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Agarwal I, Biswas S, Bauer AM, Greenbaum E, Jackman TR, Silva AD, Batuwita S. Cryptic species, taxonomic inflation, or a bit of both? New species phenomenon in Sri Lanka as suggested by a phylogeny of dwarf geckos (Reptilia, Squamata, Gekkonidae, Cnemaspis). SYST BIODIVERS 2017. [DOI: 10.1080/14772000.2017.1282553] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Ishan Agarwal
- Department of Biology, Villanova University, 800 Lancaster Avenue, Villanova, Pennsylvania 19085, USA
| | - Sayantan Biswas
- Department of Biology, Villanova University, 800 Lancaster Avenue, Villanova, Pennsylvania 19085, USA
| | - Aaron M. Bauer
- Department of Biology, Villanova University, 800 Lancaster Avenue, Villanova, Pennsylvania 19085, USA
| | - Eli Greenbaum
- Department of Biology, Villanova University, 800 Lancaster Avenue, Villanova, Pennsylvania 19085, USA
- Department of Biological Sciences, University of Texas at El Paso, 500 West University Avenue, El Paso, Texas 79968, USA
| | - Todd R. Jackman
- Department of Biology, Villanova University, 800 Lancaster Avenue, Villanova, Pennsylvania 19085, USA
| | | | - Sudesh Batuwita
- Wildlife Heritage Trust of Sri Lanka, 95 Cotta Road, Colombo, Sri Lanka
- College of Biology and the Environment, Nanjing Forestry University, Nanjing, China
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52
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Senevirathne G, Kerney R, Meegaskumbura M. Comparative Postembryonic Skeletal Ontogeny in Two Sister Lineages of Old World Tree Frogs (Rhacophoridae: Taruga, Polypedates). PLoS One 2017; 12:e0167939. [PMID: 28060923 PMCID: PMC5218391 DOI: 10.1371/journal.pone.0167939] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2016] [Accepted: 11/22/2016] [Indexed: 11/19/2022] Open
Abstract
Rhacophoridae, a family of morphologically cryptic frogs, with many genetically distinct evolutionary lineages, is understudied with respect to skeletal morphology, life history traits and skeletal ontogeny. Here we analyze two species each from two sister lineages, Taruga and Polypedates, and compare their postembryonic skeletal ontogeny, larval chondrocrania and adult osteology in the context of a well-resolved phylogeny. We further compare these ontogenetic traits with the direct-developing Pseudophilautus silus. For each species, we differentially stained a nearly complete developmental series of tadpoles from early postembryonic stages through metamorphosis to determine the intraspecific and interspecific differences of cranial and postcranial bones. Chondrocrania of the four species differ in 1) size; 2) presence/absence of anterolateral and posterior process; and 3) shape of the suprarostral cartilages. Interspecific variation of ossification sequences is limited during early stages, but conspicuous during later development. Early cranial ossification is typical of other anuran larvae, where the frontoparietal, exoccipital and parasphenoid ossify first. The ossification sequences of the cranial bones vary considerably within the four species. Both species of Taruga show a faster cranial ossification rate than Polypedates. Seven cranial bones form when larvae near metamorphic climax. Ossification of all 18 cranial bones is initiated by larval Gosner stage 46 in T. eques. However, some cranial bone formation is not initiated until after metamorphosis in the other three species. Postcranial sequence does not vary significantly. The comparison of adult osteology highlights two characters, which have not been previously recorded: presence/absence of the parieto-squamosal plates and bifurcated base of the omosternum. This study will provide a starting point for comparative analyses of rhacophorid skeletal ontogeny and facilitate the study of the evolution of ontogenetic repatterning associated with the life history variation in the family.
