A mitochondrial genome phylogeny of the Neuropterida (lace-wings, alderflies and snakeflies) and their relationship to the other holometabolous insect orders

Zoologica Scripta

Volumn 38, Issue 6, 2009, Pages 575-590

  Cameron, Stephen L ^a   Sullivan, Jaron ^b   Song, Hojun ^b   Miller, Kelly B ^c   Whiting, Michael F ^b  

^a CSIRO   (Australia)

^b BRIGHAM YOUNG UNIVERSITY   (United States)

^c UNIVERSITY OF NEW MEXICO   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COLEOPTERA; DIPTERA; DITAXIS; ENDOPTERYGOTA; GYRINIDAE; HEXAPODA; HYMENOPTERA; MACROGYRUS; MANTISPIDAE; MEGALOPTERA; MONGOLORAPHIDIA; MORDELLA ATRATA; MORDELLIDAE; NEUROPTERA; NEUROPTERIDA; RAPHIDIIDAE; RAPHIDIOPTERA; RHOPAEA MAGNICORNIS; SCARABAEIDAE; SIALIDAE; SIALIS HAMATA;

EID: 70350179971     PISSN: 03003256     EISSN: 14636409     Source Type: Journal    
DOI: 10.1111/j.1463-6409.2009.00392.x     Document Type: Article

References (72)

