28 results on '"Ananjeva NB"'
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2. Range-Wide Phylogeography and Ecological Niche Modeling Provide Insights into the Evolutionary History of the Mongolian Racerunner ( Eremias argus ) in Northeast Asia.
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Tian L, Xu R, Chen D, Ananjeva NB, Brown RM, Min MS, Cai B, Mijidsuren B, Zhang B, and Guo X
- Abstract
The Mongolian racerunner, Eremias argus , is a small lizard endemic to Northeast Asia that can serve as an excellent model for investigating how geography and past climate change have jointly influenced the evolution of biodiversity in this region. To elucidate the processes underlying its diversification and demography, we reconstructed the range-wide phylogeographic pattern and evolutionary trajectory, using phylogenetic, population genetic, landscape genetic, Bayesian phylogeographic reconstruction and ecological niche modeling approaches. Phylogenetic analyses of the mtDNA cyt b gene revealed eight lineages that were unbounded by geographic region. The genetic structure of E. argus was mainly determined by geographic distance. Divergence dating indicated that E. argus and E. brenchleyi diverged during the Mid-Pliocene Warm Period. E. argus was estimated to have coalesced at~0.4351 Ma (Marine Isotope Stage 19). Bayesian phylogeographic diffusion analysis revealed out-of-Inner Mongolia and rapid colonization events from the end of the Last Interglacial to the Last Glacial Maximum, which is consistent with the expanded suitable range of the Last Glacial Maximum. Pre-Last Glacial Maximum growth of population is presented for most lineages of E. argus. The Glacial Maximum contraction model and the previous multiple glacial refugia hypotheses are rejected. This may be due to an increase in the amount of climatically favorable habitats in Northeast Asia. Furthermore, E. argus barbouri most likely represents an invalid taxon. The present study is the first to report a range-wide phylogeography of reptiles over such a large region in Northeast Asia. Our results make a significant contribution towards understanding the biogeography of the entire Northeast Asia.
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- 2024
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3. Taxonomic status of Eremias multiocellata var. reticulata Bedriaga 1912 (Sauria, Lacertidae): molecular evidence from historical DNA.
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Orlova VF, Solovyeva EN, and Ananjeva NB
- Subjects
- Animals, DNA, Lizards genetics
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- 2024
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4. Osteoderm Development during the Regeneration Process in Eurylepis taeniolata Blyth, 1854 (Scincidae, Sauria, Squamata).
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Cherepanov GO, Gordeev DA, Melnikov DA, and Ananjeva NB
- Abstract
Osteoderms are bony structures that develop within the dermal layer of the skin in vertebrates and are very often found in different lizard families. Lizard osteoderms are diverse in topography, morphology, and microstructure. Of particular interest are the compound osteoderms of skinks, which are a complex of several bone elements known as osteodermites. We present new data on the development and regeneration of compound osteoderms based on the results of a histological and Computed Microtomography (micro-CT) study of a scincid lizard: Eurylepis taeniolata . The specimens studied are stored in the herpetological collections of the Saint-Petersburg State University and Zoological Institute of the Russian Academy of Sciences located in St. Petersburg, Russia. The topography of osteoderms in the integuments of the original tail area and its regenerated part was studied. A comparative histological description of the original and regenerated osteoderms of Eurylepis taeniolata is presented for the first time. The first description of the development of compound osteoderm microstructure in the process of caudal regeneration is also presented.
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- 2023
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5. Four new species of the genus Diploderma Hallowell, 1861 (Squamata, Agamidae) from China.
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Liu S, Hou M, Ananjeva NB, and Rao D
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Four new species of Diploderma are described from Sichuan and Yunnan provinces, southwestern China, based on an integrative taxonomic approach, combining morphological and genetic data. The first new species from Danba County, Sichuan Province, is morphologically most similar and phylogenetically closely related to D.flaviceps , but it can be diagnosed from the latter by having a relatively much shorter tail and by a genetic distance of 4.4% in the ND2 gene; the second new species from Muli County, Sichuan Province, is phylogenetically closely related to D.daochengense , D.yongshengense , and D.yulongense , but it can be diagnosed from the latter three species by having a pale yellow gular spot and by genetic distances of 5.6-6.7% in the ND2 gene; the third new species from Jiulong County, Sichuan Province, is morphologically most similar and phylogenetically closely related to D.angustelinea , but it can be diagnosed from the latter by having a relatively much longer tail and by a genetic distance of 2.8% in the ND2 gene; and the last new species from Weixi County, Yunnan Province, is phylogenetically closely related to D.aorun , but it can be diagnosed from the latter by having a pale yellow gular spot and by a genetic distance of 2.9% in the ND2 gene. Our work brings the number of species within the genus Diploderma to 46., (Shuo Liu, Mian Hou, Natalia B. Ananjeva, Dingqi Rao.)
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- 2023
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6. Three new species of Diploderma Hallowell, 1861 (Squamata, Agamidae) from the Hengduan Mountain Region, south-western China.
