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51 results for “Phrynocephalus”
Gene annotations of Amphibolurus muricatus (jacky dragon), Intellagama lesueurii (Australian water dragon), Phrynocephalus przewalskii (Przewalski's toadhead agama), and Phrynocephalus vlangalii (Ching Hai toadhead agama)
<p><strong>Annotation file and associated FASTA files for <em>A. muricatus</em> assembly AmpMurF_3.0</strong><br> • AmpMurF3.gff3.tar.gz: EVidenceModeler (EVM) gene model annotation file.<br> • AmpMurF3.cds.tar.gz: EVM gene models coding sequences.<br> • AmpMurF3.pep.tar.gz: EVM gene models coding sequences translated into amino acid sequences.</p> <p><strong>Annotation file and associated FASTA files for <em>A. muricatus</em> assembly AmpMurM_3.0</strong><br> • AmpMurM3.gff3.tar.gz: EVidenceModeler (EVM) gene model annotation file.<br> • AmpMurM3.cds.tar.gz: EVM gene models coding sequences.<br> • AmpMurM3.pep.tar.gz: EVM gene models coding sequences translated into amino acid sequences.</p> <p><strong>Annotation file and associated FASTA files for <em>I. lesueurii</em> (Australian water dragon; assembly EWD_hifiasm_HiC generated as part of the AusARG consortium)</strong><br> • Intellagama_lesueurii.evm.final.add_replace_buscoV5_homolog.final.gff3.tar.gz: EVidenceModeler (EVM) gene model annotation file.<br> • Intellagama_lesueurii.evm.final.add_replace_buscoV5_homolog.final.cds.fa.tar.gz: EVM gene models coding sequences.<br> • Intellagama_lesueurii.evm.final.add_replace_buscoV5_homolog.final.pep.fa.tar.gz: EVM gene models coding sequences translated into amino acid sequences.</p> <p><strong>Annotation file and associated FASTA files for <em>P. przewalskii</em> (Przewalski’s toadhead agama; see PMID ID 30808754 and CNGBdb accession no. CNP0000203) </strong><br> • Phrynocephalus_przewalskii.evm.final.add_replace_buscoV5_homolog.gff3.tar.gz: EVidenceModeler (EVM) gene model annotation file.<br> • Phrynocephalus_przewalskii.evm.final.add_replace_buscoV5_homolog.cds.fa.tar.gz: EVM gene models coding sequences.<br> • Phrynocephalus_przewalskii.evm.final.add_replace_buscoV5_homolog.pep.fa.tar.gz: EVM gene models coding sequences translated into amino acid sequences.</p> <p><strong>Annotation file and associated FASTA files for <em>P. vlangalii</em> (Ching Hai toadhead agama; see PMID ID 30808754 and CNGBdb accession no. CNP0000203)</strong><br> • Phrynocephalus_vlangalii.evm.final.add_replace_busco_homolog.gff3.tar.gz: EVidenceModeler (EVM) gene model annotation file.<br> • Phrynocephalus_vlangalii.evm.final.add_replace_busco_homolog.cds.fa.tar.gz: EVM gene models coding sequences.<br> • Phrynocephalus_vlangalii.evm.final.add_replace_busco_homolog.pep.fa.tar.gz: EVM gene models coding sequences translated into amino acid sequences.</p>
Figure 5. A. Trapelus persicus. B. Phrynocephalus arabicus. C. Phrynocephalus longicaudatus. D. Adult Uromastyx aegyptia. E in Reptiles and Amphibians along the Coastal Area of the Eastern Province, Saudi Arabia
Figure 5. A. Trapelus persicus. B. Phrynocephalus arabicus. C. Phrynocephalus longicaudatus. D. Adult Uromastyx aegyptia. E. Subadult Uromastyx aegyptia (Photo by A. Almusabeh).
FIGURE 18 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 18. Highest maximum-likelihood tree (-ln = 8673.71) from the 2760 aligned nuclear RAG-1 DNA positions. The maximum-likelihood analysis chose one of the 62 equally parsimonious trees. Bootstrap values are presented above branches and comparative parsimony decay indices are presented below branches in bold (Macey 2005). Branches that appear in parsimony analyses have the parsimony decay index plotted. Branches with no parsimony cost but are not present in strict consensus trees are listed as a "0" decay value. Branches that conflict with the parsimony analysis have a negative decay value representing the number of parsimony steps cost to obtain the maximum-likelihood branch. Bold italic bootstraps are those that differ from parsimony analysis. A dash above a branch is one that had a bootstrap value above 50% in the parsimony analysis but does not in this analysis. Outgroups (Laudakia, Bufoniceps, and Trapelus), and Phrynocephalus clades and lineages previously identified are labeled to the right as A–M (clades that are broken are numbered).
