Light at the end of the tunnel: insights into the molecular systematics of East African puddle frogs (Anura: Phrynobatrachidae)

Systematics and Biodiversity

Volumn 8, Issue 1, 2010, Pages 39-47

  Zimkus, Breda M ^a   Schick, Susanne ^b  

^a HARVARD UNIVERSITY   (United States)

^b UNIVERSITY OF TRIER   (Germany)

Author keywords

16S rRNA; DNA; Ethiopia; Genetic divergence; Kenya; Phrynobatrachus; Tanzania; Uganda

Indexed keywords

AMPHIBIA; ANURA; PHRYNOBATRACHUS; PHRYNOBATRACHUS ACRIDOIDES; PHRYNOBATRACHUS MABABIENSIS; PHRYNOBATRACHUS NATALENSIS;

EID: 78650100266     PISSN: 14772000     EISSN: 14780933     Source Type: Journal    
DOI: 10.1080/14772000903543004     Document Type: Article

References (45)

1. BARRETT, R.D.H. & HEBERT, P.D.N. 2005. Identifying spiders through DNA barcodes. Canadian Journal of Zoology 83, 481-491.
2. CHANNING, A. & HOWELL, K.M. 2006. Amphibians of East Africa. Cornell University Press, Ithaca, NY.
3. CLEMENT, M., POSADA, D. & CRANDALL, K.A. 2000. TCS: a computer program to estimate gene genealogies. Molecular Ecology 9, 1657-1660.
4. CRUTSINGER, G., PICKERSGILL, M., CHANNING, A. & MOYER, D. 2004. A new species of Phrynobatrachus (Anura: Ranidae) from Tanzania. African Zoology 39, 19-23.
5. DARST, C.R. & CANNATELLA, D.C. 2004. Novel relationships among hyloid frogs inferred from 12S and 16S mitochondrial DNA sequences. Molecular Phylogenetics and Evolution 31, 462-475.
6. FOUQUET, A., GILLES, A., VENCES, M., BLAC, M. & GEMMELL, N.J. 2007. Underestimation of species richness in neotropical frogs revealed by mtDNA analyses. Public Library of Science ONE 2, e1109.
7. FROST, D.R. (ed.). 1985. Amphibian Species of the World: A Taxonomic and Geographical Reference. Allen Press, Inc. and The Association of Systematics Collections, Lawrence, Kansas. 732 pp.
8. FROST, D.R. 2009. Amphibian Species of the World: an Online Reference. Version 5.2 (15 July, 2008). Electronic Database accessible at http://research.amnh.org/herpetology/ amphibia/index.php (accessed 4 December 2009). American Museum of Natural History, New York.
9. GASCON, C., COLLINS, J.P., MOORE, R.D., CHURCH, D.R., MCKAY, J.E. & MENDELSON, J.R. III (eds). 2007. Amphibian Conservation Action Plan. IUCN/SSC Amphibian Specialist Group. Gland, Switzerland and Cambridge, UK, 64 pp.
10. HEBERT, P.D.N., CYWINSKA, A.,BALL, S.L. & DEWAARD, J.R. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society London Series B, Biological Sciences 270, 313-322.
11. HEBERT, P.D.N. & GREGORY, T.R. 2005. The promise of DNA barcoding for taxonomy. Systematic Biology 54, 852-859.
12. HEBERT, P.D.N., STOECKLE, M.Y., ZEMLAK, T.S. & FRANCIS, C.M. 2004. Identification of birds through DNA barcodes. Public Library of Science, Biology 2, e312.
13. HILLIS, D.M. & BULL, J.J. 1993. An empirical test of bootstrapping as amethod for assessing confidence in phylogenetic analysis. Systematic Biology 42, 182-192.
14. HUELSENBECK, J.P. & RONQUIST, F. 2001. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754-755. IUCN. 2008. IUCN Red List of Threatened Species. http://www. iucnredlist.org (accessed 11 October 2009).
15. KÖHLER, J., VIEITES, D.R., BONETT, R., GARCÏA, F.H., GLAW, F., STEINKE, D. & VENCES,M. 2005. New amphibians and global conservation: a boost in species discoveries in a highly endangered vertebrate group. Bioscience 55, 693-696.
16. KRESS, W.J. & ERICKSON, D.L. 2008. DNA barcoding-a windfall for tropical biology? Biotropica 40, 405-408.
17. LARGEN, M. 1997. An annotated checklist of the amphibians and reptiles of Eritrea, with keys for their identification. Tropical Zoology 10, 63-115.
18. LARGEN, M.J. 2001. The status of the genus Phrynobatrachus Günther 1862 in Ethiopia and Eritrea, including description of a newspecies (AmphibiaAnuraRanidae). Tropical Zoology 14, 287-306.
19. LEVITON, A.E., GIBBS, R.H., HEAL, E. & DAWSON, C.E. 1985. Standards in herpetology and ichthyology: Part I. Standard symbolic codes for institutional resource collections in herpetology and ichthyology. Copeia 1985, 802-832.
20. MADDISON, D.R. & MADDISON, W.P. 2000. MacClade. Sinauer Associates, Sunderland, MA.
21. MORITZ, C. & CICERO, C. 2004. DNA barcoding: promise and pitfalls. Public Library of Science, Biology 2, e279.
22. NYLANDER, J.A.A. 2004. MrModeltest v2. Program distributed by the author. Evolutionary Biology Centre, Uppsala University.
23. PALUMBI, S.R. 1996. Nucleic acids II: The polymerase chain reaction. In: HILLIS, D.M., MABLE, B.K. & MORITZ, C., Eds., Molecular Systematics, 2nd edition, Sinauer Associates, Sunderland, MA, pp. 205-247.