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Liu S, Hou M, Rao D, and Ananjeva NB
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Three new species of Diploderma are described from the Hengduan Mountain Region in south-western China, based on morphological and genetic data. The first new species from Yulong County, Yunnan Province is morphologically most similar and phylogenetically closely related to D.brevicauda , but it can be diagnosed from the latter by having a relatively longer tail; the second new species from Xiangcheng County, Sichuan Province is phylogenetically closely related to D.bowoense , but it can be diagnosed from the latter by the absence of a distinct gular spot; and the third new species from Yongsheng County, Yunnan Province is phylogenetically closely related to D.yulongense , but it can be diagnosed from the latter by having different colourations of the ventral and ventrolateral surfaces of the body. Taxonomy and diversity survey are the basis of species conservation, our discoveries contributing to better conservation of the species of this genus., (Shuo Liu, Mian Hou, Dingqi Rao, Natalia B. Ananjeva.)
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- 2022
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7. Integrative Taxonomy within Eremias multiocellata Complex (Sauria, Lacertidae) from the Western Part of Range: Evidence from Historical DNA.
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Orlova VF, Solovyeva EN, Dunayev EA, and Ananjeva NB
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- Animals, DNA, Mitochondrial genetics, Mitochondria genetics, Phylogeny, Sequence Analysis, DNA, Lizards genetics
- Abstract
The Kokshaal racerunner, Eremias kokshaaliensis Eremchenko et Panfilov, 1999, together with other central Asian racerunner species, is included in the Eremias multiocellata complex. In the present work, for the first time, the results of the analysis of historical mitochondrial DNA (barcode) are presented and the taxonomic status and preliminary phylogenetic relationships within the complex are specified. We present, for the first time, the results of the molecular analysis using historical DNA recovered from specimens of several species of this complex (paratypes of the Kokshaal racerunner and historical collections of the Kashgar racerunner E. buechneri from Kashgaria) using DNA barcoding.
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- 2022
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8. A global reptile assessment highlights shared conservation needs of tetrapods.
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Cox N, Young BE, Bowles P, Fernandez M, Marin J, Rapacciuolo G, Böhm M, Brooks TM, Hedges SB, Hilton-Taylor C, Hoffmann M, Jenkins RKB, Tognelli MF, Alexander GJ, Allison A, Ananjeva NB, Auliya M, Avila LJ, Chapple DG, Cisneros-Heredia DF, Cogger HG, Colli GR, de Silva A, Eisemberg CC, Els J, Fong G A, Grant TD, Hitchmough RA, Iskandar DT, Kidera N, Martins M, Meiri S, Mitchell NJ, Molur S, Nogueira CC, Ortiz JC, Penner J, Rhodin AGJ, Rivas GA, Rödel MO, Roll U, Sanders KL, Santos-Barrera G, Shea GM, Spawls S, Stuart BL, Tolley KA, Trape JF, Vidal MA, Wagner P, Wallace BP, and Xie Y
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- Alligators and Crocodiles, Amphibians, Animals, Biodiversity, Birds, Mammals, Phylogeny, Risk Assessment, Turtles, Conservation of Natural Resources, Extinction, Biological, Reptiles classification
- Abstract
Comprehensive assessments of species' extinction risks have documented the extinction crisis
1 and underpinned strategies for reducing those risks2 . Global assessments reveal that, among tetrapods, 40.7% of amphibians, 25.4% of mammals and 13.6% of birds are threatened with extinction3 . Because global assessments have been lacking, reptiles have been omitted from conservation-prioritization analyses that encompass other tetrapods4-7 . Reptiles are unusually diverse in arid regions, suggesting that they may have different conservation needs6 . Here we provide a comprehensive extinction-risk assessment of reptiles and show that at least 1,829 out of 10,196 species (21.1%) are threatened-confirming a previous extrapolation8 and representing 15.6 billion years of phylogenetic diversity. Reptiles are threatened by the same major factors that threaten other tetrapods-agriculture, logging, urban development and invasive species-although the threat posed by climate change remains uncertain. Reptiles inhabiting forests, where these threats are strongest, are more threatened than those in arid habitats, contrary to our prediction. Birds, mammals and amphibians are unexpectedly good surrogates for the conservation of reptiles, although threatened reptiles with the smallest ranges tend to be isolated from other threatened tetrapods. Although some reptiles-including most species of crocodiles and turtles-require urgent, targeted action to prevent extinctions, efforts to protect other tetrapods, such as habitat preservation and control of trade and invasive species, will probably also benefit many reptiles., (© 2022. The Author(s).)- Published
- 2022
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9. The Review of the Autotomy of Agamid Lizards with Considerations about the Types of Autotomy and Regeneration.
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Ananjeva NB, Gordeev DA, and Korost DV
- Abstract
We present a review of the data on the intervertebral autotomy and regeneration of agamid lizards based on an analysis of information obtained over a 35-year period after the publication of thorough reviews (Arnold, 1984, 1988 and Bellairs, Bryant, 1985). It is supplemented by our own studies of 869 specimens of agamid lizards (Sauria, Agamidae) stored in the herpetological collections of the Zoological Institute of the Russian Academy of Sciences (St. Petersburg, Russia) and the Zoological Museum of the Moscow State University (Moscow, Russia), represented by 31 species of 16 genera. The manifestations of the ability for autotomy and regeneration in phylogenetic lineages within the family-Leiolepidinae, Amphibolurinae, Agaminae, Draconinae-are considered. A comparative morphological analysis of the structure of the caudal vertebrae was carried out using the Computer Microtomography Methods (micro-CT) in the following ecomorphological types of agama: (1) with developed abilities to caudal autotomy and regeneration, (2) with the ability to caudal autotomy but without regeneration and (3) without the ability to autotomy. The phenomenon of intervertebral autotomy (urotomy) in snakes is considered too. Possible ways of evolution of the ability to caudal autotomy as a defense strategy against predators are discussed in the phylogenetic context.
