Inviting an author to review:
Find an author and click ‘Invite to review selected article’ near their name.
Search for authorsSearch for similar articles
28
views
0
recommends
+1 Recommend
1 collections
    0
    shares

      Publish your biodiversity research with us!

      Submit your article here.

      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Molecular phylogenetic analysis of the genus Gloydius (Squamata, Viperidae, Crotalinae), with description of two new alpine species from Qinghai-Tibet Plateau, China

      research-article

      Read this article at

      ScienceOpenPublisherPMC
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          We provide a molecular phylogeny of Asian pit vipers (the genus Gloydius ) based on four mitochondrial genes (12S, 16S, ND4, and cytb). Sequences of Gloydius himalayanus , the only member of the genus that occurs south of the Himalayan range, are included for the first time. In addition, two new species of the genus Gloydius are described based on specimens collected from Zayu, Tibet, west of the Nujiang River and Heishui, Sichuan, east of the Qinghai-Tibet Plateau. The new species, Gloydius lipipengi sp. nov., can be differentiated from its congeners by the combination of the following characters: the third supralabial not reaching the orbit (separated from it by a suborbital scale); wide, black-bordered greyish postorbital stripe extending from the posterior margin of the orbit (not separated by the postoculars, covering most of the anterior temporal scale) to the ventral surface of the neck; irregular black annular crossbands on the mid-body; 23-21-15 dorsal scales; 165 ventral scales, and 46 subcaudal scales. Gloydius swild sp. nov. can be differentiated from its congeners by the narrower postorbital stripe (only half the width of the anterior temporal scale, the lower edge is approximately straight and bordered with white); a pair of arched stripes on the occiput; lateral body lakes black spots; a pair of round spots on the parietal scales; 21 rows of mid-body dorsal scales; zigzag dark brown stripes on the dorsum; 168–170 ventral scales, and 43–46 subcaudal scales. The molecular phylogeny in this study supports the sister relationship between G. lipipengi sp. nov. and G. rubromaculatus , another recently described species from the Qinghai-Tibet Plateau, more than 500 km away, and indicate the basal position of G. himalayanus within the genus and relatively distant relationship to its congeners.

          Related collections

          Most cited references23

          • Record: found
          • Abstract: found
          • Article: not found

          MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.

          We announce the release of an advanced version of the Molecular Evolutionary Genetics Analysis (MEGA) software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis. In version 6.0, MEGA now enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny. A new Timetree Wizard in MEGA6 facilitates this timetree inference by providing a graphical user interface (GUI) to specify the phylogeny and calibration constraints step-by-step. This version also contains enhanced algorithms to search for the optimal trees under evolutionary criteria and implements a more advanced memory management that can double the size of sequence data sets to which MEGA can be applied. Both GUI and command-line versions of MEGA6 can be downloaded from www.megasoftware.net free of charge.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            Partitionfinder: combined selection of partitioning schemes and substitution models for phylogenetic analyses.

            In phylogenetic analyses of molecular sequence data, partitioning involves estimating independent models of molecular evolution for different sets of sites in a sequence alignment. Choosing an appropriate partitioning scheme is an important step in most analyses because it can affect the accuracy of phylogenetic reconstruction. Despite this, partitioning schemes are often chosen without explicit statistical justification. Here, we describe two new objective methods for the combined selection of best-fit partitioning schemes and nucleotide substitution models. These methods allow millions of partitioning schemes to be compared in realistic time frames and so permit the objective selection of partitioning schemes even for large multilocus DNA data sets. We demonstrate that these methods significantly outperform previous approaches, including both the ad hoc selection of partitioning schemes (e.g., partitioning by gene or codon position) and a recently proposed hierarchical clustering method. We have implemented these methods in an open-source program, PartitionFinder. This program allows users to select partitioning schemes and substitution models using a range of information-theoretic metrics (e.g., the Bayesian information criterion, akaike information criterion [AIC], and corrected AIC). We hope that PartitionFinder will encourage the objective selection of partitioning schemes and thus lead to improvements in phylogenetic analyses. PartitionFinder is written in Python and runs under Mac OSX 10.4 and above. The program, source code, and a detailed manual are freely available from www.robertlanfear.com/partitionfinder.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              A phylogeny and revised classification of Squamata, including 4161 species of lizards and snakes