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Affiliation(s)
- Gayani Senevirathne
- Department of Molecular Biology and Biotechnology, Faculty of Science, University of Peradeniya, Peradeniya, Sri Lanka
- Postgraduate Institute of Science, Faculty of Science, University of Peradeniya, Sri Lanka
| | - Ryan Kerney
- Department of Biology, Gettysburg College, Gettysburg, Pennsylvania, United States of America
| | - Madhava Meegaskumbura
- Department of Molecular Biology and Biotechnology, Faculty of Science, University of Peradeniya, Peradeniya, Sri Lanka
- Postgraduate Institute of Science, Faculty of Science, University of Peradeniya, Sri Lanka
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53
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Zheng Y, Liu J, Gong X. Tectonic and climatic impacts on the biota within the Red River Fault, evidence from phylogeography of Cycas dolichophylla (Cycadaceae). Sci Rep 2016; 6:33540. [PMID: 27629063 PMCID: PMC5024324 DOI: 10.1038/srep33540] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2016] [Accepted: 08/30/2016] [Indexed: 11/22/2022] Open
Abstract
Dramatic crustal deformation and river incision in Southwest China induced by the Indo-Asian collision have long been argued to contribute to the complicated landscapes, heterogeneous environment and abundant biodiversity in this region. However, biological impacts in promoting intraspecific phylogeographical subdivision and divergence along the Red River Fault zone (RRF) remain poorly understood. To investigate the possible biological effects of tectonic movements and environment variations within the RRF, the phylogeography of Cycas dolichophylla-an endemic but widely distributed Cycas in Southwest China and North Vietnam along the RRF were carried out based on four chloroplast DNA intergenic spacers (cpDNA), three nuclear DNA sequences (nDNA) and 16 simple sequence repeat variations (SSR). Two different phylogeographical patterns were detected: a Southwest-Northeast break across the RRF disclosed by chlorotypes and a China-Vietnam separation revealed by SSR. A Bayesian skyline plot from cpDNA data demonstrated a historical increasing, but a recent declining, dynamic in population size during the Pleistocene. Consequently, we infer it is the local environmental variation during Cenozoic that contributed to the complex landscape and microclimate mosaics, facilitating speciation and divergence of C. dolichophylla. Subsequently, the Quaternary climatic fluctuations coupled with human activities profoundly influenced the genetic structure and demographic history of this species.
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Affiliation(s)
- Ying Zheng
- Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Jian Liu
- Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, China.,University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xun Gong
- Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, China
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54
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Grismer JL, Schulte JA, Alexander A, Wagner P, Travers SL, Buehler MD, Welton LJ, Brown RM. The Eurasian invasion: phylogenomic data reveal multiple Southeast Asian origins for Indian Dragon Lizards. BMC Evol Biol 2016; 16:43. [PMID: 26896057 PMCID: PMC4759850 DOI: 10.1186/s12862-016-0611-6] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2015] [Accepted: 02/08/2016] [Indexed: 12/28/2022] Open
Abstract
BACKGROUND The Indian Tectonic Plate split from Gondwanaland approximately 120 MYA and set the Indian subcontinent on a ~ 100 million year collision course with Eurasia. Many phylogenetic studies have demonstrated the Indian subcontinent brought with it an array of endemic faunas that evolved in situ during its journey, suggesting this isolated subcontinent served as a source of biodiversity subsequent to its collision with Eurasia. However, recent molecular studies suggest that Eurasia may have served as the faunal source for some of India's biodiversity, colonizing the subcontinent through land bridges between India and Eurasia during the early to middle Eocene (~35-40 MYA). In this study we investigate whether the Draconinae subfamily of the lizard family Agamidae is of Eurasian or Indian origin, using a multi locus Sanger dataset and a novel dataset of 4536 ultraconserved nuclear element loci. RESULTS Results from our phylogenetic and biogeographic analyses revealed support for two independent colonizations of India from Eurasian ancestors during the early to late Eocene prior to the subcontinent's hard collision with Eurasia. CONCLUSION These results are consistent with other faunal groups and new geologic models that suggest ephemeral Eocene land bridges may have allowed for dispersal and exchange of floras and faunas between India and Eurasia during the Eocene.