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- 2021
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10. A new record of odd-scaled snake (Serpentes, Xenodermidae) from Vietnam: expanded description of Parafimbrios vietnamensis based on integrative taxonomy.
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Orlov NL, Ermakov OA, Nguyen TT, and Ananjeva NB
- Abstract
Based on the combination of molecular and morphological data, we herein report the second known finding of the xenodermid snake species Parafimbrios vietnamensis Ziegler, Ngo, Pham, Nguyen, Le & Nguyen, 2018. The male individual was found in the Yen Bai Province of northwestern Vietnam, more than 200 km from the type locality in Lai Chau Province. Genetic divergence between the newly-collected male and the holotype was low (1.7%), and is in agreement with morphological data that supports that they are conspecific. We give a detailed description of the morphological characters and coloration of the new record and provide an expanded diagnosis of P. vietnamensis . Parafimbrios is a poorly-understood genus, and our recent discovery brings the total number of known specimens of the genus to nine, 1/3 of them having been found in Vietnam (one specimen of P. lao and now two specimens of P. vietnamensis )., (Nikolai L. Orlov, Oleg A. Ermakov, Tao Thien Nguyen, Natalia B. Ananjeva.)
- Published
- 2021
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11. An annotated type catalogue of amphibians and reptiles collected by Nikolay A. Zarudny in Iran and Middle Asia.
- Author
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Ananjeva NB, Milto KD, Barabanov AV, and Golynsky EA
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- Amphibians, Animals, Asia, Iran, Lizards, Reptiles
- Abstract
A complete catalogue is provided for the type specimens of amphibians and reptiles collected by Nikolay A. Zarudny and stored mostly in the herpetological collection of the Zoological Institute, Russian Academy of Sciences, St. Petersburg, Russia (ZISP), as of August 2018. The collection contains 270 type specimens, representing 51 taxa (species and/or subspecies) of one family of turtles, one amphisbaenia family, five lizard families and four snake families from 74 type localities. As a result of studying Zarudny's collections, mainly from Iran, was the description by A. M. Nikolsky of two new genera, Microgecko and Diplometopon, and 42 species and subspecies (varieties). Twenty-two of these taxa are regarded currently as valid.
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- 2020
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12. A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics.
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Macey JR, Schulte JAI, Ananjeva NB, Dyke ETV, Wang Y, Orlov N, Shafiei S, Robinson MD, Dujsebayeva T, Freund GS, Fischer CM, Liu D, and Papenfuss TJ
- Subjects
- Animals, Asia, DNA, Mitochondrial, Iran, Lizards, Phylogeny
- Abstract
Phylogenetic relationships of the agamid lizard genus Phrynocephalus are described in the context of plate tectonics. A near comprehensive taxon sampling reports three data sets: (1) mitochondrial DNA from ND1 to COI (3' end of ND1, tRNAGln, tRNAIle, tRNAMet, ND2, tRNATrp, tRNAAla, tRNAAsn, tRNACys, tRNATyr, and the 5' end of COI) with 1761 aligned positional sites (1595 included, 839 informative), (2) nuclear RAG-1 DNA with 2760 aligned positional sites (342 informative), and (3) 25 informative allozyme loci with 213 alleles (107 informative when coded as presence/absence). It is hypothesized that Phrynocephalus phyletic patterns and speciation reflect fault lines of ancient plates now in Asia rejuvenated by the more recent Indian and Arabian plate collisions. Molecular estimates of lineage splits are highly congruent with geologic dates from the literature. A southern origin for the genus in Southwest Asia is resolved in phylogenetic estimates and a northern origin is statistically rejected. On the basis of monophyly and molecular evidence several taxa previously recognized as subspecies are recognized as species: P. hongyuanensis, P. sogdianus, and P. strauchi as "Current Status"; Phrynocephalus bannikovi, Phrynocephalus longicaudatus, Phrynocephalus turcomanus, and Phrynocephalus vindumi are formally "New Status". Phylogenetic evaluation indicates a soft substrate habitat of sand for the shared ancestor of modern Phrynocephalus. Size diversity maximally overlaps in the Caspian Basin and northwestern Iranian Plateau. The greatest species numbers of six in sympatry and regional allopatry are found in the southern Caspian Basin and southern Helmand Basin, both from numerous phylogenetic lineages in close proximity attributed to tectonic induced events.
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- 2018
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13. Mitochondrial phylogeny shows multiple independent ecological transitions and northern dispersion despite of Pleistocene glaciations in meadow and steppe vipers (Vipera ursinii and Vipera renardi).
