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      Pristimantis achupalla sp. n., a new minute species of direct-developing frog (Amphibia, Anura, Strabomantidae) inhabiting bromeliads of the montane forest of the Amazonian Andes of Puno, Peru

      research-article
      1 , 2 , 3 , , 4 , 5 , 6
      PeerJ
      PeerJ Inc.
      Frog, Taxonomy, 16S rRNA, Andes, Carabaya, Cloud forest, Bromeliads

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          Abstract

          We describe a new species of bromeliad-dwelling Pristimantis from primary montane forest (2,225 m a.s.l.) in southern Peru. The type locality is near Thiuni, in the Department of Puno (province of Carabaya) in the upper watershed of a tributary of the Inambari River. Pristimantis achupalla sp. n. is characterized by a snout-vent length of 10.0–12.8 mm in adult males ( n = 4), unknown in adult females, and is compared morphologically and genetically with species in the Pristimantis lacrimosus group, and with other similar species of Pristimantis. The new species is characterized by having skin on dorsum and flanks rugose, green brownish color, distinctive scapular folds, subacuminate or acuminate snout profile, upper eyelid bearing two or three subconical tubercles and some rounded tubercles, rostral papilla, flanks light brown to brown, with irregular dark brown marks.

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          Most cited references34

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          MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

          We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
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            MUSCLE: multiple sequence alignment with high accuracy and high throughput.

            We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting, progressive alignment using a new profile function we call the log-expectation score, and refinement using tree-dependent restricted partitioning. The speed and accuracy of MUSCLE are compared with T-Coffee, MAFFT and CLUSTALW on four test sets of reference alignments: BAliBASE, SABmark, SMART and a new benchmark, PREFAB. MUSCLE achieves the highest, or joint highest, rank in accuracy on each of these sets. Without refinement, MUSCLE achieves average accuracy statistically indistinguishable from T-Coffee and MAFFT, and is the fastest of the tested methods for large numbers of sequences, aligning 5000 sequences of average length 350 in 7 min on a current desktop computer. The MUSCLE program, source code and PREFAB test data are freely available at http://www.drive5. com/muscle.
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              ModelFinder: Fast Model Selection for Accurate Phylogenetic Estimates

              Model-based molecular phylogenetics plays an important role in comparisons of genomic data, and model selection is a key step in all such analyses. We present ModelFinder, a fast model-selection method that greatly improves the accuracy of phylogenetic estimates. The improvement is achieved by incorporating a model of rate-heterogeneity across sites not previously considered in this context, and by allowing concurrent searches of model-space and tree-space.
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                Author and article information

                Contributors
                Journal
                PeerJ
                PeerJ
                PeerJ
                PeerJ
                PeerJ Inc. (San Diego, USA )
                2167-8359
                23 September 2021
                2021
                : 9
                : e11878
                Affiliations
                [1 ]Departamento de Ecología, Pontificia Universidad Católica de Chile , Santiago, Chile
                [2 ]Museo de Biodiversidad del Perú , Cusco, Perú
                [3 ]Museo de Historia Natural del Cusco, Universidad Nacional San Antonio Abad del Cusco , Cusco, Perú
                [4 ]Department of Biological Sciences, Florida International University , Miami, Florida, United States
                [5 ]Centro de Ornitología y Biodiversidad , Lima, Perú
                [6 ]Instituto Peruano de Herpetología , Lima, Perú
                Author information
                http://orcid.org/0000-0002-3650-4783
                Article
                11878
                10.7717/peerj.11878
                8466079
                ada5e46b-5e34-4bfd-980a-e9196e340fca
                © 2021 Ttito and Catenazzi

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

                History
                : 12 March 2021
                : 7 July 2021
                Funding
                The authors received no funding for this work.
                Categories
                Biodiversity
                Conservation Biology
                Evolutionary Studies
                Taxonomy
                Zoology

                frog,taxonomy,16s rrna,andes,carabaya,cloud forest,bromeliads
                frog, taxonomy, 16s rrna, andes, carabaya, cloud forest, bromeliads

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