Double trouble for grasshopper molecular systematics: Intra-individual heterogeneity of both mitochondrial 12S-valine-16S and nuclear internal transcribed spacer ribosomal DNA sequences in Hesperotettix viridis (Orthoptera: Acrididae)

Systematic Entomology

Volumn 32, Issue 3, 2007, Pages 420-428

  Sword, Gregory A ^a,b   Senior, Laura B ^a   Gaskin, John F ^a   Joern, Anthony ^c  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b UNIVERSITY OF SYDNEY   (Australia)

^c KANSAS STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

GRASSHOPPER; INSECT; MITOCHONDRIAL DNA; MOLECULAR ANALYSIS; PHYLOGENETICS; POLYMERASE CHAIN REACTION; TAXONOMY;

ACRIDIDAE; HESPEROTETTIX VIRIDIS; MELANOPLINAE; ORTHOPTERA;

EID: 34447288728     PISSN: 03076970     EISSN: 13653113     Source Type: Journal    
DOI: 10.1111/j.1365-3113.2007.00385.x     Document Type: Article

References (51)

1. Álvarez, I. Wendel, J.F 2003) Ribosomal ITS sequences and plant phylogenetic inference. Molecular Phylogenetics and Evolution, 29, 417 434.
2. Avise, J.C 2004) Molecular Markers, Natural History and Evolution. Sinauer Associates, Sunderland, Massachusetts.
3. Ballard, J.W.O. Whitlock, M.C 2004) The incomplete natural history of mitochondria. Molecular Ecology, 13, 729 744.
4. Bensasson, D., Petrov, D.A., Zhang, D.X., Hartl, D.L. Hewitt, G.M 2001b) Genomic gigantism: DNA loss is slow in mountain grasshoppers. Molecular Biology and Evolution, 18, 246 253.
5. Bensasson, D., Zhang, D.-X., Hartl, D. Hewitt, G.M 2001a) Mitochondrial pseudogenes: evolution's misplaced witnesses. Trends in Ecology and Evolution, 16, 314 321.
6. Bensasson, D., Zhang, D.X. Hewitt, G.M 2000) Frequent assimilation of mitochondrial DNA by grasshopper nuclear genomes. Molecular Biology and Evolution, 17, 406 415.
7. Chapco, W., Kuperus, W.R. Litzenberger, G 1999) Molecular phylogeny of melanopline grasshoppers (Orthoptera: Acrididae): the genus Melanoplus. Annals of the Entomological Society of America, 92, 617 623.
8. Chapco, W., Martel, R.K.B. Kuperus, W.R 1997) Molecular phylogeny of North American band-winged grasshoppers (Orthoptera: Acrididae). Annals of the Entomological Society of America, 90, 555 562.
9. Clement, M., Posada, D. Crandall, K 2000) TCS: a computer program to estimate gene genealogies. Molecular Ecology, 9, 1657 1660.
10. Dopman, E.B., Sword, G.A. Hillis, D.M 2002) The importance of the ontogenetic niche in resource-associated divergence: evidence from a generalist grasshopper. Evolution, 56, 731 740.
11. Dowling, T.E., Moritz, C., Palmer, J.D. Riesberg, L.H 1996) Nucleic acids III: analysis of fragments and restriction sites. Molecular Systematics (ed. by D.M. Hillis, et al pp. 249 320. Sinauer Associates, Sunderland, Massachusetts.
12. Flook, P.K., Klee, S. Rowell, C.H.F 2000) Molecular phylogenetic analysis of the Pneumoroidea (Orthoptera, Caelifera): molecular data resolve morphological character conflicts in the basal Acridomorpha. Molecular Phylogenetics and Evolution, 15, 345 354.
13. Flook, P.K. Rowell, C.H.F 1997a) The phylogeny of the Caelifera (Insecta, Orthoptera) as deduced from mtrRNA gene sequences. Molecular Phylogenetics and Evolution, 8, 89 103.
14. Flook, P.K. Rowell, C.H.F 1997b) The effectiveness of mitochondrial rRNA gene sequences for the reconstruction of the phylogeny of an insect order (Orthoptera). Molecular Phylogenetics and Evolution, 8, 177 192.
15. Flook, P.K., Rowell, C.H.F. Gellissen, G 1995) The sequence, organization, and evolution of the Locusta migratoria mitochondrial genome. Journal of Molecular Evolution, 41, 928 941.
16. Funk, D.J. Omland, K.E 2003) Species-level paraphyly and polyphyly: frequency, causes, and consequences, with insights from animal mitochondrial DNA. Annual Review of Ecology, Evolution, and Systematics, 34, 397 423.
17. Hebert, P.D.N., Cywinska, A., Ball, S. deWaard, J 2003) Biological identifications through DNA barcodes. Proceedings of the Royal Society Biology Sciences Series B, 270, 313 321.
18. Hillis, D.M. Dixon, M.T 1991) Ribosomal DNA - molecular evolution and phylogenetic inference. Quarterly Review of Biology, 66, 410 453.
19. Hillis, D.M., Moritz, C. Mable, B.K 1996) Molecular Systematics, 2nd edn. Sinauer Associates, Sunderland, Massachusetts.
20. Knowles, L.L. Otte, D 2000) Phylogenetic analysis of montane grasshoppers from western North America (genus Melanoplus, Acrididae: Melanoplinae). Annals of the Entomological Society of America, 93, 421 431.
21. Kobayashi, N., Tamura, K. Aotsuka, T 1999) PCR error and molecular population genetics. Biochemical Genetics, 37, 317 321.
22. Leo, N.P. Barker, S.C 2002) Intragenomic variation in ITS2 rDNA in the louse of humans, Pediculus humanus: ITS2 is not a suitable marker for population studies in this species. Insect Molecular Biology, 11, 651 657.
23. Liao, D 1999) Concerted evolution: molecular mechanism and biological implications. American Journal of Human Genetics, 64, 24 30.