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Affiliation(s)
- Jesse L Grismer
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
| | - James A Schulte
- Department of Biology, Clarkson University, 8 Clarkson Avenue, Postdam, NY, 13699, USA.
| | - Alana Alexander
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
| | - Philipp Wagner
- Zoologisches Forschungsmuseum Alexander Koenig Adenauerallee 160, D-53113, Bonn, Germany.
| | - Scott L Travers
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
| | - Matt D Buehler
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
| | - Luke J Welton
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
| | - Rafe M Brown
- Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Dyche Hall, 1345 Jayhawk Blvd., Lawrence, KS, 66045-7561, USA.
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55
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Biju SD, Senevirathne G, Garg S, Mahony S, Kamei RG, Thomas A, Shouche Y, Raxworthy CJ, Meegaskumbura M, Van Bocxlaer I. Frankixalus, a New Rhacophorid Genus of Tree Hole Breeding Frogs with Oophagous Tadpoles. PLoS One 2016; 11:e0145727. [PMID: 26790105 PMCID: PMC4720377 DOI: 10.1371/journal.pone.0145727] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2015] [Accepted: 12/08/2015] [Indexed: 11/18/2022] Open
Abstract
Despite renewed interest in the biogeography and evolutionary history of Old World tree frogs (Rhacophoridae), this family still includes enigmatic frogs with ambiguous phylogenetic placement. During fieldwork in four northeastern states of India, we discovered several populations of tree hole breeding frogs with oophagous tadpoles. We used molecular data, consisting of two nuclear and three mitochondrial gene fragments for all known rhacophorid genera, to investigate the phylogenetic position of these new frogs. Our analyses identify a previously overlooked, yet distinct evolutionary lineage of frogs that warrants recognition as a new genus and is here described as Frankixalusgen. nov. This genus, which contains the enigmatic ‘Polypedates’ jerdonii described by Günther in 1876, forms the sister group of a clade containing Kurixalus, Pseudophilautus, Raorchestes, Mercurana and Beddomixalus. The distinctiveness of this evolutionary lineage is also corroborated by the external morphology of adults and tadpoles, adult osteology, breeding ecology, and life history features.
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Affiliation(s)
- S D Biju
- Systematics Lab, Department of Environmental Studies, University of Delhi, Delhi, 110 007, India
| | - Gayani Senevirathne
- Department of Molecular Biology & Biotechnology, Faculty of Science, University of Peradeniya, Peradeniya, Sri Lanka
| | - Sonali Garg
- Systematics Lab, Department of Environmental Studies, University of Delhi, Delhi, 110 007, India
| | - Stephen Mahony
- Systematics Lab, Department of Environmental Studies, University of Delhi, Delhi, 110 007, India.,School of Biology and Environmental Science, University College Dublin, Belfield, Dublin, 4, Ireland
| | - Rachunliu G Kamei
- Systematics Lab, Department of Environmental Studies, University of Delhi, Delhi, 110 007, India.,Department of Life Sciences, The Natural History Museum, London, SW7 5BD, United Kingdom
| | - Ashish Thomas
- Systematics Lab, Department of Environmental Studies, University of Delhi, Delhi, 110 007, India.,Department of Environmental Studies, Hindu College, University of Delhi, Delhi, 110 007, India
| | - Yogesh Shouche
- Microbial Culture Collection, National Center for Cell Science, NCCS Complex, Pune University Campus, Ganeshkhind, Pune, 411 007, India
| | - Christopher J Raxworthy
- Herpetology Department, American Museum of Natural History, Central Park West at 79th Street, New York, New York, 10024, United States of America
| | - Madhava Meegaskumbura
- Department of Molecular Biology & Biotechnology, Faculty of Science, University of Peradeniya, Peradeniya, Sri Lanka
| | - Ines Van Bocxlaer
- Amphibian Evolution Lab, Biology Department, Vrije Universiteit Brussel (VUB), Pleinlaan 2, B-1050, Brussels, Belgium
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56