24. PALUMBI, S.R.,MARTIN, A.,ROMANO, S.,MCMILLAN,W.O., STICE, L. & GRABOWSKI, G. 1991. The Simple Fool's Guide to PCR. University of Hawaii, Honolulu, 46 pp.
25. PFENNINGER, M. & POSADA, D. 2002. Phylogeographic history of the land snail Candidula unifasciata (Helicellinae, Stylommatophora): fragmentation, corridor migration, and secondary contact. Evolution 56, 1776-1788.
26. PICKERSGILL, M. 2007. Frog Search. Scientific Results of Expeditions to Southern and Eastern Africa. Edition Chimaira, Frankfurt. RAHARIVOLOLONIAINAA, L., GROSJEAN, S., RAMINOSOAA, N.R., GLAW, F. & VENCES, M. 2006. Molecular identification, description, and phylogenetic implications of the tadpoles of 11 species of Malagasy treefrogs, genus Boophis. Journal of Natural History 40, 1449-1480.
27. RÖDEL, M.-O. 2000. Herpetofauna of West Africa Volume I. Amphibians of the West African Savanna. Edition Chimaira, Frankfurt.
28. RÖDEL, M.-O. & ERNST, R. 2002. A new Phrynobatrachus from the Upper Guinean rain forest, West Africa, including a description of a new reproductive mode for the genus. Journal of Herpetology 36, 561-571.
29. SCHICK, S., ZIMKUS, B.M., CHANNING, A.,KÖHLER, J. & LÖTTERS, S. 2010. Systematics of 'LittleBrown Frogs' from EastAfrica: recognition of Phrynobatrachus scheffleri and description of a new species from the Kakamega Forest, Kenya (Anura: Phrynobatrachidae). Salamandra 46, 24-36.
30. SMITH,M.A., POYARKOV,N.A. & HERBERT, P.D.N. 2008.CO1DNA barcoding amphibians: take the chance, meet the challenge. Molecular Ecology Notes 8, 235-246.
31. STEWART, M.M. 1974. Parallel pattern polymorphism in the genus Phrynobatrachus (Amphibia: Ranidae). Copeia 1974, 823-832.
32. SWOFFORD, D.F. 2002. PAUP*. Phylogenetic analysis using parsimony (*and other methods). Version 4.0.b.10. Sinauer Associates, Sunderland, MA.
33. TAMURA, K., DUDLEY, J., NEI, M. & KUMAR, S. 2007. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Molecular Biology and Evolution 24, 1596-1599.
34. TEMPLETON, A.R., CRANDALL, K.A. & SING, C.F. 1992. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132, 619-633.
35. THOMPSON, J.D., GIBSON, T.J., PLEWNIAK, F., JEANMOUGIN, F. & HIGGINS, D.G. 1997. The ClustalXwindows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 24, 4876-4882.
36. UYEDA, J.C., DREWES, R.C. & ZIMKUS, B.M. 2007. The California Academy of Sciences Gulf of Guinea Expeditions (2001, 2006) VI. A new species of Phrynobatrachus from the Gulf of Guinea Islands and a reanalysis of Phrynobatrachus dispar and P. feae (Anura: Phrynobatrachidae). Proceedings of the California Academy of Sciences 58, 367-385.
37. VENCES, M., THOMAS, M., BONETT, R.M. & VIEITES, D.R. 2005a. Deciphering amphibian diversity through DNA barcoding: chances and challenges. Philosophical Transactions of the Royal Society of London, Series B, Biological Sciences 360, 1859-1868.
38. VENCES, M., THOMAS, M., VAN DER MEIJDEN, A., CHIARI, Y. & VIEITES, D.R. 2005b. Comparative performance of the 16S rRNA gene in DNA barcoding of amphibians. Frontiers in Zoology 2, 5.
39. VIEITES, R.,WOLLENBERG,K.C., ANDREONE, F.,KÖHLER, J.,GLAW, F. & VENCES,M. 2009. Vast underestimation ofMadagascar's biodiversity evidenced by an integrative amphibian inventory. Proceedings of the National Academy of Sciences USA 106, 8267-8272.
40. WARD, R.D., ZEMLAK, T.S., INNES, B.H., LAST, P.R. & HEBERT, P.D.N. 2005. Barcoding Australia's fish species. Philosophical Transactions of the Royal Society of London, Series B, Biological Sciences 360, 1847-1857.
41. WILCOX, T.P., ZWICKL, D.J., HEATH, T.A. & HILLIS, D.M. 2002. Phylogenetic relationships of the dwarf boas and a comparison of Bayesian and bootstrap measures of phylogenetic support. Molecular Phylogenetics and Evolution 25, 361-371.
42. WILL, K.W., MISHLER, B.D. & WHEELER, Q.D. 2005. The perils of DNA barcoding and the need for integrative taxonomy. Systematic Biology 54, 844-851.
43. WILLASSEN, E. 2005. New species of Diamesa (Diptera: Chironomidae) from Tibet: conspecific males and females associated with mitochondrial DNA. Zootaxa 1049, 19-32.
44. ZIMKUS, B.M. & BLACKBURN, D.C. 2008. Distinguishing features of the sub-Saharan frog genera Arthroleptis and Phrynobatrachus: a short guide for field and museum researchers. Breviora 513, 1-12.
45. ZWICKL, D.J. 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence datasets under the maximum likelihood criterion. Ph.D. dissertation, The University of Texas at Austin.