Molecular phylogeny of the family Tephritidae (Insecta: Diptera): New insight from combined analysis of the mitochondrial 12S, 16S, and COII genes

Molecules and Cells

Volumn 27, Issue 1, 2009, Pages 55-66

  Han, Ho Yeon ^a   Ro, Kyung Eui ^a  

^a Yonsei University Wonju   (South Korea)

Author keywords

12S rRNA; 16S rRNA; COII; Phylogeny; Tephritidae

Indexed keywords

DNA 16S; MITOCHONDRIAL PROTEIN; PROTEIN COII; RNA 12S; UNCLASSIFIED DRUG; CYTOCHROME C OXIDASE; CYTOCHROME C OXIDASE SUBUNIT II; MITOCHONDRIAL DNA;

ARTICLE; CODON; CONTROLLED STUDY; DNA EXTRACTION; GENE AMPLIFICATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC RECOMBINATION; GENOMIC FRAGMENT; MORPHOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PROTEIN CONFORMATION; SEQUENCE ALIGNMENT; TEPHRITIDAE; ANIMAL; ENZYMOLOGY; GENE; GENETICS; MOLECULAR EVOLUTION;

ACANTHONEVRINI; ADRAMINI; CARPOMYINI; DACINAE; DIPTERA; INSECTA; PHYTALMIINI; TEPHRITIDAE; TEPHRITINAE; TRYPETINI;

ANIMALS; DNA, MITOCHONDRIAL; ELECTRON TRANSPORT COMPLEX IV; EVOLUTION, MOLECULAR; GENES, INSECT; PHYLOGENY; TEPHRITIDAE;

EID: 62849090004     PISSN: 10168478     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10059-009-0005-3     Document Type: Article

References (33)