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Jiang K, Yan F, Wang K, Zou DH, Li C, Che J. A new genus and species of treefrog from Medog, southeastern Tibet, China (Anura, Rhacophoridae). DONG WU XUE YAN JIU = ZOOLOGICAL RESEARCH 2016; 37:15-20. [PMID: 26828030 PMCID: PMC4834735 DOI: 10.13918/j.issn.2095-8137.2016.1.15] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Subscribe] [Scholar Register] [Received: 10/27/2015] [Accepted: 12/15/2015] [Indexed: 11/01/2022]
Abstract
A new genus and species of threefrog is described from Medog, southeastern Tibet, China based on morphological and phylogenetic data. The new genus can be distinguished from other treefrog genera by the following combination of characters: (1) body size moderate, 45.0 mm in male; (2) snout rounded; (3) canthus rostralis obtuse and raised prominently, forming a ridge from nostril to anterior corner of eyes; (4) web rudimentary on fingers; (5) web moderately developed on toes; (6) phalange "Y" shaped, visible from dorsal side of fingers and toes; (7) skin of dorsal surfaces relatively smooth, scatted with small tubercles; (8) iris with a pale yellow, "X" shaped pattern of pigmentation.
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Affiliation(s)
- Ke Jiang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China
| | - Fang Yan
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China
| | - Kai Wang
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China; Sam Noble Oklahoma Museum of Natural History and Department of Biology, University of Oklahoma, Norman OK 73072-7029, U.S.A
| | - Da-Hu Zou
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China; Tibet University, Lhasa Tibet 850000, China
| | - Cheng Li
- Imaging Biodiversity Expedition, Beijing 100107, China
| | - Jing Che
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming Yunnan 650223, China.
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57
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Li J, Zhao M, Wei S, Luo Z, Wu H. Geologic events coupled with Pleistocene climatic oscillations drove genetic variation of Omei treefrog (Rhacophorus omeimontis) in southern China. BMC Evol Biol 2015; 15:289. [PMID: 26690899 PMCID: PMC4687352 DOI: 10.1186/s12862-015-0572-1] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2015] [Accepted: 12/16/2015] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Pleistocene climatic oscillations and historical geological events may both influence current patterns of genetic variation, and the species in southern China that faced unique climatic and topographical events have complex evolutionary histories. However, the relative contributions of climatic oscillations and geographical events to the genetic variation of these species remain undetermined. To investigate patterns of genetic variation and to test the hypotheses about the factors that shaped the distribution of this genetic variation in species of southern China, mitochondrial genes (cytochrome b and NADH dehydrogenase subunit 2) and nine microsatellite loci of the Omei tree frog (Rhacophorus omeimontis) were amplified in this study. RESULTS The genetic diversity in the populations of R. omeimontis was high. The phylogenetic trees reconstructed from the mitochondrial DNA (mtDNA) haplotypes and the Bayesian genetic clustering analysis based on microsatellite data both revealed that all populations were divided into three lineages (SC, HG and YN). The two most recent splitting events among the lineages coincided with recent geological events (including the intense uplift of the Qinghai-Tibet Plateau, QTP and the subsequent movements of the Yun-Gui Plateau, YGP) and the Pleistocene glaciations. Significant expansion signals were not detected in mismatch analyses or neutrality tests. And the effective population size of each lineage was stable during the Pleistocene. CONCLUSIONS Based on the results of this study, complex geological events (the recent dramatic uplift of the QTP and the subsequent movements of the YGP) and the Pleistocene glaciations were apparent drivers of the rapid divergence of the R. omeimontis lineages. Each diverged lineages survived in situ with limited gene exchanges, and the stable demographics of lineages indicate that the Pleistocene climatic oscillations were inconsequential for this species. The analysis of genetic variation in populations of R. omeimontis contributes to the understanding of the effects of changes in climate and of geographical events on the dynamic development of contemporary patterns of genetic variation in the species of southern China.
