Molecular systematics of Stenodactylus (Gekkonidae), an Afro-Arabian gecko species complex

Molecular Phylogenetics and Evolution

Volumn 58, Issue 1, 2011, Pages 71-75

  Fujita, Matthew K ^a   Papenfuss, Theodore J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Afro Arabia; Phylogenetics; Red Sea; Species tree; Wahiba Sands

Indexed keywords

ANIMAL; ARTICLE; CLASSIFICATION; GENETICS; LIZARD; MITOCHONDRIAL GENE; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY;

ANIMALS; GENES, MITOCHONDRIAL; LIZARDS; MOLECULAR SEQUENCE DATA; PHYLOGENY;

GEKKONIDAE; STENODACTYLUS; TROPIOCOLOTES;

EID: 78650982380     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2010.10.014     Document Type: Article

References (33)

1. Anderson S.C. The Lizards of Iran 1999, Society for the Study of Amphibians and Reptiles, New York.
2. Arnold, E.N., 1977. The scientific results of the Oman Flora and Fauna Survey 1975. Little known geckos from Arabia with descriptions of two new species from the Sultanate of Oman. J. Oman Studies, Special Report 1, 81-110.
3. Arnold E.N. Reptiles of Saudi Arabia: a review of the lizard genus Stenodactylus (Reptilia:Gekkonidae). Fauna Saudi Arabia 1980, 2:368-404.
4. Arnold E.N., Robinson M.D., Carranza S. A preliminary analysis of phylogenetic relationships and biogeography of the dangerously venomous Carpet Vipers, Echis (Squamata, Serpentes, Viperidae) based on mitochondrial DNA sequences. Amphibia-Reptilia 2009, 30:273-282.
5. Baha el Din S.M. A Guide to the Reptiles and Amphibians of Egypt 2006, The American University in Cairo Press, New York, 359pp.
6. Brandley M.C., Schmitz A., Reeder T.W. Partitioned Bayesian analyses, partition choice, and the phylogenetic relationship of scincid lizards. Syst. Biol. 2005, 54(3):373-390.
7. Brown J.M., Lemmon A.R. The importance of data partitioning and the utility of Bayes factors in Bayesian phylogenetics. Syst. Biol. 2007, 56(4):643-655.
8. Carranza S., Arnold E.N., Geniez P., Roca J., Mateo J.A. Radiation, multiple dispersal and parallelism in the skinks, Chalcides and Sphenops (Squamata: Scincidae), with comments on Scincus and Scincopus and the age of the Sahara Desert. Mol. Phylogenet. Evol. 2008, 46:1071-1094.
9. Edgar R.C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004, 32:1792-1797.
10. Edwards S. Is a new and general theory of molecular systematics emerging?. Evolution 2009, 63:1-19.
11. Edwards S.V., Liu L., Pearl D.K. High-resolution species trees without concatenation. Proc. Natl. Acad. Sci. USA 2007, 104:5936-5941.
12. Espregueira Themudo G., Wielstra B., Arntzen J.W. Multiple nuclear and mitochondrial genes resolve the branching order of a rapid radiation of crested newts (Triturus, Salamandridae). Mol. Phylogenet. Evol. 2009, 52:321-328.
13. Excoffier L., Laval G., Schneider S. Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evol. Bioinformatics Online 2005, 1:47-50.
14. Fujita M., McGuire J.A., Donnellan S.C., Moritz C. Diversification and persistence at the arid-monsoonal interface: Australia-wide biogeography of the Bynoe's gecko (Heteronotia binoei; Gekkonidae). Evolution 2010, 64(8):2293-2314.
15. Haas G. Some amphibians and reptiles from Arabia. Proc. CA Acad. Sci. 1957, 29:47-86.
16. Kluge A.G. Higher taxonomic categories of gekkonid lizards and their evolution. B. Am. Mus. Nat. Hist. 1967, 135:1-59. (Pls. 1-5).
17. Knowles L. Estimating species trees: methods of phylogenetic analysis when there is incongruence across genes. Syst. Biol. 2009, 58:463-467.
18. Kratchovil L., Frynta S., Moravec J. A third Stenodactylys in Africa: return of the forgotten form Stenodactylus stenurus. Isr. J. Zool. 2001, 47:99-109.
19. Kubatko L.S., Degnan J.H. Inconsistency of phylogenetic estimates from concatenated data under coalescence. Syst. Biol. 2007, 56:17-24.
20. Liu L., Pearl D.K. Species trees from gene trees: reconstructing Bayesian posterior distributions of a species phylogeny using estimated gene tree distributions. Syst. Biol. 2007, 56:504-514.
21. Liu L., Pearl D.K., Brumfield R., Edwards S.V. Estimating species trees using multiple-allele DNA sequence data. Evolution 2008, 62:2080-2091.
22. Macey J.R., Fong J.J., Kuehl J.V., Shafiei S., Ananjeva N.B., Papenfuss T.J., Boore J.L. The complete mitochondrial genome of a gecko and the phylogenetic position of the Middle Eastern Teratoscincus keyserlingii. Mol. Phylogenet. Evol. 2005, 36:188-193.
23. Macey J.R., Wang Y., Ananjeva N.B., Larson A., Papenfuss T.J. 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. Mol. Phylogenet. Evol. 1999, 12:320-332.
24. Nylander J.A., Wilgenbusch J.C., Warren D.L., Swofford D.L. AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics. Bioinformatics 2008, 24:581-583.
25. Nylander, J.A.A., 2004. MrModeltest version 2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University.
26. Papenfuss T.J., Jackman T., Bauer A., Stuart B.L., Robinson M.D., Parham J.F. Phylogenetic relationships among species in the Sphaerodactylid lizard Genus Pristurus. Proc. CA Acad. Sci. S. 2009, 60:675-681.
27. Papenfuss T.J., Jackman T., Bauer A., Stuart B.L., Robinson M.D., Parham J.F. Phylogenetic relationships among species of Southwest Asian Leaf-toed geckos (Asaccus). Proc. CA Acad. Sci. S. 2010, 60:675-681.
28. Pook C.E., Joger U., Stümpel N., Wüster W. When continents collide: phylogeny, historical biogeography and systematics of the medically important viper genus Echis (Squamata: Serpentes: Viperidae). Mol. Phylogenet. Evol. 2009, 53:792-807.
29. Preusser F., Radies D., Driehorst Y.F., Matter A. Late Quaternary history of the coastal Wahiba Sands, Sultanate of Oman. J. Quat. Sci. 2005, 20:395-405.
30. Rambaut, A., Drummond, A., 2009. Tracer v1.5, Available from: http://www.beast.bio.ed.ac.uk/Tracer.
31. Ronquist F., Huelsenbeck J.P. MrBayes 3: bayesian phylogenetic inference under mixed models. Bioinformatics 2003, 19:1572-1574.
32. Swofford D.L. PAUP*: Phylogenetic Analysis Using Parsimony (* and other methods). Version 4 2003, Sinauer Associates, Sunderland, MA.
33. Townsend T.M., Alegre R.E., Kelley S.T., Wiens J.J., Reeder T.W. Rapid development of multiple nuclear loci for phylogenetic analysis using genomic resources: an example from squamate reptiles. Mol. Phylogenet. Evol. 2008, 47:129-142.