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Zinenko O, Stümpel N, Mazanaeva L, Bakiev A, Shiryaev K, Pavlov A, Kotenko T, Kukushkin O, Chikin Y, Duisebayeva T, Nilson G, Orlov NL, Tuniyev S, Ananjeva NB, Murphy RW, and Joger U
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- Animals, Asia, Bayes Theorem, DNA, Mitochondrial genetics, Grassland, Haplotypes, Likelihood Functions, Sequence Alignment, Sequence Analysis, DNA, Ecosystem, Phylogeny, Viperidae classification
- Abstract
The phylogeny and historical demography of small Eurasian vipers of the Vipera ursinii and V. renardi complexes were studied using mitochondrial DNA sequences analysed with Bayesian inference, Maximum Likelihood and Maximum Parsimony approaches, and mismatch distributions. Diversification in the group resulted from an initial dispersion in the later Pliocene - Pleistocene in two directions: north-westwards via the Balkans (V. ursinii complex) and north-eastwards from Asia Minor via the Caucasus (V. renardi complex). An independent, comparatively recent transition occurred from montane habitats to lowland grasslands in different mitochondrial lineages during the Late Pleistocene, when representatives of the both complexes had reached lowland steppes to the north. Effective population size showed clear signs of rapid growth in eastern V. renardi, triggered by colonization of vast lowland steppes, but in western V. ursinii complex grew during the Last Glaciation and experienced stabilization in Holocene. Expansion and population growth in lowland lineages of V. renardi was not strongly affected by Pleistocene climatic oscillations, when cold, dry conditions could have favoured species living in open grasslands. The high diversity of closely related haplotypes in the Caucasus and Tien-Shan could have resulted from repetitive expansion-constriction-isolation events in montane regions during Pleistocene climate fluctuations. The mitochondrial phylogeny pattern conflicts with the current taxonomy., (Copyright © 2014 Elsevier Inc. All rights reserved.)
- Published
- 2015
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14. Phylogeny and divergence times of some racerunner lizards (Lacertidae: Eremias) inferred from mitochondrial 16S rRNA gene segments.
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Guo X, Dai X, Chen D, Papenfuss TJ, Ananjeva NB, Melnikov DA, and Wang Y
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- Animals, Asia, Bayes Theorem, Europe, Genes, rRNA, Lizards classification, Models, Genetic, Sequence Analysis, DNA, DNA, Mitochondrial genetics, Evolution, Molecular, Lizards genetics, Phylogeny, RNA, Ribosomal, 16S genetics
- Abstract
Eremias, or racerunners, is a widespread lacertid genus occurring in China, Mongolia, Korea, Central Asia, Southwest Asia and Southeast Europe. It has been through a series of taxonomic revisions, but the phylogenetic relationships among the species and subgenera remain unclear. In this study, a frequently studied region of the mitochondrial 16S rRNA was used to (i) reassess the phylogenetic relationships of some Eremias species, (ii) test if the viviparous species form a monophyletic group, and (iii) estimate divergence time among lineages using a Bayesian relaxed molecular-clock approach. The resulting phylogeny supports monophyly of Eremias sensu Szczerbak and a clade comprising Eremias, Acanthodactylus and Latastia. An earlier finding demonstrating monophyly of the subgenus Pareremias is corroborated, with Eremias argus being the sister taxon to Eremias brenchleyi. We present the first evidence that viviparous species form a monophyletic group. In addition, Eremias przewalskii is nested within Eremias multiocellata, suggesting that the latter is likely a paraphyletic species or a species complex. Eremias acutirostris and Eremias persica form a clade that is closely related to the subgenus Pareremias. However, the subgenera Aspidorhinus, Scapteira, and Rhabderemias seem not to be monophyletic, respectively. The Bayesian divergence-time estimation suggests that Eremias originated at about 9.9 million years ago (with the 95% confidence interval ranging from 7.6 to 12 Ma), and diversified from Late Miocene to Pleistocene. Specifically, the divergence time of the subgenus Pareremias was dated to about 6.3 million years ago (with the 95% confidence interval ranging from 5.3 to 8.5 Ma), which suggests that the diversification of this subgenus might be correlated with the evolution of an East Asian monsoon climate triggered by the rapid uplift of the Tibetan Plateau approximately 8 Ma., (Copyright © 2011 Elsevier Inc. All rights reserved.)
- Published
- 2011
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15. Availability of new Bayesian-delimited gecko names and the importance of character-based species descriptions.
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Bauer AM, Parham JF, Brown RM, Stuart BL, Grismer L, Papenfuss TJ, Böhme W, Savage JM, Carranza S, Grismer JL, Wagner P, Schmitz A, Ananjeva NB, and Inger RF
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- Animals, Bayes Theorem, Genetic Speciation, Species Specificity, Lizards classification, Lizards physiology, Terminology as Topic
- Published
- 2011
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16. The impact of conservation on the status of the world's vertebrates.