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Affiliation(s)
- Jun Li
- Institute of Evolution and Ecology, International Research Centre of Ecology and Environment, School of Life Sciences, Central China Normal University, 152 Luoyulu, Hongshan District, Wuhan, 430079, China.
| | - Mian Zhao
- Institute of Evolution and Ecology, International Research Centre of Ecology and Environment, School of Life Sciences, Central China Normal University, 152 Luoyulu, Hongshan District, Wuhan, 430079, China.
| | - Shichao Wei
- Institute of Evolution and Ecology, International Research Centre of Ecology and Environment, School of Life Sciences, Central China Normal University, 152 Luoyulu, Hongshan District, Wuhan, 430079, China.
| | - Zhenhua Luo
- Institute of Evolution and Ecology, International Research Centre of Ecology and Environment, School of Life Sciences, Central China Normal University, 152 Luoyulu, Hongshan District, Wuhan, 430079, China.
| | - Hua Wu
- Institute of Evolution and Ecology, International Research Centre of Ecology and Environment, School of Life Sciences, Central China Normal University, 152 Luoyulu, Hongshan District, Wuhan, 430079, China.
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58
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Ng HH, Hadiaty RK, Lundberg JG, Luckenbill KR. A new genus and species of bagrid catfish from northern Sumatra (Siluriformes: Bagridae). PROCEEDINGS OF THE ACADEMY OF NATURAL SCIENCES OF PHILADELPHIA 2015. [DOI: 10.1635/053.164.0112] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
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59
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Dever JA, Nguyen H, Wilkinson JA. Rediscovery and Redescription ofTheloderma phrynoderma(Ahl, 1927) (Anura: Rhacophoridae) from Myanmar. COPEIA 2015. [DOI: 10.1643/ch-14-130] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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60
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Yuan ML, Zhang QL, Wang ZF, Guo ZL, Bao GS. Molecular Phylogeny of Grassland Caterpillars (Lepidoptera: Lymantriinae: Gynaephora) Endemic to the Qinghai-Tibetan Plateau. PLoS One 2015; 10:e0127257. [PMID: 26053874 PMCID: PMC4459697 DOI: 10.1371/journal.pone.0127257] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2014] [Accepted: 04/14/2015] [Indexed: 11/19/2022] Open
Abstract
Gynaephora (Lepidoptera Erebidae: Lymantriinae) is a small genus, consisting of 15 nominated species, of which eight species are endemic to the Qinghai-Tibetan Plateau (QTP). In this study, we employed both mitochondrial and nuclear loci to infer a molecular phylogeny for the eight QTP Gynaephora spp. We used the phylogeny to estimate divergence dates in a molecular dating analysis and to delimit species. This information allowed us to investigate associations between the diversification history of the eight QTP species and geological and climatic events. Phylogenetic analyses indicated that the eight QTP species formed a monophyletic group with strong supports in both Bayesian and maximum likelihood analyses. The low K2P genetic distances between the eight QTP species suggested that diversification occurred relatively quickly and recently. Out of the eight species, five species were highly supported as monophyletic, which were also recovered by species delimitation analyses. Samples of the remaining three species (G. aureata, G. rouergensis, and G. minora) mixed together, suggesting that further studies using extensive population sampling and comprehensive morphological approaches are necessary to clarify their species status. Divergence time estimation results demonstrated that the diversification and speciation of Gynaephora on the QTP began during the late Miocene/early Pliocene and was potentially affected by the QTP uplift and associated climate changes during this time.