1. Achtelig, M. (1975). Die Abdomenbasis der Neuropteroidea (Insect, Holometabola). Eine vergleichend anatomische Untersuchung des Skeletts und der Muskulatur. Zoomorphologie, 82, 201 242.
2. Altschul, S. F., Madden, T. L., Schäffer, A. A., Zhang, J., Zhang, Z., Miller, W. Lipman, D. J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, 25, 3389 3402.
3. Aspöck, U. (2002). Phylogeny of the Neuropterida (Insecta: Holometabola). Zoologica Scripta, 31, 51 55.
4. Aspöck, U., Plant, J. D. Nemeschkal, H. L. (2001). Cladistic analysis of Neuroptera and their systematic position within Neuropterida (Insecta: Holometabola: Neuropterida: Neuroptera). Systematic Entomology, 26, 73 86.
5. Bae, J. S., Kim, I., Sohn, H. D. Jin, B. R. (2004). The mitochondrial genome of the firefly, Pyrocoelia rufa: complete DNA sequence, genome organization, and phylogenetic analysis with other insects. Molecular Phylogenetics and Evolution, 32, 978 985.
6. Beard, C. B., Hamm, D. M. Collins, F. H. (1993). The mitochondrial genome of the mosquito Anopheles gambiae: DNA sequence, genome organisation and comparisons with mitochondrial sequences of other insects. Insect Molecular Biology, 2, 103 124.
7. Boore, J. L. (1999). Animal mitochondrial genomes. Nucleic Acids Research, 27, 1767 1780.
8. Boudreaux, H. B. (1979). Arthropod Phylogeny, with Special Reference to Insects. New York : John Wiley & Sons.
9. Büning, J. (2006). Ovariole structure supports sistergroup relationship of Neuropterida and Coleoptera. Arthropod Systematics and Phylogeny, 64, 115 126.
10. Bybee, S. M., Taylor, S. D., Nelson, C. R. Whiting, M. F. (2004). A phylogeny of robber flies (Diptera: Asilidae) at the subfamilial level: molecular evidence. Molecular Phylogenetics and Evolution, 30, 789 797.
11. Cameron, S. L., D'Hearse, C. A., Miller, K. B., Whiting, M. F. Barker, S. C. (2004). Mitochondrial genome data alone are not enough to unambiguously resolve the relationships of Entognatha, Insecta and Crustacea sensu lato (Arthropoda). Cladistics, 20, 534 557.
12. Cameron, S. L., Barker, S. C. Whiting, M. F. (2006). Mitochondrial genomics and the relationships and validity of the new insect order Mantophasmatodea. Molecular Phylogenetics and Evolution, 38, 274 279.
13. Cameron, S. L., Lambkin, C. L., Barker, S. C. Whiting, M. F. (2007). Utility of mitochondrial genomes as phylogenetic markers for insect intraordinal relationships - A case study from flies (Diptera). Systematic Entomology, 32, 40 59.
14. Cameron, S. L., Dowton, M., Castro, L. R., Ruberu, K., Whiting, M. F., Austin, A. D., Diement, K. Stevens, J. (2008). The sequence of the mitochondrial genomes of two vespid wasps reveals a number of derived tRNA gene rearrangements. Genome, 51, 800 808.
15. Cameron, S. L. Whiting, M. F. (2008). The complete mitochondrial genome of the tobacco hornworm, Manduca sexta, (Insecta: Lepidoptera: Sphingidae), and an examination of mitochondrial gene variability within butterflies and moths. Gene, 408, 112 123.
16. Carapelli, A., Vannini, L., Nardi, F., Boore, J. L., Beani, L., Dallai, R. Frati, F. (2006). The mitochondrial genome of the entomophagous endoparasite Xenos vesparum (Insecta: Strepsiptera). Gene, 376, 248 259.
17. Castresana, J. (2000). Selection of conservation blocks from multiple alignments for their use in phylogenetic analysis. Molecular Biology and Evolution, 17, 540 552.
18. Castro, L. R. Dowton, M. (2005). The position of the Hymenoptera within the Holometabola as inferred from the mitochondrial genome of Perga condei (Hymenoptera: Symphyta: Pergidae). Molecular Phylogenetics and Evolution, 34, 469 479.
19. Castro, L. R., Ruberu, K. Dowton, M. (2006). Mitochondrial genomes of Vanhornia eucnemidarum (Apocrita: Vanhorniidae) and Primeuchroeus spp. (Aculeata: Chrysididae): Evidence of rearranged genomes with Apocrita (Insecta: Hymenoptera). Genome, 49, 752 766.
20. Caterino, M. S., Shull, V. L., Hammond, P. M. Vogler, A. P. (2002). Basal relationships of Coleoptera inferred from 18S rDNA sequences. Zoologica Scripta, 31, 41 49.
21. Clary, D. O. Wolstenholme, D. R. (1985). The mitochondrial DNA molecular of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. Journal of Molecular Evolution, 22, 252 271.
22. Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32, 1792 1797.
23. Felsenstein, J. (2004). Inferring Phylogenies. Sunderland : Sinauer Associates.
24. Fenn, J. D., Song, H., Cameron, S. L. Whiting, M. F. (2008). A mitochondrial genome phylogeny of Orthoptera (Insecta) and approaches to maximizing phylogenetic signal found within mitochondrial genome data. Molecular Phylogenetics and Evolution, 49, 59 68.
