicke, M. P., Duellman, W. E., & Hedges, S. B. (2007 Major Caribbean and Central American frog faunas originated by ancient oceanic dispersal [Paper presentation]. Proceedings of the National Academy of Sciences, 104, 10092–10097.
   Google Scholar
• Katoh, K., Rozewicki, J., & Yamada, K. D. (2019). MAFFT online service: multiple sequence alignment, interactive sequence choice and visualisation. Briefings in Bioinformatics, 20(4), 1160–1166. https://doi.org/10.1093/bib/bbx108
   PubMed Web of Science ®Google Scholar
• Köhler, G. (2012). Color Catalogue for Field Biologists. Bilingual Edition: English/Español. Herpeton.
   Google Scholar
• Köhler, J., Jansen, M., Rodríguez, A., Kok, P. J. R., Toledo, L. F., Emmrich, M., Glaw, F., Haddad, C. F. B., Rödel, M. O., & Vences, M. (2017). The use of bioacoustics in anuran taxonomy: theory, terminology, methods and recommendations for best practice. Zootaxa, 4251(1), 1–124. https://doi.org/10.11646/zootaxa.4251.1.1
   PubMed Web of Science ®Google Scholar
• 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(6), 1547–1549.
   PubMed Web of Science ®Google Scholar
• Lanfear, R., Calcott, B., Ho, S. Y., & Guindon, S. (2012). PartitionFinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Molecular Biology and Evolution, 29(6), 1695–1701. https://doi.org/10.1093/molbev/mss020
   PubMed Web of Science ®Google Scholar
• Lemos-Espinal, J. A., Smith, H. M., Dixon, J. R., & Cruz, A. (2015). Anfibios y reptiles de Sonora, Chihuahua y Coahuila, México (Vol. I). CONABIO.
   Google Scholar
• Lemos-Espinal, J. A., Smith, G. R., & Woolrich-Piña, G. A. (2018). Amphibians and reptiles of the state of San Luis Potosí, Mexico, with comparisons with adjoining states. ZooKeys, 753, 83–106. https://doi.org/10.3897/zookeys.753.21094
   Google Scholar
• Lynch, J. D. (1970). A Taxonomic Revision of the Leptodactylid Frog Genus Syrrhophus Cope. University of Kansas Publications, Museum of Natural History., 20, 1–45. https://doi.org/10.5962/bhl.part.2809
   Google Scholar
• Lynch, J. D., & Duellman, W. E. (1980). The Eleutherodactylus of the Amazonian Slopes of the Ecuadorian Andes (Anura: Leptodactylidae). The University of Kansas, Museum of Natural History, Miscellaneous Publication., 69, 1–86. https://doi.org/10.5962/bhl.title.16222
   Google Scholar
• Maddison, W. P., Maddison, D. R. (2019). Mesquite: a modular system for evolutionary analysis. Version 3.61. http://www.mesquiteproject.org.
   Google Scholar
• Meyer, C. P. (2003). Molecular systematics of cowries (Gastropoda: Cypraeidae) and diversification patterns in the tropics. Biological Journal of the Linnean Society, 79(3), 401–459. https://doi.org/10.1046/j.1095-8312.2003.00197.x
   Web of Science ®Google Scholar
• Miller, M. A., Pfeiffer, W., & Schwartz, T. (2010 Creating the CIPRES Science Gateway for inference of large phylogenetic trees [Paper presentation]. Proceedings of the Gateway Computing Environments Workshop, 2010, 1–8. https://doi.org/10.1109/GCE.2010.5676129
   Google Scholar
• Moritz, C., Schneider, C. J., & Wake, D. B. (1992). Evolutionary Relationships Within the Ensatina eschscholtzii Complex Confirm the Ring Species Interpretation. Systematic Biology, 41(3), 273–291. https://doi.org/10.1093/sysbio/41.3.273
   Web of Science ®Google Scholar
• Müller, K., Müller, J., Neinhuis, C., Quandt, D. (2010). PhyDE–Phylogenetic Data Editor, version 0.9971. Program distributed by the authors. http://www.phyde.de
   Google Scholar
• Padial, J. M., Grant, T., & Frost, D. R. (2014). Molecular systematics of terraranas (Anura: Brachycephaloidea) with an assessment of the effects of alignment and optimality criteria. Zootaxa, 3825, 1–132. https://doi.org/10.11646/zootaxa.3825.1.1
   PubMed Web of Science ®Google Scholar
• Palacios-Aguilar, R., & Santos-Bibiano, R. (2020). A new species of direct-developing frog of the genus Eleutherodactylus (Anura: Eleutherodactylidae) from the Pacific lowlands of Guerrero, Mexico. Zootaxa, 4750(2), zootaxa.4750.2.8–260. https://doi.org/10.11646/zootaxa.4750.2.8
   Web of Science ®Google Scholar
• Palumbi, S., Martin, A., Romano, S., McMillan, W. O., Stice, L., & Grabowski, G. (1991). The simple fool’s guide to PCR. Version 2.0. Department of Zoology and Kewalo Marine Laboratory, University of Hawaii.