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Hoffmann M, Hilton-Taylor C, Angulo A, Böhm M, Brooks TM, Butchart SH, Carpenter KE, Chanson J, Collen B, Cox NA, Darwall WR, Dulvy NK, Harrison LR, Katariya V, Pollock CM, Quader S, Richman NI, Rodrigues AS, Tognelli MF, Vié JC, Aguiar JM, Allen DJ, Allen GR, Amori G, Ananjeva NB, Andreone F, Andrew P, Aquino Ortiz AL, Baillie JE, Baldi R, Bell BD, Biju SD, Bird JP, Black-Decima P, Blanc JJ, Bolaños F, Bolivar-G W, Burfield IJ, Burton JA, Capper DR, Castro F, Catullo G, Cavanagh RD, Channing A, Chao NL, Chenery AM, Chiozza F, Clausnitzer V, Collar NJ, Collett LC, Collette BB, Cortez Fernandez CF, Craig MT, Crosby MJ, Cumberlidge N, Cuttelod A, Derocher AE, Diesmos AC, Donaldson JS, Duckworth JW, Dutson G, Dutta SK, Emslie RH, Farjon A, Fowler S, Freyhof J, Garshelis DL, Gerlach J, Gower DJ, Grant TD, Hammerson GA, Harris RB, Heaney LR, Hedges SB, Hero JM, Hughes B, Hussain SA, Icochea M J, Inger RF, Ishii N, Iskandar DT, Jenkins RK, Kaneko Y, Kottelat M, Kovacs KM, Kuzmin SL, La Marca E, Lamoreux JF, Lau MW, Lavilla EO, Leus K, Lewison RL, Lichtenstein G, Livingstone SR, Lukoschek V, Mallon DP, McGowan PJ, McIvor A, Moehlman PD, Molur S, Muñoz Alonso A, Musick JA, Nowell K, Nussbaum RA, Olech W, Orlov NL, Papenfuss TJ, Parra-Olea G, Perrin WF, Polidoro BA, Pourkazemi M, Racey PA, Ragle JS, Ram M, Rathbun G, Reynolds RP, Rhodin AG, Richards SJ, Rodríguez LO, Ron SR, Rondinini C, Rylands AB, Sadovy de Mitcheson Y, Sanciangco JC, Sanders KL, Santos-Barrera G, Schipper J, Self-Sullivan C, Shi Y, Shoemaker A, Short FT, Sillero-Zubiri C, Silvano DL, Smith KG, Smith AT, Snoeks J, Stattersfield AJ, Symes AJ, Taber AB, Talukdar BK, Temple HJ, Timmins R, Tobias JA, Tsytsulina K, Tweddle D, Ubeda C, Valenti SV, van Dijk PP, Veiga LM, Veloso A, Wege DC, Wilkinson M, Williamson EA, Xie F, Young BE, Akçakaya HR, Bennun L, Blackburn TM, Boitani L, Dublin HT, da Fonseca GA, Gascon C, Lacher TE Jr, Mace GM, Mainka SA, McNeely JA, Mittermeier RA, Reid GM, Rodriguez JP, Rosenberg AA, Samways MJ, Smart J, Stein BA, and Stuart SN
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- Amphibians, Animals, Birds, Endangered Species statistics & numerical data, Endangered Species trends, Extinction, Biological, Introduced Species, Mammals, Population Dynamics, Biodiversity, Conservation of Natural Resources, Ecosystem, Vertebrates
- Abstract
Using data for 25,780 species categorized on the International Union for Conservation of Nature Red List, we present an assessment of the status of the world's vertebrates. One-fifth of species are classified as Threatened, and we show that this figure is increasing: On average, 52 species of mammals, birds, and amphibians move one category closer to extinction each year. However, this overall pattern conceals the impact of conservation successes, and we show that the rate of deterioration would have been at least one-fifth again as much in the absence of these. Nonetheless, current conservation efforts remain insufficient to offset the main drivers of biodiversity loss in these groups: agricultural expansion, logging, overexploitation, and invasive alien species.
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- 2010
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17. Historical biogeography, phylogenetic relationships and intraspecific diversity of agamid lizards in the Central Asian deserts of Kazakhstan and Uzbekistan.
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Melville J, Hale J, Mantziou G, Ananjeva NB, Milto K, and Clemann N
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- Animals, Cell Nucleus genetics, DNA, Mitochondrial genetics, Desert Climate, Geography, Kazakhstan, Lizards classification, Sequence Alignment, Sequence Analysis, DNA, Species Specificity, Uzbekistan, Evolution, Molecular, Genetic Speciation, Lizards genetics, Phylogeny
- Abstract
The Central Asian agamid lizards are ecologically and morphologically diverse, occurring across a broad range of desert environments in this biogeographically important region. It is probable that past climatic shifts have significantly influenced the diversification patterns and distributions of the agamid lizards of this region. To assess this within a phylogenetic framework we sequenced a approximately 1200 bp region of mitochondrial DNA and a approximately 1200 bp nuclear gene (RAG-1), incorporating both inter- and intraspecific sampling across Central Asian agamids. Our topology and divergence time estimates support an Eocene origin of the Agaminae subfamily on the Indian subcontinent, coinciding with the collision of India into Eurasia. The onset of aridification in Central Asia during the Late Oligocene, resulting from the retreat of the Paratethys Sea and the intensified uplift of the Tibetan-Himalayan complex, probably played an important role in the diversification of Phrynocephalus, one of the three genera studied. Intensification of aridity and geologic events in the Plio-Pleistocene and Quaternary glacial cycling probably had a significant influence on intraspecific diversification patterns within Phrynocephalus.
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- 2009
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18. Socotra Island the forgotten fragment of Gondwana: unmasking chameleon lizard history with complete mitochondrial genomic data.
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Macey JR, Kuehl JV, Larson A, Robinson MD, Ugurtas IH, Ananjeva NB, Rahman H, Javed HI, Osman RM, Doumma A, and Papenfuss TJ
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- Africa, Animals, DNA, Mitochondrial genetics, Genetic Speciation, Geography, India, Lizards classification, Middle East, Mitochondria genetics, RNA, Ribosomal genetics, RNA, Transfer genetics, Sequence Alignment, Sequence Analysis, DNA, Evolution, Molecular, Genome, Mitochondrial, Lizards genetics, Phylogeny
- Published
- 2008
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19. Assembly of the eastern North American herpetofauna: new evidence from lizards and frogs.