PLATE VIII. Outgroup taxa and Phrynocephalus mimicry adaptations. (A) Laudakia caucasia; (B) habitat of A, Big Balkan Mountains, Turkmenistan; (C) Trapelus sanguinolentus; (D) habitat of C, Repetek, Karakum Desert, Turkmenistan; (E) P. turcomanus illustrating false large head with eyes on body-back; and (F) P. mystaceus illustrating false enlarged mouth with red capillary-beds. in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE VIII. Outgroup taxa and Phrynocephalus mimicry adaptations. (A) Laudakia caucasia; (B) habitat of A, Big Balkan Mountains, Turkmenistan; (C) Trapelus sanguinolentus; (D) habitat of C, Repetek, Karakum Desert, Turkmenistan; (E) P. turcomanus illustrating false large head with eyes on body-back; and (F) P. mystaceus illustrating false enlarged mouth with red capillary-beds.
PLATE VI in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE VI. Species of the northern Tibetan Plateau. (A) P. hongyuanensis; (B) habitat of A, near Waqên, northeastern Tibet in Sichuan Province; (C) P. roborowskii-1; (D) habitat of C, Chaka Depression, Qinghai Province; (E) P. vlangalii-1; and (F) habitat of E, near Heimahe, south side of Qinghai Lake, Qinghai Province.
FIGURE 4 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 4. Strict consensus of three equally parsimonious trees of 4425 steps from the 1595 included (839 informative) aligned mitochondrial DNA positions. Bootstrap values are presented above branches and decay indices are presented below branches in bold. Outgroups (Laudakia, Bufoniceps, and Trapelus), and well-supported Phrynocephalus clades and lineages are identified to the right as A–M.
PLATE VII. Species of the low elevation deserts in China (A-D) and northern Caspian Basin in Russia (E-F). (A) P. przewalskii-3; (B) habitat of A, Shapatou (foreground), Yellow River, Gobi Desert, Ningxia; (C) P. salenskyi-1; (D) habitat of C, near Jimsar, Junggar Depression, Xinjiang; (E) P. guttatus; and (F) habitat of E, west side of Caspian Sea in Dagestan. in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE VII. Species of the low elevation deserts in China (A-D) and northern Caspian Basin in Russia (E-F). (A) P. przewalskii-3; (B) habitat of A, Shapatou (foreground), Yellow River, Gobi Desert, Ningxia; (C) P. salenskyi-1; (D) habitat of C, near Jimsar, Junggar Depression, Xinjiang; (E) P. guttatus; and (F) habitat of E, west side of Caspian Sea in Dagestan.
PLATE IV in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE IV. Small species inhabiting hard substrates in the Caspian Basin of Turkmenistan. (A) P. rossikowi; (B) habitat of A, along the Amu-Darya River; (C) P. raddei; (D) habitat of C, Karakum Desert, north of Ashkhabad; (E) P. bannikovi; and (F) habitat of E, Big Balkan Mountains.
PLATE III. Species of southern Tibet and soft substrate habitats in the Caspian Basin. (A) P. theobaldi; (B) habitat of A, near Yangbajain, north of Lhasa, southern Tibet; (C) P. sogdianus; (D) P. interscapularis; (E) P. mystaceus; and (F) habitat of D and E, Karakum Desert. north of Ashkhabad, Turkmenistan. in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE III. Species of southern Tibet and soft substrate habitats in the Caspian Basin. (A) P. theobaldi; (B) habitat of A, near Yangbajain, north of Lhasa, southern Tibet; (C) P. sogdianus; (D) P. interscapularis; (E) P. mystaceus; and (F) habitat of D and E, Karakum Desert. north of Ashkhabad, Turkmenistan.
PLATE V in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE V. Large species inhabiting hard substrates in the Caspian Basin of Turkmenistan (A-D) and Kazakhstan (E-F). (A) P. golubewii; (B) habitat of A, near Bami, southern edge of Karakum Desert; (C) P. turcomanus; (D) habitat of C, southern edge of Karakum Desert; (E) P. helioscopus; and (F) habitat of E, Barsakel'mes Island, Aral Sea.
