A multigene phylogeny of the fly superfamily Asiloidea (Insecta): Taxon sampling and additional genes reveal the sister-group to all higher flies (Cyclorrhapha)

Molecular Phylogenetics and Evolution

Volumn 56, Issue 3, 2010, Pages 918-930

  Trautwein, Michelle D ^a   Wiegmann, Brian M ^a   Yeates, David K ^b  

^a NORTH CAROLINA STATE UNIVERSITY   (United States)

^b CSIRO   (Australia)

Author keywords

Additional genes; Apystomyia; Asiloidea; Congruence; Cyclorrhapha; Diptera; Eremoneura; Four cluster likelihood mapping; Rapid radiation; Rogue taxa; Taxon sampling; Topological stability

Indexed keywords

NUCLEAR PROTEIN; RIBOSOME DNA; RNA 18S;

ANIMAL; ARTICLE; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; FLY; GENE; GENETICS; MOLECULAR EVOLUTION; PHYLOGENY; STATISTICAL MODEL;

ANIMALS; CLUSTER ANALYSIS; DIPTERA; DNA, RIBOSOMAL; EVOLUTION, MOLECULAR; GENES, INSECT; LIKELIHOOD FUNCTIONS; NUCLEAR PROTEINS; PHYLOGENY; RNA, RIBOSOMAL, 18S; SEQUENCE ANALYSIS, DNA;

APYSTOMYIA; ASILOIDEA; BOMBYLIIDAE; DIPTERA; EMPIDOIDEA; HILARIMORPHA; INSECTA; METAZOA; MUSCOMORPHA;

EID: 77954426028     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2010.04.017     Document Type: Article

References (52)