              Background The extant squamates (>9400 known species of lizards and snakes) are one of the most diverse and conspicuous radiations of terrestrial vertebrates, but no studies have attempted to reconstruct a phylogeny for the group with large-scale taxon sampling. Such an estimate is invaluable for comparative evolutionary studies, and to address their classification. Here, we present the first large-scale phylogenetic estimate for Squamata. Results The estimated phylogeny contains 4161 species, representing all currently recognized families and subfamilies. The analysis is based on up to 12896 base pairs of sequence data per species (average = 2497 bp) from 12 genes, including seven nuclear loci (BDNF, c-mos, NT3, PDC, R35, RAG-1, and RAG-2), and five mitochondrial genes (12S, 16S, cytochrome b, ND2, and ND4). The tree provides important confirmation for recent estimates of higher-level squamate phylogeny based on molecular data (but with more limited taxon sampling), estimates that are very different from previous morphology-based hypotheses. The tree also includes many relationships that differ from previous molecular estimates and many that differ from traditional taxonomy. Conclusions We present a new large-scale phylogeny of squamate reptiles that should be a valuable resource for future comparative studies. We also present a revised classification of squamates at the family and subfamily level to bring the taxonomy more in line with the new phylogenetic hypothesis. This classification includes new, resurrected, and modified subfamilies within gymnophthalmid and scincid lizards, and boid, colubrid, and lamprophiid snakes.
                Bookmark

                Author and article information

                Contributors
                Role: Funding acquisitionRole: InvestigationRole: SoftwareRole: Writing - original draftRole: Writing - review and editing
                Role: Formal analysisRole: Investigation
                Role: Data curationRole: Investigation
                Role: Data curationRole: Investigation
                Role: Investigation
                Role: Investigation
                Role: Investigation
                Role: Investigation
                Role: Data curationRole: Formal analysisRole: Funding acquisitionRole: Writing - review and editing
                Journal
                Zookeys
                Zookeys
                2
                urn:lsid:arphahub.com:pub:45048D35-BB1D-5CE8-9668-537E44BD4C7E
                urn:lsid:zoobank.org:pub:91BD42D4-90F1-4B45-9350-EEF175B1727A
                ZooKeys
                Pensoft Publishers
                1313-2989
                1313-2970
                2021
                04 October 2021
                : 1061
                : 87-108
                Affiliations
                [1 ] Key Laboratory of Vertebrate Evolution and Human Origins of Chinese Academy of Sciences, Institute of Vertebrate Paleontology and Paleoanthropology, Chinese Academy of Sciences, Beijing 100044, China
                [2 ] Institute of Herpetology, Shenyang Normal University, Shenyang 110034, China
                [3 ] Department of Zoology, Prithvi Narayan Campus, Bhimkalipatan-1, Pokhara 33700, Nepal
                [4 ] Molecular Ecology and Evolution at Bangor, School of Natural Sciences, Bangor University, Bangor, Gwynedd LL57 2UW, UK
                [5 ] Captive and Field Herpetology, Wales, UK
                [6 ] Society for Nature Conservation, Research and Community Engagement (CONCERN), Nalikul, Hooghly, West Bengal, India
                [7 ] Endangered Wildlife Trust, Dindigull, Tamil Nadu, India
                [8 ] Central South Inventory and Planning Institute of National Forestry and Grassland Administration, College of Life Sciences and Technology, Central South University of Forestry and Technology, Changsha, Hunan 410004, China
                Author notes
                Corresponding authors: Jing-Song Shi ( shijingsong@ 123456ivpp.ac.cn ), Anita Malhotra ( a.malhotra@ 123456bangor.ac.uk )

                Academic editor: Robert Jadin

                Author information
                https://orcid.org/0000-0001-9168-1734
                https://orcid.org/0000-0003-0298-451X
                https://orcid.org/0000-0003-1072-1699
                https://orcid.org/0000-0002-1738-9046
                Article
                70420
                10.3897/zookeys.1061.70420
                8505391
                d6ff1388-98dc-4078-b547-766cbc41ee19
                Jing-Song Shi, Jin-Cheng Liu, Rohit Giri, John Benjamin Owens, Vishal Santra, Sourish Kuttalam, Melvin Selvan, Ke-Ji Guo, Anita Malhotra

                This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 21 June 2021
                : 20 August 2021
                Categories
                Research Article
                Crotalidae
                Viperidae
                Biodiversity & Conservation
                Biogeography
                Evolutionary biology
                Cenozoic
                Asia

                Animal science & Zoology
                asian pit viper,gloydiushimalayanus,heishui,molecular phylogeny,osteology,qinghai-tibet plateau,zayu

                Comments

                Comment on this article