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Affiliation(s)
- Ming-Long Yuan
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, People's Republic of China
| | - Qi-Lin Zhang
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, People's Republic of China
| | - Zhao-Feng Wang
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, People's Republic of China
| | - Zhong-Long Guo
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, People's Republic of China
| | - Gen-Sheng Bao
- State Key Laboratory of Grassland Agro-Ecosystems, College of Pastoral Agricultural Science and Technology, Lanzhou University, Lanzhou, Gansu, People's Republic of China
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61
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Meegaskumbura M, Senevirathne G, Biju SD, Garg S, Meegaskumbura S, Pethiyagoda R, Hanken J, Schneider CJ. Patterns of reproductive-mode evolution in Old World tree frogs (Anura, Rhacophoridae). ZOOL SCR 2015. [DOI: 10.1111/zsc.12121] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Madhava Meegaskumbura
- Department of Molecular Biology & Biotechnology; Faculty of Science; University of Peradeniya; Peradeniya KY 20400 Sri Lanka
| | - Gayani Senevirathne
- Department of Molecular Biology & Biotechnology; Faculty of Science; University of Peradeniya; Peradeniya KY 20400 Sri Lanka
| | - S. D. Biju
- Department of Environmental Studies; University of Delhi; Delhi 110 007 India
| | - Sonali Garg
- Department of Environmental Studies; University of Delhi; Delhi 110 007 India
| | - Suyama Meegaskumbura
- Department of Zoology Faculty of Science; University of Peradeniya; Peradeniya KY 20400 Sri Lanka
| | | | - James Hanken
- Museum of Comparative Zoology; Harvard University; Cambridge MA 02138 USA
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Dang NX, Sun FH, Lv YY, Zhao BH, Wang JC, Murphy RW, Wang WZ, Li JT. DNA barcoding and the identification of tree frogs (Amphibia: Anura: Rhacophoridae). Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:2574-84. [PMID: 26004249 DOI: 10.3109/19401736.2015.1041113] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
The DNA barcoding gene COI (cytochrome c oxidase subunit I) effectively identifies many species. Herein, we barcoded 172 individuals from 37 species belonging to nine genera in Rhacophoridae to test if the gene serves equally well to identify species of tree frogs. Phenetic neighbor joining and phylogenetic Bayesian inference were used to construct phylogenetic trees, which resolved all nine genera as monophyletic taxa except for Rhacophorus, two new matrilines for Liuixalus, and Polypedates leucomystax species complex. Intraspecific genetic distances ranged from 0.000 to 0.119 and interspecific genetic distances ranged from 0.015 to 0.334. Within Rhacophorus and Kurixalus, the intra- and interspecific genetic distances did not reveal an obvious barcode gap. Notwithstanding, we found that COI sequences unambiguously identified rhacophorid species and helped to discover likely new cryptic species via the synthesis of genealogical relationships and divergence patterns. Our results supported that COI is an effective DNA barcoding marker for Rhacophoridae.
