Molecular systematics of cytochrome oxidase I and 16S from Neochlamisus leaf beetles and the importance of sampling

Molecular Biology and Evolution

Volumn 16, Issue 1, 1999, Pages 67-82

  Funk, Daniel J ^a,b  

^a STONY BROOK UNIVERSITY   (United States)

^b UNIVERSITY OF ARIZONA   (United States)

Author keywords

Gene trees; Mitochondrial DNA sequences; Molecular systematics; Neochlamisus; Phylogeny; Sampling

Indexed keywords

CYTOCHROME C OXIDASE;

ARTICLE; BEETLE; DNA SEQUENCE; ENZYME REGULATION; GENETIC ANALYSIS; MOLECULAR EVOLUTION; NONHUMAN; PHYLOGENY; PLANT LEAF; SAMPLING; TAXONOMY;

CHRYSOMELIDAE; COLEOPTERA; INSECTA; NEOCHLAMISUS; OPHRAELLA;

EID: 0032932569     PISSN: 07374038     EISSN: None     Source Type: Journal    
DOI: 10.1093/oxfordjournals.molbev.a026039     Document Type: Article

References (68)

1. ANDERSON, R., and G. BRISTOL. 1992. Primers: a program for the estimation of the binding of oligonucleotides to DNA. Version 1.10. Laboratory of Biomedical and Environmental Sciences, Los Angeles, Calif.
2. AVISE, J. C. 1994. Molecular markers, natural history, and evolution. Chapman and Hall, New York.
3. AVISE, J. C., J. ARNOLD, R. M. BALL, E. BERMINGHAM, T. LAMB, J. E. NEIGEL, C. A. REEB, and N. C. SAUNDERS. 1987. Intraspecific phylogeography: the mitochondrial bridge between population genetics and systematics. Annu. Rev. Ecol. Syst. 18:489-522.
4. AVISE, J. C., W. S. NELSON, and H. SUGITA. 1994. A speciational history of "living fossils": molecular evolutionary patterns in horseshoe crabs. Evolution 48:1986-2001.
5. BECKENBACH, A. T., Y. W. WEI, and H. LIU. 1993. Relationships in the Drosophila obscura species group, inferred from mitochondrial cytochrome oxidase II sequences. Mol. Biol. Evol. 10:619-634.
6. BOYCE, T. M., M. E. ZWICK, and C. F. AQUADRO. 1994. Mitochondrial DNA in the bark weevils: phylogeny and evolution in the Pissodes strobi species group (Coleoptera: Curculionidae). Mol. Biol. Evol. 11:183-194.
7. BROWER, A. V. Z. 1994a. Phylogeny of Heliconius butterflies inferred from mitochondrial DNA sequences (Lepidoptera: Nymphalidae). Mol. Phylogenet. Evol. 2:159-174.
8. _. 1994b. Rapid morphological radiation and convergence among races of the butterfly Heliconius erato inferred from patterns of mitochondrial DNA evolution. Proc. Natl. Acad. Sci. USA 91:6491-6495.
9. BROWER, A. V. Z., and R. DESALLE. 1994. Practical and theoretical considerations for choice of a DNA sequence region in insect molecular systematics, with a short review of published studies using nuclear gene regions. Ann. Entomol. Soc. Am. 87:702-716.
10. BROWER, A. V. Z., R. DESALLE, and A. VOGLER. 1996. Gene trees, species trees and systematics: a cladistic perspective. Annu. Rev. Ecol. Syst. 27:423-450.
11. BROWN, W. J. 1943. The Canadian species of Exema and Arthrochlamys (Coleoptera, Chrysomelidae). Can. Entomol. 75:119-131.
12. _. 1946. Some new Chrysomelidae, with notes on other species (Coleoptera). Can. Entomol. 78:47-54.
13. _. 1952. Some species of Phytophaga (Coleoptera). Can. Entomol. 84:336-342.
14. BROWN, J. M., O. PELLMYR, J. N. THOMPSON, and R. G. HARRISON. 1994. Phylogeny of Greya (Lepidoptera: Prodoxidae), based on nucleotide sequence variation in mitochondrial cytochrome oxidase I and II: congruence with morphological data. Mol. Biol. Evol. 11:128-141.