24. Litzenberger, G. Chapco, W 2003) The North American Melanoplinae (Orthoptera: Acrididae): a molecular phylogenetic study of their origins and taxonomic relationships. Annals of the Entomological Society of America, 96, 491 497.
25. Lopez, J.V., Yuhki, N., Masuda, R., Modi, W. O'Brien, S.J.O 1994) Numt, a recent transfer and tandem amplification of mitochondrial DNA to the nuclear genome of the domestic cat. Journal of Molecular Evolution, 39, 174 190.
26. Lovejoy, N.R., Mullen, S.B., Sword, G.A., Chapman, R.F. Harrison, R 2006) Ancient trans-Atlantic flight explains locust biogeography: molecular phylogenetics of Schistocerca. Proceedings of the Royal Society of London Series B, 273, 767 774.
27. Loxdale, H.D. Lushai, G 1998) Molecular markers in entomology. Bulletin of Entomological Research, 88, 577 600.
28. Moritz, C. Cicero, C 2004) DNA barcoding: promise and pitfalls. Public Library of Science Biology, 2, 1529 1531.
29. Olson, L.E. Yoder, A.D 2002) Using secondary structure to identify ribosomal numts: cautionary examples from the human genome. Molecular Biology and Evolution, 19, 93 100.
30. Palumbi, S.R 1996) Nucleic acids II: the polymerase chain reaction. Molecular Systematics (ed. by D.M. Hillis, et al pp. 205 248. Sinauer Associates, Sunderland, Massachusetts.
31. Parkin, E.J. Butlin, R.K 2004) Within- and between-individual sequence variation among ITS1 copies in the meadow grasshopper Chorthippus parallelus indicates frequent intrachromosomal gene conversion. Molecular Biology and Evolution, 21, 1595 1601.
32. Pons, J. Volger, A.P 2005) Complex pattern of coalescence and fast evolution of a mitochondrial rRNA pseudogene in a recent radiation of tiger beetles. Molecular Biology and Evolution, 22, 991 1000.
33. Richly, E. Leister, D 2004) NUMTs in sequenced eukaryotic genomes. Molecular Biology and Evolution, 21, 1081 1084.
34. Roehrdanz, R.L. Degrugillier, M.E 1998) Long sections of mitochondrial DNA amplified from fourteen orders of insects using conserved polymerase chain reaction primers. Annals of the Entomological Society of America, 91, 771 778.
35. Rokas, A., Ladoukakis, E. Zouros, E 2003) Animal mitochondrial DNA recombination revisited. Trends in Ecology and Evolution, 18, 411 417.
36. Sanderson, M.J. Shaffer, H.B 2002) Troubleshooting molecular phylogenetic analyses. Annual Review of Ecology and Systematics, 33, 49 72.
37. Simon, C., Frati, F., Beckenbach, A., Crespi, B., Liu, H. Flook, P 1994) Evolution, weighting and the 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.
38. Sokal, R.R. Rohlf, F.J 1995) Biometry, 3rd edn. W.H. Freeman, New York.
39. Sorenson, M.D. Quinn, T.W 1998) Numts: a challenge for avian systematics and population biology. Auk, 115, 214 221.
40. Swofford, D.L 2002) Paup*. Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4. Sinauer Associates, Sunderland, Massachusetts.
41. Sword, G.A., Joern, A. Senior, L.B 2005) Host plant-associated genetic differentiation in the snakeweed grasshopper, Hesperotettix viridis (Orthoptera: Acrididae). Molecular Ecology, 14, 2197 2205.
42. Tamura, K. Aotsuka, T 1988) Rapid isolation method of animal mitochondrial-DNA by the alkaline lysis procedure. Biochemical Genetics, 26, 815 819.
43. Tautz, D., Arctander, P., Minelli, A., Thomas, R.H. Vogler, A.P 2003) A plea for DNA taxonomy. Trends in Ecology and Evolution, 18, 70 74.
44. 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.
45. Thalmann, O., Hebler, J., Poinar, H.N., Pääbo, S. Vigilant, L 2004) Unreliable mtDNA data due to nuclear insertions: a cautionary tale from analysis of humans and other great apes. Molecular Ecology, 13, 321 335.
46. Tourmen, Y., Baris, O., Dessen, P., Jacques, C., Malthiery, Y. Reynier, P 2002) Structure and chromosomal distribution of human mitochondrial pseudogenes. Genomics, 80, 71 77.
47. Vogler, A.P. Desalle, R 1994) Evolution and phylogenetic information content of the ITS-1 region in the tiger beetle Cicindela dorsalis. Molecular Biology and Evolution, 11, 393 405.
48. Weekers, P.H.H., De Jonckheere, J.F. Dumont, H.J 2001) Phylogenetic relationships inferred from ribosomal ITS sequences and biogeographic patterns in representatives of the genus Calopteryx (Insecta: Odonata) of the west Mediterranean and adjacent West European zone. Molecular Phylogenetics and Evolution, 20, 89 99.
49. Williams, S.T. Knowlton, N 2001) Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus. Molecular Biology and Evolution, 18, 1484 1493.
50. Wörheide, G., Nichols, S.A. Goldberg, J 2004) Intragenomic variation of the rDNA internal transcribed spacers in sponges (phylum Porifera): implications for phylogenetic studies. Molecular Phylogenetics and Evolution, 33, 816 830.
51. Zhang, D.-X. Hewitt, G.M 1996) Nuclear integrations: challenges for mitochondrial DNA markers. Trends in Ecology and Evolution, 11, 247 251.