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Affiliation(s)
- Ning-Xin Dang
- a Chengdu Institute of Biology, Chinese Academy of Sciences , Chengdu , China .,b College of Life Sciences, Sichuan University , Chengdu , China
| | - Feng-Hui Sun
- c School of Medical Laboratory Science, Chengdu Medical College , Chengdu , China
| | - Yun-Yun Lv
- a Chengdu Institute of Biology, Chinese Academy of Sciences , Chengdu , China
| | - Bo-Han Zhao
- a Chengdu Institute of Biology, Chinese Academy of Sciences , Chengdu , China .,b College of Life Sciences, Sichuan University , Chengdu , China
| | - Ji-Chao Wang
- d Department of Tropical Animal and Plant Ecology , College of Life Sciences, Hainan Normal University , Haikou , China
| | - Robert W Murphy
- e Department of Conservation Biology , Royal Ontario Museum , Toronto , Ontario , Canada , and
| | - Wen-Zhi Wang
- f State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences , Kunming , China
| | - Jia-Tang Li
- a Chengdu Institute of Biology, Chinese Academy of Sciences , Chengdu , China
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63
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Nguyen TT, Matsui M, Eto K. Mitochondrial phylogeny of an Asian tree frog genus Theloderma (Anura: Rhacophoridae). Mol Phylogenet Evol 2015; 85:59-67. [PMID: 25683047 DOI: 10.1016/j.ympev.2015.02.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2014] [Revised: 02/03/2015] [Accepted: 02/04/2015] [Indexed: 11/19/2022]
Abstract
We assessed phylogenetic and systematic relationships among 17 out of 23 species of Theloderma and all three species of Nyctixalus from 2412bp sequences of the mitochondrial DNA genes of 12S rRNA, tRNA(val), and 16S rRNA using maximum likelihood and Bayesian inference methods. With the exception of T. moloch, Theloderma and Nyctixalus are confirmed to form a clade, in which each genus also forms a clade. Theloderma moloch is phylogenetically outside these clades and closer to samples from Chiromantis, Feihyla, Gracixalus, Kurixalus, Philautus, Polypedates, Raorchestes, and Rhacophorus. Within Theloderma, T. horridum and T. stellatum form the sister taxon to a clade comprising the remaining species. The basal split within the latter clade groups T. asperum, T. licin, T. petilum, and T. ryabovi as the sister to a clade comprising T. bicolor, T. chuyangsinense, T. corticale, T. gordoni, T. laeve, T. lateriticum, T. nebulosum, T. rhododiscus, and T. truongsonense. Our phylogenetic results indicate homoplastic evolution of four morphological characters: small vs. large body size, presence of vomerine teeth, presence of a vocal opening in males, and interdigital webbing on hands. The common ancestor of Theloderma and Nyctixalus is inferred to have arisen in the area including the current Sunda region.
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Affiliation(s)
- Tao Thien Nguyen
- Vietnam National Museum of Nature, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet Road, Hanoi, Viet Nam.
| | - Masafumi Matsui
- Graduate School of Human and Environmental Studies, Kyoto University, Sakyo, Kyoto 606-8501, Japan.
| | - Koshiro Eto
- Graduate School of Human and Environmental Studies, Kyoto University, Sakyo, Kyoto 606-8501, Japan; Kyoto University Museum, Yoshida-Honmachi, Sakyo, Kyoto 606-8501, Japan.
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Nakano T, Nguyen ST. A new predatory leech from Vietnam (Hirudinida : Arhynchobdellida : Salifidae): its phylogenetic position with comments on the classification of the family. INVERTEBR SYST 2015. [DOI: 10.1071/is15008] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The family Salifidae is a predaceous leech taxon in the suborder Erpobdelliformes. Although Salifidae is widely distributed in the African, Oriental, Indo-Malayan, Sino-Japanese and Australasian regions, the phylogenetic relationships of the family Salifidae have never been tested using molecular data obtained from leeches collected from the family distributional range. A salifid species was collected for the first time in Vietnam, and relevant morphological and molecular data are presented here. Because the Vietnamese salifid species possesses unique morphological characteristics among the known salifid species, this species is herein described as a new species, Salifa motokawai, sp. nov. Phylogenetic analyses based on nuclear 18S rRNA and histone H3, as well as mitochondrial cytochrome c oxidase subunit I, tRNACys, tRNAMet, 12S rRNA, tRNAVal, 16S rRNA, tRNALeu and NADH dehydrogenase subunit 1 markers demonstrate that the Vietnamese salifid species is a close congener with the African Salifa perspicax and the Malagasy Linta be. Furthermore, molecular data revealed non-monophyly of the Asian salifid leeches. According to the observed phylogenetic relationships and morphological characteristics of the Vietnamese Salifa motokawai, sp. nov., the current classification of salifid taxa should be revised.