PLATE II in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE II. Species of the Helmand Basin in Afghanistan and Iranian Plateau. (A) P. luteoguttatus; (B) P. clarkorum; (C) P. ornatus; (D) habitat of A and B, Registan Desert, Afghanistan; (E) P. scutulatus; and (F) habitat of E, near Khabr, southern Iran.
PLATE I in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
PLATE I. Species of the Arabian Peninsula and Iranian Plateau. (A) P. arabicus-2; (B) habitat of A, near Al Ashkhara, Oman; (C) P. longicaudatus; (D) habitat of C, near Al Hij, Bar Al Hikman Peninsula, Oman; (E) P. maculatus-2; and (F) habitat of E, near Sirjan, southern Iran.
FIGURE 2 in New species of Phrynocephalus (Squamata, Agamidae) from Qinghai, Northwest China
FIGURE 2. Frequency distributions of adult SVL of two species of toad-headed lizards, P. guinanensis sp. nov. (from Senduo, Guinan County) and P. vlangalii (from Daotanghe, Gonghe County).
FIGURE 1 in New species of Phrynocephalus (Squamata, Agamidae) from Qinghai, Northwest China
FIGURE 1. The adult male holotype (NNU P 2004.006; A: dorsal view, C: ventral view) and an adult female paratype (NNU P 2004.033; B: dorsal view, D: ventral view) of Phrynocephalus guinanensis sp. nov. from Senduo, Guinan County, Qinghai Province, China. Photo by Guo-Hua Ding.
FIGURE 4 in A New Iranian Phrynocephalus (Reptilia: Squamata: Agamidae) from the hottest place on earth and a key to the genus Phrynocephalus in southwestern Asia and Arabia
FIGURE 4. Phrynocephalus lutensis sp. nov. Photos of head. All photos by K. Kamali i. Phynocephalus lutensis sp. nov. ♂ holotype. Lateral head.
FIGURE 2 in A New Iranian Phrynocephalus (Reptilia: Squamata: Agamidae) from the hottest place on earth and a key to the genus Phrynocephalus in southwestern Asia and Arabia
FIGURE 2. Habitat (type locality) of Phrynocephalus lutensis sp. nov.. Dasht-e Lut (Lut Desert), Kerman Province, Iran. Photo M. Ghazvinian.
FIGURE 16 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 16. Evolution of habitat usage among Phrynocephalus species and populations including outgroups. Rock habitat is only used by the outgroup Laudakia. Hard substrates are clay, gravel, and dry lakebed. Soft substrates are small sand dune and large sand dune. See table 5 and the methods section for details of habitat categories, and plates I–VIII for images of habitats with species.
FIGURE 15. Maximum glaciation 18,000 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 15. Maximum glaciation 18,000 years before present. Much of northern Asia was never fully glaciated, unlike most of high-latitude North America and Europe, lending the possibility of an old history in the north. The map is redrawn from McIntrye et al. (1976).
FIGURE 13 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 13. Late Miocene (6.0–5.5 MYBP) with the Caspian Basin, Black Sea and Mediterranean Sea as evaporitic regions. The minimal extent of water in the Caspian Basin may have promoted dispersal events among Phrynocephalus populations. The map is after Steininger & Rogl (1984).
FIGURE 12 in A molecular phylogenetic hypothesis for the Asian agamid lizard genus Phrynocephalus reveals discrete biogeographic clades implicated by plate tectonics
FIGURE 12. Tectonic setting for the formation of mountain belts in central and Southwest Asia at 10 MYBP, Late Miocene. The map is after Dercourte et al. (1986) and uplifting in the Pamir and Karakoram mountains is schematic after Tapponier et al. (1981). Tectonic processes depicted here continue today. During the late Miocene (10 MYBP, Tortonian), India wedged deeply into Eurasia, and Arabia began indentation into Iran (composed of Cimmerian Plates). The Pamir Mountains were experiencing intense uplifting during the Late Miocene (10 MYBP). The indentation of Arabia into Iran in the Late Miocene (10 MYBP) began the formation of the Zagros Mountains in the southern part of the Iranian Plateau. In the northern part of the Iranian Plateau, the Lesser Caucasus Mountains and Kopet-Dagh began uplifting in the early Pliocene (5 MYBP). Plates are labeled in capital letters and ancient Gondwanan Plates (Cimmerian Plates) are Iran (Lut), Farah, and Helmand. Note that the indentations of both India and Arabia are compressing the Cimmerian Plates and causing intense mountain building along paleo-sutures of these plates.
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