25. Friedrich, M. Muqim, N. (2003). Sequence and phylogenetic analysis of the complete mitochondrial genome of the flour beetle Tribolium castanaeum. Molecular Phylogenetics and Evolution, 26, 502 512.
26. Gillespie, J. J., Johnston, J. S., Cannone, J. J. Gutell, R. R. (2006). Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) Rrna genes of Apis mellifera (Insecta: Hymenoptera): Structure, organization and retrotransposable elements. Insect Molecular Biology, 15, 657 686.
27. Gojobori, T. (1983). Codon substitution in evolution and the 'saturation' of synonymous changes. Genetics, 105, 1011 1027.
28. Haring, E. Aspöck, U. (2004). Phylogeny of the Neuropterida: a first molecular approach. Systematic Entomology, 29, 415 430.
29. Hayward, D. C., Trueman, J. W., Bastiani, M. J. Ball, E. E. (2005). The structure of the USP/RXR of Xenos pecki indicates that Strepsiptera are not closely related to Diptera. Development Genes and Evolution, 215, 213 219.
30. Hennig, W. (1981). Insect Phylogeny. Chichester : John Wiley & Sons.
31. Hörnschemeyer, T. (1998). Morphologie und evolution des flügelgelnks der coleoptera und neuropterida. Bonner Zoologische Monographien, 43, 1 126.
32. Huelsenbeck, J. P. Ronquist, F. R. (2001). MrBayes: Bayesian inference of phylogeny. Biometrics, 17, 754 755.
33. Hunt, T., Bergsten, J., Levakanicova, Z., Papanicolaou, A., St John, O., Wild, R., Hammond, P. M., Ahrens, D., Balke, M., Caterino, M. S., Gomez-Zurita, J., Ribera, I., Barraclough, T. G., Bocakova, M., Bocak, L. Vogler, A. P. (2007). A comprehensive phylogeny of beetles reveals the evolutionary origins of a superradiation. Science, 318, 1913 1916.
34. Junqueira, A. C. M., Lessinger, A. C., Torres, T. T., Rodrigues da Silva, F., Vettore, A. L., Arruda, P. Azeredo Espin, A. M. L. (2004). The mitochondrial genome of the blowfly Chrysomya chloropyga (Diptera: Calliphoridae). Gene, 339, 7 15.
35. Kim, I., Lee, E. M., Seol, K. Y., Yun, E. Y., Lee, Y. B., Hwang, J. S. Jin, B. R. (2006). The mitochondrial genome of the Korean hairstreak, Coreana raphaelis (Lepidoptera: Lycaenidae). Insect Molecular Biology, 15, 217 225.
36. Kim, M. Y., Lee, E. M., Jo, Y. H., Park, H. C., Kim, S. R., Hwang, J. S., Jin, B. R., Kang, P. D., Kim, K.-G., Han, Y. S. Kim, I. (2008). Complete nucleotide sequence and organization of the mitogenome of the silk moth Caligula boisduvalii (Lepidoptera: Saturniidae) and comparison with other lepidopteran insects. Gene, 413, 49 57.
37. Kjer, K. M. (2004). Aligned 18S and insect phylogeny. Systematic Biology, 53, 506 514.
38. Kjer, K. M., Carle, F. L., Litman, J. Ware, J. (2006). A molecular phylogeny of Hexapoda. Arthropod Systematics and Evolution, 64, 35 44.
39. Kjer, K. M., Roshan, U. Gillepie, J. G. (2009). Structural and Evolutionary Considerations for Multiple Sequence alignment of RNA, and the challenges for Algorithms that ignore them. In M. Rosenberg (Ed.) Perspectives on Biological Sequence Alignment: Where, How, and Why It Matters. Berkley : University of California Press.
40. Klass, K.-D. (2003). Proceedings of the 1st Dresden meeting on insect phylogeny: 'Phylogenetic relationships within the insect orders' (Dresden, September 19-21, 2003). Entomologische Abhandlungen, 61, 119 172.
41. Kristensen, N. P. (1981). Phylogeny of insect orders. Annual Review of Entomology, 26, 135 157.
42. Kristensen, N. P. (1991). Phylogeny of extant hexapods. In I. D. Naumann, P. B. Carne, J. F. Lawrence, E. S. Nielsen, J. P. Spradbery, R. W. Taylor M. J. Whitten M. J. Littlejohn (Eds) The Insects of Australia (pp. 125 140). Melbourne : Melbourne University Press.
43. Kristensen, N. P. (1999). Phylogeny of endopterygote insects, the most successful lineage of living organisms. European Journal of Entomology, 96, 237 253.
44. Kristensen, N. P. Skalski, A. W. (1999). Phylogeny and palaeontology. In N. P. Kristensen (Ed.) Handbuch der Zoologie Band IV Arthropoda: Insecta Part 35 Lepidoptera, Moths and Butterflies (pp. 7 25). Berlin : Walter de Gruyter Publishing.
45. Kumar, S., Tamura, K. Nei, M. (2004). MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Briefings in Bioinformatics, 5, 150 163.
46. Lee, E.-S., Shin, K.-S., Kim, M.-S., Park, H., Cho, S. Kim, C.-B. (2006). The mitochondrial genome of the smaller tea tortrix Adoxophyes honmai (Lepidoptera: Tortricidae). Gene, 373, 52 57.
47. Lessinger, A. C., Junqueira, A. C. M., Lemos, T. A., Kemper, E. L., Rodrigues da Silva, F., Vettore, A. L., Arruda, P. Azeredo Espin, A. M. L. (2000). The mitochondrial genome of the primary screwworm fly Cochliomyia hominovorax (Diptera: Calliphoridae). Insect Molecular Biology, 9, 521 529.