1. Bertone M.A., Courtney G.W., Wiegmann B.M. Phylogenetics and temporal diversification of the earliest true flies (Insecta: Diptera) based on multiple nuclear genes. Syst. Entomol. 2008, 33:668-687.
2. Blagoderov V., Grimaldi D.A., Fraser N.C. How time flies for flies: diverse Diptera from the Triassic of Virginia and early radiation of the order. Am. Mus. Novit. 2007, 3572:1-40.
3. Bybee S.M., Taylor S.D., Nelson C., Whiting M.F. A phylogeny of robber flies (Diptera: Asilidae) at the subfamilial level: molecular evidence. Mol. Phylogenet. Evol. 2004, 30:789-797.
4. Cumming J.M., Sinclair B.J., Wood D.M. Homology and phylogenetic implications of male genitalia in Diptera-Eremoneura. Insect Syst. Evol. 1995, 26:121-151.
5. Davies T.J., Barraclough T.G., Chase M.W., Soltis P.S., Soltis D.E., Savolainen V. Darwin's abominable mystery: insights from a supertree of the angiosperms. Proc. Natl. Acad. Sci. USA 2004, 101:1904-1909.
6. Dikow T. Phylogeny of Asilidae inferred from morphological characters of imagines (Insecta: Diptera: Brachycera: Asiloidea). Bull. Am. Mus. Nat. Hist. 2009, 319:1-175.
7. Evenhuis N.L. Catalog of the Mythicomyiidae of the World (Insecta: Diptera). Bishop Mus. Bull. Entomol. 2002, 10:1-85.
8. Grimaldi D., Engel M.S. Evolution of the Insects 2005, Cambridge, New York.
9. Hardy N.B. Phylogenetic utility of dynamin and triose phosphate isomerase. Syst. Entomol. 2007, 32:396-403.
10. Hennig W. Diptera (Zweiflügler). Handbuch der Zoologie. IV Band. 2 Hälfte: Insecta. 2 Teil: Spezielles. 31 1973, 337. Walter De Gruyter, Berlin. J.G. Helmcke, D. Starck, H. Wermuth (Eds.).
11. Huelsenbeck J.P., Ronquist F. MrBayes: Bayesian inference of phylogeny. Bioinformatics 2001, 17:754-755.
12. Hull F.M. Bee flies of the world: the genera of the family Bombyliidae. Bull. U. S. Nat. Mus. 1973, 286:1-687.
13. Irwin M.E., Wiegmann B.M. A review of the southern African genus Tongamya (Diptera: Asiloidea: Mydidae: Megascelinae), with molecular assessment of the phylogenetic placement of Tongamya and the Megascelinae. Afr. Invert. 2001, 42:225-253.
14. Lecointre G., Philippe H., Lê H.L.V., Le Guyader H. Species sampling has a major impact on phylogenetic inference. Mol. Phylogenet. Evol. 1993, 2:205-224.
15. Maddison D.R., Baker M.D., Ober K.A. Phylogeny of carabid beetles inferred from 18S rDNA (Coleoptera: Carabidae). Syst. Entomol. 1999, 24:103-138.
16. Melander A.L. Taxonomic notes on some smaller Bombyliidae (Diptera). Pan-Pac. Entomol. 1950, 26:139-156.
17. Moulton J.K., Wiegmann B.M. Evolution and phylogenetic utility of CAD (rudimentary) among Mesozoic-aged eremoneuran Diptera (Insecta). Mol. Phylogenet. Evol. 2004, 31:363-378.
18. Moulton J.K., Wiegmann B.M. The phylogenetic relationships of flies in the superfamily Empidoidea (Insecta: Diptera). Mol. Phylogenet. Evol. 2007, 43:701-713.
19. Nagatomi A., Saigusa T., Nagatomi H., Lyneborg L. The systematic position of the Apsilocephalidae, Rhagionempididae, Protempididae, Hilarimorphidae, Vermileonidae and some genera of Bombyliidae (Insecta, Diptera). Zool. Sci. 1991, 8:593-607.
20. Nagatomi A., Liu N. Apystomyidae, a new family of Asiloidea (Diptera). Acta Zool. Acad. Sci. Hung. 1994, 40:203-218.
21. Nylander J.A.A. MrModeltest v2.2 Program Distributed by Author 2004, Evolutionary Biology Centre, Uppsala University.
22. Poe S., Chubb A.L. Birds in a bush: five genes indicate explosive evolution of avian orders. Evolution 2004, 58:404-415.
23. Rambaut, A., 2002. Sequence alignment editor, Version 2.0. Available as shareware from: http://evolve.zoo.ox.ac.uk/index.html.
24. Rokas A., Kruger D., Carroll S.B. Animal evolution and the molecular signature of radiations compressed in time. Science 2005, 310:1933-1938.
25. Rokas A., Carroll S.B. More genes or more taxa? The relative contribution of gene number and taxon number to phylogenetic accuracy. Mol. Biol. Evol. 2005, 22:1337-1344.
26. Rydin C., Razafimandimbison S.G., Bremer B. Rare and enigmatic genera (Dunnia, Schizocolea, Colletoecema), sisters to species-rich clades: phylogeny and aspects of conservation biology in the coffee family. Mol. Phylogenet. Evol. 2008, 48:74-83.