15. BROWN, W. M., E. M. PRAGER, A. WANG, and A. C. WILSON. 1982. Mitochondrial DNA sequences of primates: tempo and mode of evolution. J. Mol. Evol. 18:225-239.
16. BRUNTON, C. F. A. 1998. The evolution of ultraviolet patterns in European Colias butterflies (Lepidoptera, Pieridae): a phylogeny using mitochondrial DNA. Heredity 80:611-616.
17. BULL, J. J., J. P. HUELSENBECK, C. W. CUNNINGHAM, D. L. SWOFFORD, and P. J. WADDELL. 1993. Partitioning and combining data in phylogenetic analysis. Syst. Biol. 42:384-397.
18. CABOT, E. L., and A. T. BECKENBACH. 1989. Simultaneous editing of multiple nucleic acid and protein sequences with ESEE. Comput. Appl. Biosci. 5:233-234.
19. CLARY, D. O., and D. R. WOLSTENHOLME. 1985. The mitochondrial molecule of Drosophila yakuba: nucleotide sequence, gene organization, and genetic code. J. Mol. Evol. 22:252-271.
20. DESALLE, R., T. FREEDMAN, E. M. PRAGER, and A. C. WILSON. 1987. Tempo and mode of sequence evolution in mitochondrial DNA of Hawaiian Drosophila. J. Mol. Evol. 26:157-164.
21. DIEHL, S. R., and G. L. BUSH. 1984. An evolutionary and applied perspective of insect biotypes. Annu. Rev. Entomol. 29:471-504.
22. EBERHARD, W. G. 1985. Sexual selection and animal genitalia. Harvard University Press, Cambridge, Mass.
23. EMERSON, B. C., and G. P. WALLIS. 1995. Phylogenetic relationships of the Prodontria (Coleoptera; Scarabeidae; subfamily Melolonthinae), derived from sequence variation in the mitochondrial cytochrome oxidase II gene. Mol. Phylogenet. Evol. 4:433-447.
24. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
25. FUNK, D. J. 1996. The evolution of reproductive isolation in Neochlamisus leaf beetles: a role for selection. Doctoral dissertation, State University of New York, Stony Brook.
26. FUNK, D. J. 1998. Isolating a role for natural selection in speciation: host adaptation and sexual isolation in Neochlamisus bebbianae leaf beetles. Evolution (in press).
27. FUNK, D. J., D. J. FUTUYMA, G. ORTÍ, and A. MEYER. 1995. Mitochondrial DNA sequences and multiple data sets: a phylogenetic study of phytophagous beetles (Chrysomelidae: Ophraella). Mol. Biol. Evol. 12:627-640.
28. GUTELL, R. R., and G. E. Fox. 1988. A compilation of large subunit RNA sequences presented in a structural format. Nucleic Acids Res. 16:r175-r269.
29. HANCOCK, J. M., D. TAUTZ, and G. A. DOVER. 1988. Evolution of the secondary structure and compensatory mutations of the ribosomal RNAs of Drosophila. Mol. Biol. Evol. 5:393-414.
30. HARRISON, R. G. 1989. Animal mitochondrial DNA as a genetic marker in population and evolutionary biology. Trends Ecol. Evol. 4:6-11.
31. HENRY, C. S. 1994. Singing and cryptic speciation in insects. Trends Ecol. Evol. 9:388-392.
32. HILLIS, D. M., and M. T. DIXON. 1991. Ribosomal DNA: molecular evolution and phylogenetic inference. Q. Rev. Biol. 66:411-453.
33. JUAN, C., P. OROMI, and G. M. HEWITT. 1995. Mitochondrial DNA phylogeny and sequential colonization of Canary Islands by darkling beetles of the genus Pimelia (Tenebrionidae). Proc. R. Soc. Lond. B. Biol. Sci. 261:173-180.