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Macey JR, Schulte JA 2nd, Strasburg JL, Brisson JA, Larson A, Ananjeva NB, Wang Y, Parham JF, and Papenfuss TJ
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- Animal Migration, Animals, Biological Evolution, DNA, Mitochondrial metabolism, Genetic Speciation, Genetic Variation, North America, Biodiversity, Lizards classification, Lizards genetics, Phylogeny, Ranidae classification, Ranidae genetics
- Abstract
Darwin first recognized the importance of episodic intercontinental dispersal in the establishment of worldwide biotic diversity. Faunal exchange across the Bering Land Bridge is a major example of such dispersal. Here, we demonstrate with mitochondrial DNA evidence that three independent dispersal events from Asia to North America are the source for almost all lizard taxa found in continental eastern North America. Two other dispersal events across Beringia account for observed diversity among North American ranid frogs, one of the most species-rich groups of frogs in eastern North America. The contribution of faunal elements from Asia via dispersal across Beringia is a dominant theme in the historical assembly of the eastern North American herpetofauna.
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- 2006
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20. The complete mitochondrial genome of a gecko and the phylogenetic position of the Middle Eastern Teratoscincus keyserlingii.
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Macey JR, Fong JJ, Kuehl JV, Shafiei S, Ananjeva NB, Papenfuss TJ, and Boore JL
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- Animals, DNA, Mitochondrial genetics, Evolution, Molecular, Genetic Variation, Genome, Geological Phenomena, Geology, Middle East, Phylogeny, Time Factors, Lizards classification, Lizards genetics
- Published
- 2005
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21. A phylogeny of Chinese species in the genus Phrynocephalus (Agamidae) inferred from mitochondrial DNA sequences.
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Pang J, Wang Y, Zhong Y, Hoelzel AR, Papenfuss TJ, Zeng X, Ananjeva NB, and Zhang YP
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- Animals, Bayes Theorem, China, Cluster Analysis, Geography, Likelihood Functions, Lizards genetics, DNA, Mitochondrial genetics, Lizards classification, Phylogeny
- Abstract
We investigated the phylogenetic relationships among most Chinese species of lizards in the genus Phrynocephalus (118 individuals collected from 56 populations of 14 well-defined species and several unidentified specimens) using four mitochondrial gene fragments (12S rRNA, 16S rRNA, cytochrome b, and ND4-tRNA(LEU)). The partition-homogeneity tests indicated that the combined dataset was homogeneous, and maximum-parsimony (MP), neighbor-joining (NJ), maximum-likelihood (ML) and Bayesian (BI) analyses were performed on this combined dataset (49 haplotypes including outgroups for 2058bp in total). The maximum-parsimony analysis resulted in 24 equally parsimonious trees, and their strict consensus tree shows that there are two major clades representing the Chinese Phrynocephalus species: the viviparous group (Clade A) and the oviparous group (Clade B). The trees derived from Bayesian, ML, and NJ analyses were topologically identical to the MP analysis except for the position of P. mystaceus. All analyses left the nodes for the oviparous group, the most basal clade within the oviparous group, and P. mystaceus unresolved. The phylogenies further suggest that the monophyly of the viviparous species may have resulted from vicariance, while recent dispersal may have been important in generating the pattern of variation among the oviparous species.
- Published
- 2003
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22. Evaluating trans-tethys migration: an example using acrodont lizard phylogenetics.
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Macey JR, Schulte JA 2nd, Larson A, Ananjeva NB, Wang Y, Pethiyagoda R, Rastegar-Pouyani N, and Papenfuss TJ
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- Animals, Base Sequence, DNA genetics, DNA isolation & purification, DNA Primers, Geography, Lizards classification, Lizards genetics, Phylogeny
- Abstract
A phylogenetic tree for acrodont lizards (Chamaeleonidae and Agamidae) is established based on 1434 bases (1041 informative) of aligned DNA positions from a 1685-1778 base pair region of the mitochondrial genome. Sequences from three protein-coding genes (ND1, ND2, and COI) are combined with sequences from eight intervening tRNA genes for samples of 70 acrodont taxa and two outgroups. Parsimony analysis of nucleotide sequences identifies eight major clades in the Acrodonta. Most agamid lizards are placed into three distinct clades. One clade is composed of all taxa occurring in Australia and New Guinea; Physignathus cocincinus from Southeast Asia is the sister taxon to the Australia-New Guinea clade. A second clade is composed of taxa occurring from Tibet and the Indian Subcontinent east through South and East Asia. A third clade is composed of taxa occurring from Africa east through Arabia and West Asia to Tibet and the Indian Subcontinent. These three clades contain all agamid lizards except Uromastyx, Leiolepis, and Hydrosaurus, which represent three additional clades of the Agamidae. The Chamaeleonidae forms another clade weakly supported as the sister taxon to the Agamidae. All eight clades of the Acrodonta contain members occurring on land masses derived from Gondwanaland. A hypothesis of agamid lizards rafting with Gondwanan plates is examined statistically. This hypothesis suggests that the African/West Asian clade is of African or Indian origin, and the South Asian clade is either of Indian or Southeast Asian origin. The shortest tree suggests a possible African origin for the former and an Indian origin for the latter, but this result is not statistically robust. The Australia-New Guinea clade rafted with the Australia-New Guinea plate and forms the sister group to a Southeast Asian taxon that occurs on plates that broke from northern Australia-New Guinea. Other acrodont taxa are inferred to be associated with the plates of Afro-Arabia and Madagascar (Chameleonidae), India (Uromastyx), or southeast Asia (Hydrosaurus and Leiolepis). Introduction of different biotic elements to Asia by way of separate Gondwanan plates may be a major theme of Asian biogeography. Three historical events may be responsible for the sharp faunal barrier between Southeast Asia and Australia-New Guinea, known as Wallace's line: (1) primary vicariance caused by plate separations; (2) secondary contact of Southeast Asian plates with Eurasia, leading to dispersal from Eurasia into Southeast Asia, and (3) dispersal of the Indian fauna (after collision of that subcontinent) to Southeast Asia. Acrodont lizards show the first and third of these biogeographic patterns and anguid lizards exhibit the second pattern. Modern faunal diversity may be influenced primarily by historical events such as tectonic collisions and land bridge connections, which are expected to promote episodic turnover of continental faunas by introducing new faunal elements into an area. Repeated tectonic collisions may be one of the most important phenomena promoting continental biodiversity. Phylogenetics is a powerful method for investigating these processes.