27. Rosenberg M.S., Kumar S. Incomplete taxon sampling is not a problem for phylogenetic inference. Proc. Natl. Acad. Sci. USA 2001, 98:10751-10756.
28. Sanderson M.J., Shaffer H.B. Troubleshooting molecular phylogenetic analyses. Ann. Rev. Ecol. Syst. 2002, 33:49-72.
29. Schmidt H.A., Strimmer K., Vingron M., Von Haeseler A. TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 2002, 18:502-504.
30. Scheffer S.J., Winkler I.S., Wiegmann B.M. Phylogenetic relationships within the leaf-mining flies (Diptera: Agromyzidae) inferred from sequence data of multiple genes. Mol. Phylogenet. Evol. 2007, 42:756-775.
31. Sinclair B.J., Cumming J.M., Wood D.M. Homology and phylogenetic implications of male genitalia in Diptera-Lower Brachycera. Entomol. Scand. 1994, 24:407-432.
32. Sinclair B.J., Cumming J.M. The morphology, higher-level phylogeny and classification of the Empidoidea (Diptera). Zootaxa 2006, 1180:51.
33. Soltis P.S., Soltis D.E., Chase M.W. Angiosperm phylogeny inferred from multiple genes as a tool for comparative biology. Nature 1999, 402:402-404.
34. Swofford D.L. PAUP*. Phylogenetic Analysis Using Parsimony (* and Other Methods) Version 4 2002, Sinauer Associates, Sunderland, MA.
35. Strimmer K., Von Haeseler A. Likelihood-mapping: a simple method to visualize phylogenetic content of a sequence alignment. Proc. Nat. Acad. Sci. USA 1997, 94:6815-6819.
36. Thorley J.L., Page R.D. RadCon: phylogenetic tree comparison and consensus. Bioinformatics 2000, 16:486-487.
37. Thorley J.L., Wilkinson M. Testing the phylogenetic stability of early tetrapods. J. Theor. Biol. 1999, 200:343-344.
38. Webb D.W. A Revision of the genus Hilarimorpha (Diptera: Hilarimorphidae). J. Kansas Entomol. Soc. 1974, 47:172-222.
39. Whitfield J.B., Lockhart P.J. Deciphering ancient rapid radiations. Trends Ecol. Evol. 2007, 22:258-265.
40. Whitfield J.B., Kjer Ancient rapid radiations of insects: challenges for phylogenetic analysis. Ann. Rev. Entomol. 2008, 53:449-472.
41. Wiegmann B.M., Mitter C., Thompson F.C. Evolutionary origin of the cyclorrhapha (Diptera): test of alternative morphological hypotheses. Cladistics 1993, 9:41-81.
42. Wiegmann B.M., Tsaur S.C., Webb D.W., Yeates D.K., Cassel B.K. Monophyly and relationships of the Tabanomorpha (Diptera: Brachycera) based on 28S ribosomal gene sequences. Ann. Entomol. Soc. Am. 2000, 93:1031-1038.
43. Wiegmann B.M., Yeates D.K., Thorne J.L., Kishino H. Time flies, a new molecular time-scale for brachyceran fly evolution without a clock. Syst. Biol. 2003, 52:745-756.
44. Winterton S.L., Wiegmann B.M., Schlinger E.I. Phylogeny and Bayesian divergence time estimations of small-headed flies (Diptera: Acroceridae) using multiple molecular markers. Mol. Phylogenet. Evol. 2007, 43:808-832.
45. Woodley N.E. Phylogeny and classification of the " Orthorrhaphous" Brachycera. Man. Nearct. Diptera. 1989, 3:1371-1392.
46. Yang L., Wiegmann B.M., Yeates D.K., Irwin M.E. Higher-level phylogeny of the Therevidae (Diptera: Insecta) based on 28S ribosomal and elongation factor-1 α gene sequences. Mol. Phylogenet. Evol. 2000, 15:440-451.
47. Yeates D.K. Cladistics and classification of the Bombyliidae (Diptera: Asiloidea). Bull Am. Mus. Nat. Hist. 1994, 219:1-19.
48. Yeates D.K. A quantitative phylogenetic analysis of the Brachycera (Diptera). Zoologica Scripta 2002, 31:105-121.
49. Yeates D.K., Irwin M.E., Weigmann B.M. Ocoidae, a new family of asiloid flies (Diptera: Brachycera: Asiloidea), based on Ocoa chilensis from Chile, South America. Syst. Ent. 2003, 28:417-431.
50. Yeates D.K., Wiegmann B.M. Congruence and controversy, toward a higher-level phylogeny of Diptera. Ann. Rev. Entomol. 1999, 44:397-428.
51. Yeates D.K., Wiegmann B.M., Courtney G.W., Meier R., Lambkin C., Pape T. Phylogeny and systematics of Diptera: Two decades of progress and prospects. Zootaxa 2007, 1668:565-590.
52. Zwickl, D.J., 2006. Genetic algorithm approaches for the phylogenetic analysis of large biological sequence data sets under the maximum likelihood criterion. Ph.D. dissertation. The University of Texas at Austin.