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65
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Agarwal I, Bauer AM, Jackman TR, Karanth KP. Insights into Himalayan biogeography from geckos: A molecular phylogeny of Cyrtodactylus (Squamata: Gekkonidae). Mol Phylogenet Evol 2014; 80:145-55. [DOI: 10.1016/j.ympev.2014.07.018] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2014] [Revised: 07/08/2014] [Accepted: 07/24/2014] [Indexed: 11/15/2022]
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66
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Characterization of the mitochondrial genome and phylogeny of the black arowana (Osteoglossum ferreirai). Biologia (Bratisl) 2014. [DOI: 10.2478/s11756-014-0426-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
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67
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Nguyen TT, Matsui M, Duc HM. A New Tree Frog of the GenusKurixalus(Anura: Rhacophoridae) from Vietnam. CURRENT HERPETOLOGY 2014. [DOI: 10.5358/hsj.33.101] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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68
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de Bruyn M, Stelbrink B, Morley RJ, Hall R, Carvalho GR, Cannon CH, van den Bergh G, Meijaard E, Metcalfe I, Boitani L, Maiorano L, Shoup R, von Rintelen T. Borneo and Indochina are Major Evolutionary Hotspots for Southeast Asian Biodiversity. Syst Biol 2014; 63:879-901. [DOI: 10.1093/sysbio/syu047] [Citation(s) in RCA: 207] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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69
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Agarwal I, Bauer AM, Jackman TR, Karanth P. Cryptic species and Miocene diversification of Palaearctic naked-toed geckos (Squamata: Gekkonidae) in the Indian dry zone. ZOOL SCR 2014. [DOI: 10.1111/zsc.12062] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Ishan Agarwal
- Centre for Ecological Sciences; Indian Institute of Science; Bangalore 560012 India
| | - Aaron M. Bauer
- Department of Biology; Villanova University; 800 Lancaster Avenue Villanova PA 19085 USA
| | - Todd R. Jackman
- Department of Biology; Villanova University; 800 Lancaster Avenue Villanova PA 19085 USA
| | - Praveen Karanth
- Centre for Ecological Sciences; Indian Institute of Science; Bangalore 560012 India
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Nguyen TT, Matsui M, Yoshikawa N. First Record of the Tree-Frog GenusLiuixalusfrom Vietnam with the Description of a New Species (Amphibia: Rhacophoridae). CURRENT HERPETOLOGY 2014. [DOI: 10.5358/hsj.33.29] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Archipelago colonization by ecologically dissimilar amphibians: evaluating the expectation of common evolutionary history of geographical diffusion in co-distributed rainforest tree frogs in islands of Southeast Asia. Mol Phylogenet Evol 2014; 72:35-41. [PMID: 24389467 DOI: 10.1016/j.ympev.2013.12.006] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2013] [Revised: 12/19/2013] [Accepted: 12/21/2013] [Indexed: 11/24/2022]
Abstract
Widespread, co-distributed species with limited relative dispersal abilities represent compelling focal taxa for comparative phylogeography. Forest vertebrates in island archipelagos often exhibit pronounced population structure resulting from limited dispersal abilities or capacity to overcome marine barriers to dispersal. The exceptionally diverse Old World tree frogs of the family Rhacophoridae have colonized the forested island archipelagos of Southeast Asia on multiple occasions, entering the islands of Indonesia and the Philippines via a "stepping stone" mode of dispersal along elongate island chains, separated by a series of marine channels. Here we evaluate the prediction that two tightly co-distributed Philippine rhacophorids colonized the archipelago during concomitant timescales and in the same, linear, "island-hopping" progression. We use a new multilocus dataset, utilize dense genetic sampling from the eastern arc of the Philippines, and we take a model-based phylogeographic approach to examining the two species for similar topological patterns of diversification, genetic structure, and timescales of diversification. Our results support some common mechanistic predictions (a general south-to-north polarity of colonization) but not others (timescale for colonization and manner and degree of lineage diversification), suggesting differing biogeographic scenarios of geographical diffusion through the archipelago and unique and idiosyncratic ecological capacities and evolutionary histories of each species.
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