- Published
- 2000
- Full Text
- View/download PDF
23. Testing hypotheses of vicariance in the agamid lizard Laudakia caucasia from mountain ranges on the northern Iranian Plateau.
- Author
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Macey JR, Schulte JA 2nd, Kami HG, Ananjeva NB, Larson A, and Papenfuss TJ
- Subjects
- Animals, DNA, Mitochondrial, Genetic Variation, Iran, Phylogeny, Turkmenistan, Evolution, Molecular, Lizards classification, Lizards genetics
- Published
- 2000
- Full Text
- View/download PDF
24. Vicariant patterns of fragmentation among gekkonid lizards of the genus Teratoscincus produced by the Indian collision: A molecular phylogenetic perspective and an area cladogram for Central Asia.
- Author
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Macey JR, Wang Y, Ananjeva NB, Larson A, and Papenfuss TJ
- Subjects
- Animals, Asia, Central, Base Sequence, DNA Replication, DNA, Mitochondrial chemistry, DNA, Mitochondrial genetics, Evolution, Molecular, Geography, India, Lizards classification, Molecular Sequence Data, RNA, Transfer, Cys genetics, Sequence Alignment, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Lizards genetics, Phylogeny
- Abstract
A well-supported phylogenetic hypothesis is presented for gekkonid lizards of the genus Teratoscincus. Phylogenetic relationships of four of the five species are investigated using 1733 aligned bases of mitochondrial DNA sequence from the genes encoding ND1 (subunit one of NADH dehydrogenase), tRNA(Ile), tRNA(Gln), tRNA(Met), ND2, tRNA(Trp), tRNA(Ala), tRNA(Asn), tRNA(Cys), tRNA(Tyr), and COI (subunit I of cytochrome c oxidase). A single most parsimonious tree depicts T. przewalskii and T. roborowskii as a monophyletic group, with T. scincus as their sister taxon and T. microlepis as the sister taxon to the clade containing the first three species. The aligned sequences contain 341 phylogenetically informative characters. Each node is supported by a bootstrap value of 100% and the shortest suboptimal tree requires 29 additional steps. Allozymic variation is presented for proteins encoded by 19 loci but these data are largely uninformative phylogenetically. Teratoscincus species occur on tectonic plates of Gondwanan origin that were compressed by the impinging Indian Subcontinent, resulting in massive montane uplifting along plate boundaries. Taxa occurring in China (Tarim Block) form a monophyletic group showing vicariant separation from taxa in former Soviet Central Asia and northern Afghanistan (Farah Block); alternative biogeographic hypotheses are statistically rejected. This vicariant event involved the rise of the Tien Shan-Pamir and is well dated to 10 million years before present. Using this date for separation of taxa occurring on opposite sides of the Tien Shan-Pamir, an evolutionary rate of 0.57% divergence per lineage per million years is calculated. This rate is similar to estimates derived from fish, bufonid frogs, and agamid lizards for the same region of the mitochondrial genome ( approximately 0.65% divergence per lineage per million years). Evolutionary divergence of the mitochondrial genome has a surprisingly stable rate across vertebrates., (Copyright 1999 Academic Press.)
- Published
- 1999
- Full Text
- View/download PDF
25. Phylogenetic relationships among Agamid lizards of the Laudakia caucasia species group: testing hypotheses of biogeographic fragmentation and an area cladogram for the Iranian Plateau.
- Author
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Macey JR, Schulte JA 2nd, Ananjeva NB, Larson A, Rastegar-Pouyani N, Shammakov SM, and Papenfuss TJ
- Subjects
- Animals, Base Pairing, DNA Replication, DNA, Mitochondrial, Genetic Variation, Humans, Iran, Lizards genetics, Molecular Sequence Data, RNA, Transfer genetics, Sequence Alignment, Lizards classification, Phylogeny
- Abstract
Phylogenetic relationships within the Laudakia caucasia species group on the Iranian Plateau were investigated using 1708 aligned bases of mitochondrial DNA sequence from the genes encoding ND1 (subunit one of NADH dehydrogenase), tRNAGln, tRNAIle, tRNAMet, ND2, tRNATrp, tRNAAla, tRNAAsn, tRNACys, tRNATyr, and COI (subunit I of cytochrome c oxidase). The aligned sequences contain 207 phylogenetically informative characters. Three hypotheses for historical fragmentation of Laudakia populations on the Iranian Plateau were tested. In two hypotheses, fragmentation of populations is suggested to have proceeded along continuous mountain belts that surround the Iranian Plateau. In another hypothesis, fragmentation is suggested to have resulted from a north-south split caused by uplifting of the Zagros Mountains in the late Miocene or early Pliocene [5-10 MYBP (million years before present)]. The shortest tree suggest the later hypothesis, and statistical tests reject the other two hypothesis. The phylogenetic tree is exceptional in that every branch is well supported. Geologic history provides dates for most branches of the tree. A plot of DNA substitutions against dates from geologic history refines the date for the north-south split across the Iranian Plateau to 9 MYBP (late Miocene). The rate of evolution for this segment of mtDNA is 0.65% (0.61-0.70%) change per lineage per million years. A hypothesis of area relationships for the biota of the Iranian Plateau is generated from the phylogenetic tree.