48. Lewis, D. L., Farr, C. L. Kaguni, L. S. (1995). Drosophila melanogaster mitochondrial DNA: completion of the nucleotide sequence and evolutionary comparisons. Insect Molecular Biology, 4, 263 278.
49. Liu, Y., Li, Y., Pan, M., Dai, F., Zhu, X., Lu, C. Xiang, Z. (2008). The complete mitochondrial genome of the Chinese oak silkmoth, Antheraea pernyi (Lepidoptera: Saturniidae). Acta Biochimica et Biophysica Sinica, 40, 693 703.
50. Lowe, T. M. Eddy, S. R. (1997). tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Research, 25, 955 964.
51. Maddison, W. Maddison, D. (2003). Macclade Ver 4.06. Sunderland : Sinauer Associates.
52. Misof, B., Niehuis, O., Bischoff, I., Rickert, A., Erpenbeck, D. Stankiczek, A. (2007). Towards and 18S phylogeny of hexapods: Accounting for group-specific character covariance in optimized mixed nucleotide/doublet models. Zoology, 110, 409 429.
53. Nardi, F., Spinsanti, G., Boore, J. L., Carapelli, A., Dallai, R. Frati, F. (2003). Hexapod origins: monophyletic or paraphyletic? Science, 299, 1887 1889.
54. Norris, K. R. (1991). General biology. In I. D. Naumann, P. B. Carne, J. F. Lawrence, E. S. Nielsen, J. P. Spradbery, R. W. Taylor M. J. Whitten M. J. Littlejohn (Eds) The Insects of Australia (pp. 68 108). Melbourne : Melbourne University Press.
55. Oliveira, M. T., Grande Barau, J., Junqueira, A. C. M., Feijao, P. C., da Rosa, A. C., Abreu, C. F., Azeredo Espin, A. M. L. Lessinger, A. C. (2008). Structure and evolution of the mitochondrial genomes of Haematobia irritans and Stomoxys calcitrans: The Muscidae (Diptera: Calyptratae) perspective. Molecular Phylogenetics and Evolution, 48, 850 857.
56. Posada, D. Crandall, K. A. (1998). ModelTest: Testing the best-fit model of nucleotide substitution. Bioinformatics, 14, 817 818.
57. Rambaut, A. Drummond, A. J. (2007). Tracer V1.4. Available via http://beast.bio.edsac.uk/Tracer.
58. Salvato, P., Simonato, M., Battisti, A. Negrisolo, E. (2008). The complete mitochondrial genome of the bag-shelter moth Ochrogaster lunifer (Lepidoptera: Notodontidae). BMC Genomics, 9, 331.
59. Savard, J., Tautz, D., Richards, S., Weinstock, G. M., Gibbs, R. A., Werren, J. H., Tettelin, H. Lercher, M. J. (2006). Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects. Genome Research, 16, 1334 1338.
60. Sheffield, N. C., Song, H., Cameron, S. L. Whiting, M. F. (2008). A comparative analysis of mitochondrial genomes in Coleoptera (Arthropoda: Insecta) and genome descriptions of six new beetles. Molecular Biology and Evolution, 25, 2499 2509.
61. Sheffield, N. C., Song, H., Cameron, S. L. Whiting, M. F. (2009). Resolving base compositional heterogeneity in beetle mitochondrial genomes (Insecta: Coleoptera): a survey of phylogenetic methods. Systematic Biology, in press.
62. Simon, C., Frati, F, Backenbach, A. T., Crespi, B., Liu, B. Flook, P. (1994). Evolution, weighting and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved polymerase chain reaction primers. Annals of the Entomological Society of America, 87, 651 701.
63. Skerratt, L. F., Campbell, N. J. H., Murrell, A., Walton, S., Kemp, D. Barker, S. C. (2002). The mitochondrial 12S gene is a suitable marker of populations of Sarcoptes scabiei from wombats, dogs and humans in Australia. Parasitology Research, 88, 376 379.
64. Spanos, L., Koutroumbas, G., Kotsyfakis, M. Louis, C. (2000). The mitochondrial genome of the mediterranean fruit fly, Ceratitis capitata. Insect Molecular Biology, 9, 139 144.
65. Stewart, J. B. Beckenbach, A. T. (2003). Phylogenetic and genomic analysis of the complete mitochondrial DNA sequence of the spotted asparagus beetle Crioceris duodecimpunctata. Molecular Phylogenetics and Evolution, 26, 513 526.
66. Swofford, D. L. (2002). Paup* Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4. Sunderland : Sinauer Associates.
67. Thompson, J. D., Higgins, D. G. Gibson, T. J. (1994). Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research, 22, 4673 4680.
68. Wheeler, W. C., Whiting, M. F., Wheeler, Q. D. Carpenter, J. M. (2001). The phylogeny of the extant hexapod orders. Cladistics, 17, 113 169.
69. Whiting, M. F. (2002a). Phylogeny of the holometabolous insect orders: molecular evidence. Zoologica Scripta, 31, 3 15.
70. Whiting, M. F. (2002b). Mecoptera is paraphyletic: multiple genes and phylogeny of Mecoptera and Siphonaptera. Zoologica Scripta, 31, 93 104.
71. Wilson, E. O. (1988). The current state of biological diversity. In E. O. Wilson (Ed.) Biodiversity (pp. 3 18). Washington DC : National Academy Press.
72. Yeates, D. K. Wiegmann, B. M. (2005). Phylogeny and evolution of Diptera: Recent insights and new perspectives. In D. K. Yeates B. M. Wiegmann (Eds) The Evolutionary Biology of Flies (pp. 14 44). New York City : Columbia University Press.