34. _. 1996. Phylogeny of the genus Hegeter (Tenebrionidae, Coleoptera) and its colonization of the Canary Islands deduced from Cytochrome Oxidase I mitochondrial DNA sequences. Heredity 76:392-403.
35. KARREN, J. B. 1970. Zoogeography of the chrysomelid subfamily Chlamisinae (Coleoptera). Radford Rev. 24:129-142.
36. _. 1972. A revision of the subfamily Chlamisinae of America north of Mexico (Coleoptera: Chrysomelidae). Univ. Kans. Sci. Bull. 49:875-988.
37. KIMURA, M. 1980. A simple method for estimating evolutionary rate of base substitution through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
38. KUMAR, S., K. TAMURA, and M. NEI. 1993. MEGA: molecular evolutionary genetic analysis. The Pennsylvania State University, University Village.
39. LANGOR, D. W., and F A. H. SPERLING. 1995. Mitochondrial DNA variation and identification of bark weevils in the Pissodes strobi species group in western Canada (Coleoptera: Curculionidae). Can. Entomol. 127:895-909.
40. LESAGE, L. 1984. Immature stages of Canadian Neochlamisus Karren (Coleoptera: Chrysomelidae). Can. Entomol. 116: 383-409.
41. LIU, H., and A. T. BECKENBACH. 1992. Evolution of the mitochondrial cytochrome oxidase II gene among 10 orders of insects. Mol. Phylogenet. Evol. 1:41-52.
42. MADDISON, W. P., and D. R. MADDISON. 1992. MacClade: analysis of phylogeny and character evolution. Version 3.0. Sinauer, Sunderland, Mass.
43. MAGOULAS, A., N. TSIMENIDES, and E. ZOUROS. 1996. Mitochondrial DNA phylogeny and the reconstruction of the population history of a species: the case of the European anchovy (Engraulis encrasicolus). Mol. Biol. Evol. 13:178-180.
44. MORAN, P., and I. KORNFIELD. 1993. Retention of an ancestral polymorphism in the Mbuna species flock (Teleostei: Cichlidae) of Lake Malawi. Mol. Biol. Evol. 10:1015-1029.
45. _. 1995. Were population bottlenecks associated with the radiation of the Mbuna species flock (Teleostei: Cichlidae) of Lake Malawi? Mol. Biol. Evol. 12:1085-1093.
46. MORITZ, C., T. E. DOWLING, and W. M. BROWN. 1987. Evolution of animal mitochondrial DNA: relevance for population biology and systematics. Annu. Rev. Ecol. Syst. 18: 269-292.
47. NEIGEL, J. E., and J. C. AVISE. 1986. Phylogenetic relationships of mitochondrial DNA under various demographic models of speciation. Pp. 515-534 in S. KARLIN and E. NEVO, eds. Evolutionary processes and theory. Academic, New York.
48. ODORICO, D. M., and D. J. MILLER. 1997. Variation in the ribosomal internal transcribed spacers and 5.8S rDNA among 5 species of Acropora (Cnidaria: Scleratinia): patterns of variation consistent with reticulate evolution. Mol. Biol. Evol. 14:465-473.
49. PALUMBI, S. R., A. MARTIN, S. ROMANO, W. O. MCMILLAN, L. STICE, and G. GRABOWSKI. 1991. Simple fool's guide to PCR. University of Hawaii, Honolulu.
50. PAMILO, P., and M. NEI. 1988. Relationships between gene trees and species trees. Mol. Biol. Evol. 5:568-583.
51. PARKER, A., and I. KORNFIELD. 1997. Evolution of the mitochondrial DNA control region in the Mbuna (Cichlidae) species flock of Lake Malawi, East Africa. Mol. Biol. Evol. 45:70-83.