- Published
- 1998
- Full Text
- View/download PDF
26. Evolutionary shifts in three major structural features of the mitochondrial genome among iguanian lizards.
- Author
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Macey JR, Larson A, Ananjeva NB, and Papenfuss TJ
- Subjects
- Animals, Base Sequence, Molecular Sequence Data, Phylogeny, Sequence Alignment, DNA, Mitochondrial, Evolution, Molecular, Lizards genetics
- Abstract
A phylogenetic tree for major lineages of iguanian lizards is estimated from 1,488 aligned base positions (858 informative) of newly reported mitochondrial DNA sequences representing coding regions for eight tRNAs, ND2, and portions of ND1 and COI. Two well-supported groups are defined, the Acrodonta and the Iguanidae (sensu lato). This phylogenetic hypothesis is used to investigate evolutionary shifts in mitochondrial gene order, origin for light-strand replication, and secondary structure of tRNACys. These three characters shift together on the branch leading to acrodont lizards. Plate tectonics and the fossil record indicate that these characters changed in the Jurassic. We propose that changes to the secondary structure of tRNACys may destroy function of the origin for light-strand replication which, in turn, may facilitate shifts in gene order.
- Published
- 1997
- Full Text
- View/download PDF
27. Replication slippage may cause parallel evolution in the secondary structures of mitochondrial transfer RNAs.
- Author
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Macey JR, Larson A, Ananjeva NB, and Papenfuss TJ
- Subjects
- Animals, Base Sequence, DNA Primers genetics, DNA, Mitochondrial genetics, Molecular Sequence Data, Nucleic Acid Conformation, Phylogeny, RNA, Mitochondrial, Repetitive Sequences, Nucleic Acid, Reptiles classification, Reptiles genetics, Sequence Deletion, Sequence Homology, Nucleic Acid, Evolution, Molecular, RNA chemistry, RNA genetics, RNA, Transfer, Cys chemistry, RNA, Transfer, Cys genetics
- Abstract
Presence of the dihydrouridine (D) stem in the mitochondrial cysteine tRNA is unusually variable among lepidosaurian reptiles. Phylogenetic and comparative analyses of cysteine tRNA gene sequences identify eight parallel losses of the D-stem, resulting in D-arm replacement loops. Sampling within the monophyletic Acrodonta provides no evidence for reversal. Slipped-strand mispairing of noncontiguous repeated sequences during replication or direct replication slippage can explain repeats observed within cysteine tRNAs that contain a D-arm replacement loop. These two mechanisms involving replication slippage can account for the loss of the cysteine tRNA D-stem in several lepidosaurian lineages, and may represent general mechanisms by which the secondary structures of mitochondrial tRNAs are altered.
- Published
- 1997
- Full Text
- View/download PDF
28. Two novel gene orders and the role of light-strand replication in rearrangement of the vertebrate mitochondrial genome.
- Author
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Macey JR, Larson A, Ananjeva NB, Fang Z, and Papenfuss TJ
- Subjects
- Amino Acid Sequence, Animals, Base Sequence, DNA Primers genetics, DNA Replication genetics, DNA, Mitochondrial genetics, Evolution, Molecular, Genome, Lizards genetics, Molecular Sequence Data, Multigene Family, Nucleic Acid Conformation, Phylogeny, RNA, Transfer, Asn chemistry, RNA, Transfer, Asn genetics, RNA, Transfer, Cys chemistry, RNA, Transfer, Cys genetics, Ranidae genetics, Reptiles genetics, Gene Rearrangement, Vertebrates genetics
- Abstract
Two novel mitochondrial gene arrangements are identified in an agamid lizard and a ranid frog. Statistical tests incorporating phylogeny indicate a link between novel vertebrate mitochondrial gene orders and movement of the origin of light-strand replication. A mechanism involving errors in light-strand replication and tandem duplication of genes is proposed for rearrangement of vertebrate mitochondrial genes. A second mechanism involving small direct repeats also is identified. These mechanisms implicate gene order as a reliable phylogenetic character. Shifts in gene order define major lineages without evidence of parallelism or reversal. The loss of the origin of light-strand replication from its typical vertebrate position evolves in parallel and, therefore, is a less reliable phylogenetic character. Gene junctions also evolve in parallel. Sequencing across multigenic regions, in particular transfer RNA genes, should be a major focus of future systematic studies to locate novel gene orders and to provide a better understanding of the evolution of the vertebrate mitochondrial genome.
- Published
- 1997
- Full Text
- View/download PDF
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