   Google Scholar
• Peters, W. C. H. (1870). Über neue Amphien (Hemidactylus, Urosaura, Tropdolepisma, Geophis, Uriechis, Scaphiophis, Hoplocephalus, Rana, Entomoglossus, Cystignathus, Hylodes, Arthroleptis, Phyllobates, Cophomantis) des Königlich Zoologisch Museum [About new Amphias (Hemidactylus, Urosaura, Tropdolepisma, Geophis, Uriechis, Scaphiophis, Hoplocephalus, Rana, Entomoglossus, Cystignathus, Hylodes, Arthroleptis, Phyllobates, Cophomantis) of the Royal Zoological Museum]. Monatsberichte der Königlichen Preussische Akademie des Wissenschaften zu Berlin., 1870, 641–652.
   Google Scholar
• Rambaut, A., Drummond, A. J., Xie, D., Baele, G., & Suchard, M. A. (2018). Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7. Systematic Biology, 67(5), 901–904. https:// https://doi.org/10.1093/sysbio/syy032
   PubMed Web of Science ®Google Scholar
• Rambaut, A. (2007). FigTree (Version 1.4.3). [Computer software]. http://tree.bio.ed.ac.uk/software/figtree/
   Google Scholar
• Reyes-Velasco, J., Ahumada-Carrillo, I., Burkhard, T. R., & Devitt, T. J. (2015). Two new species of Eleutherodactylus (subgenus Syrrhophus) from western Mexico. Zootaxa, 3914(3), 301–317. https://doi.org/10.11646/zootaxa.3914.3.4
   PubMed Web of Science ®Google Scholar
• Ronquist, F., Teslenko, M., Van Der Mark, P., Ayres, D. L., Darling, A., Höhna, S., Larget, B., Liu, L., Suchard, M., & Huelsenbeck, J. P. (2012). MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology, 61(3), 539–542. https://doi.org/10.1093/sysbio
   PubMed Web of Science ®Google Scholar
• RStudio Team. (2016). RStudio: Integrated Development Environment for R. RStudio, Inc., Boston, MA. http://www.rstudio.com/
   Google Scholar
• Sambrook, J., & Russell, D. W. (2006). c Cold Spring Harbor Protocols, 2006(1), pdb.prot4455. https://doi.org/10.1101/pdb.prot4455
   Google Scholar
• Serrano, J. M., & Penna, M. (2018). Sexual monomorphism in the advertisement calls of a Neotropical frog. Biological Journal of the Linnean Society, 123(2), 388–401. https://doi.org/10.1093/biolinnean/blx141
   Web of Science ®Google Scholar
• Stamatakis, A. (2014). RAxML Version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics (Oxford, England), 30(9), 1312–1313. https://doi.org/10.1093/bioinformatics/btu033
   PubMed Web of Science ®Google Scholar
• Sueur, J., Aubin, T., & Simonis, C. (2008). Seewave, a free modular tool for sound analysis and synthesis. Bioacoustics, 18(2), 213–226. https://doi.org/10.1080/09524622.2008.9753600
   Web of Science ®Google Scholar
• Taylor, E. H. (1943). Herpetological novelties from Mexico. University of Kansas Science Bulletin, 29, 343–361.
   Google Scholar
• Taylor, E. H., & Smith, H. M. (1945 Summary of the collections of amphibians made in México under the Walter Rathbone Bacon traveling scholarship [Paper presentation]. Proceedings of the United States National Museum, 95, 521–613.
   Google Scholar