52. PASHLEY, D. P., and L. D. KE. 1992. Sequence evolution in mitochondrial ribosomal and ND-I genes in Lepidoptera: implications for phylogenetic analyses. Mol. Biol. Evol. 9: 1061-1075.
53. SIMON, C. 1991. Molecular systematics at the species boundary: exploiting conserved and variable regions of the mitochondrial genome of animals via direct sequencing of amplified DNA. Pp. 1-33 in G. M. HEWITT, A. W. M. JOHNSTON, and J. P. W. YOUNG, eds. Molecular techniques in taxonomy. NATO Advanced Studies Institute, Springer, Berlin.
54. SIMON, C., F. FRATI, A. BECKENBACH, B. CRESPI, H. LIU, and P. FLOOK. 1994. Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved PCR primers. Ann. Entomol. Soc. Am. 87:1-51.
55. SIMON, C., S. PÄÄBO, T. KOCHER, and A. C. WILSON. 1990. Evolution of the mitochondrial ribosomal RNA in insects as shown by the polymerase chain reaction. Pp. 235-244 in M. CLEGG and S. O'BRIEN, eds. Molecular evolution. UCLA Symposia on Molecular and Cellular Biology, New Series, Vol. 122. Liss, New York.
56. SMOUSE, P. E., T. E. DOWLING, and J. A. TWOREK. 1991. Effects of intraspecific variation on phylogenetic inference: a likelihood analysis of mtDNA restriction site data in cyprinid fishes. Syst. Zool. 40:393-409.
57. SPERLING, F. A. H., and D. A. HICKEY. 1994. Mitochondrial DNA sequence variation in the spruce budworm species complex (Choristoneura: Lepidoptera). Mol. Biol. Evol. 11: 656-665.
58. SPICER, G. 1995. Phylogenetic utility of the mitochondrial cytochrome oxidase gene: molecular evolution of the Drosophila buzzatii species complex. J. Mol. Evol. 41:749-759.
59. SU, Z.-H., O. TOMINAGA, T. OHAMA, E. KAJIWARA, R. ISHIKAWA, T. S. OKADA, K. NAKAMURA, S. OSAWA. 1996. Parallel evolution in radiation of Ohomopterus ground beetles inferred from mitochondrial DNA sequences. J. Mol. Evol. 43:662-671.
60. SUNNUCKS, P., and D. F. HALES. 1996. Numerous transposed sequences of mitochondrial cytochrome oxidase I-II in aphids of the genus Sitobion (Hemiptera: Aphididae). Mol. Biol. Evol. 13:510-524.
61. SWOFFORD, D. L. 1991. When are phylogeny estimates from molecular and morphological data incongruent? Pp. 295-333 in MIYAMOTO, M.M., AND J. ., eds., Phylogenetic analysis of DNA sequences. Oxford University Press, Oxford, Eng.
62. _. 1993. PAUP: phylogenetic analysis using parsimony. Version 3.1.1). Illinois Natural History Survey, Champaign.
63. SWOFFORD, D. L., G. J. OLSEN, P. J. WADDELL, and D. M. HILLIS. 1996. Phylogeny reconstruction. Pp. 411-501 in D. M. HILLIS and C. MORITZ, eds. Molecular systematics. Sinauer Associates, Sunderland, Mass.
64. TAMURA, K., and M. NEI. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10:512-526.
65. THOMPSON, J. D., D. G. HIGGINS, and T. J. GIBSON. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
66. XIONG, B., and T. D. KOCHER. 1993. Phylogeny of sibling species of Simulium venustrum and S. verecundum (Diptera: Simuliidae) based on sequences of the mitochondrial 16S rRNA gene. Mol. Phylogenet. Evol. 2:293-303.
67. WILLIAMS, K. S., and C. SIMON. 1995. The ecology, behavior, and evolution of periodical cicadas. Annu. Rev. Entomol. 40:269-295.
68. ZHANG, D.-X., and G. M. HEWITT. 1996. Nuclear integrations: challenges for mitochondrial DNA markers. Trends Ecol. Evol. 11:247-251.