1. Castresana, J. (2002). GBLOCKS: selection of conserved blocks from multiple alignments for their use in phylogenetic analysis, Version 0.91b. Copyrighted by J. Castresana, EMBL.
2. Foote, R.H., Blanc, F.L., and Norrbom, A.L. (1993). Handbook of the Fruit Flies (Diptera: Tephritidae) of America North of Mexico (Ithaca: Comstock Publishing Associates).
3. Freidberg, A. (1984). Gall Tephritidae (Diptera). In Biology of Gall Insects, T.N. Ananthakrishnan, ed. (New Delhi: Oxford and IBH Publishing Co.), pp. 129-167.
4. X. Gu Y.-X. Fu W.-H. Li 1995 Maximum likelihood estimation of the heterogeneity of substitution rate among nucleotide sites Mol. Biol. Evol. 12 546 557 7659011 1:CAS:528:DyaK2MXmsVOqsrc%3D
5. T.A. Hall 1999 BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT Nucleic Acids Symp. Ser. 41 95 98 1:CAS:528:DC%2BD3cXhtVyjs7Y%3D
6. Han, H.-Y. (1992). Classification of the tribe Trypetini (Diptera: Tephritidae: Trypetinae). Ph.D. thesis, Pennsylvania State University, pp. 274.
7. H.-Y. Han 2000 Molecular phylogenetic study of the tribe Trypetini (Diptera: Tephritidae), using mitochondrial 16S ribosomal DNA sequences Biochem. Syst. Ecol. 28 501 513 10793251 1:CAS:528:DC%2BD3cXjsleltbg%3D 10.1016/S0305-1978(99)00097-6 (Pubitemid 30318078)
8. H.-Y. Han B.A. McPheron 1997 Molecular phylogenetic study of Tephritidae (Insecta: Diptera). using partial sequences of the mitochondrial 16S ribosomal DNA Mol. Phylogent. Evol. 7 17 32 1:CAS:528:DyaK2sXhtFGhu70%3D 10.1006/mpev.1996.0370
9. Han, H.-Y., and McPheron, B.A. (1999). Nucleotide sequence data as a tool to test phylogenetic relationships among higher groups of Tephritidae: a case study using mitochondrial ribosomal DNA. In Fruit Flies (Tephritidae): Phylogeny and Evolution of Behavior, M. Aluja, and A.L. Norrbom, eds. (CRC Press), pp. 115-132.
10. H.-Y. Han A.L. Norrbom 2008 A new species of Philophylla Rondani (Diptera: Tephritidae: Trypetini). from New Caledonia, recognized based on female postabdominal structure and molecular sequence data Zootaxa 7759 43 50
11. H.-Y. Han K.-E. Ro 2002 Molecular systematics of Tephritidae (Insecta: Diptera): testing phylogenetic position of Korean Acidiella spp. (Trypetini) using mitochondrial 16S rDNA sequences Korean J. Biol. Sci. 6 13 18 1:CAS:528:DC%2BD38XjtlKgt78%3D
12. H.-Y. Han K.-E. Ro 2005 Molecular phylogeny of the super-family Tephritoidea (Insecta: Diptera): new evidence from the mitochondrial 12S, 16S, and COII genes Mol. Phylogen. Evol. 39 416 430 10.1016/j.ympev.2004.10.017 (Pubitemid 40033386)
13. H.-Y. Han K.-E. Ro B.A. McPheron 2006 Molecular phylogeny of the subfamily Tephritinae (Diptera: Tephritidae) based on mitochondrial 16S rDNA sequences Mol. Cells 22 78 88 16951554 1:CAS:528:DC%2BD28XpvVGntLk%3D
14. D.L. Hancock 1986 Classification of the Trypetinae (Diptera: Tephritidae), with a discussion of the Afrotropical fauna J. En-tomol. Soc. S. Afr. 49 275 305
15. J.P. Huelsenbeck F.R. Ronquist 2001 MrBayes: Bayesian inference of phylogeny Bioinformatics 17 754 11524383 1:STN:280:DC%2BD3MvotV2isw%3D%3D 10.1093/bioinformatics/17.8.754
16. J.P. Huelsenbeck B. Rannala 2004 Frequentist properties of Bayesian posterior probabilities of phylogenetic trees under simple and complex substitution models Syst. Biol. 53 904 913 15764559 10.1080/10635150490522629 (Pubitemid 40141314)
17. Korneyev, V.A. (1999a). Phylogenetic relationships among the families of the superfamily Tephritoidea. In Fruit Flies (Tephritidae): Phylogeny and Evolution of Behavior, M. Aluja, A.L. Norrbom, eds. (CRC Press), pp. 3-22.
18. Korneyev, V.A. (1999b). Phylogenetic relationships among higher groups of Tephritidae. In Fruit Flies (Tephritidae): Phylogeny and Evolution of Behavior, M. Aluja, and A.L. Norrbom, eds. (CRC Press), pp. 73-113.
19. Korneyev, V.A. (1999c). Phylogeny of the subfamily Tephritnae: relationships of the tribes and subtribes. In Fruit Flies (Tephritidae): Phylogeny and Evolution of Behavior, M. Aluja, and A.L. Norrbom, eds. (CRC Press), pp. 549-580.
20. V.A. Korneyev A.L. Norrbom 2006 Genera of the subfamily Tachiniscinae (Diptera, Tephritidae), with discussion of the position of Descoleia Aczél and Nosferatumyia, gen. n. (Tephritoidea incertae sedis) Instrumenta Biodiversitatis 7 105 155
21. C.G. Lanave C. Preparata C. Saccone G. Serio 1984 A new method for calculating evolutionary substitution rates J. Mol. Evol. 20 86 93 6429346 1:CAS:528:DyaL2cXktF2hsLY%3D 10.1007/BF02101990
22. B.A. McPheron H.-Y. Han 1997 Phylogenetic analysis of North American Rhagoletis (Diptera: Tephritidae). and related genera using mitochondrial DNA sequence data Mol. Phylogent. Evol. 7 1 16 1:CAS:528:DyaK2sXhtFGhu7w%3D 10.1006/mpev.1996.0369
23. Norrbom, A.L. (2006). A revision of the Neotropical genera Molyno-coelia Giglio-Tos, Pseudophorellia Lima, and Alujamyia, n. gen. (Diptera: Tephritidae). In Biotaxonomy of Tephritoidea, A. Freidberg, ed., Isr. J. Entomol. 35-36, 35-145.
24. Norrbom, A.L., Carroll, L.E., Thompson, F.C., White, I.M., and Freidberg, A. (1999). Systematic database of name. In Fruit Fly Expert System and Systematic Information Database, F.C. Thompson, ed. (Diptera Data Dissemination Disk 1 & Myia), pp. 65-251.
25. D. Posada K.A. Crandall 1998 Modeltest: Testing the model of DNA substitution Bioinformatics 14 817 818 9918953 1:CAS:528:DyaK1MXktlCltw%3D%3D 10.1093/bioinformatics/14.9.817
26. A. Rzhetsky M. Nei 1992 A simple method for estimating and testing minimum-evolution trees Mol. Biol. Evol. 9 945 967 1:CAS:528:DyaK38Xls1KhsL0%3D
27. W.S. Sheppard G.J. Steck B.A. McPheron 1992 Geographic populations of the medfly may be differentiated by mitochondrial DNA variation Experientia 49 1010 1013 10.1007/BF01919155
28. J.J. Smith G.L. Bush 1997 Phylogeny of the genus Rhagoletis (Diptera: Tephritidae). inferred from DNA sequences of mitochondrial cytochrome oxidase II Mol. Phylogenet. Evol. 7 33 43 9007018 1:CAS:528:DyaK2sXhtFGhu7o%3D 10.1006/mpev.1996.0374
29. Swofford, D.L. (2002). PAUP, Phylogenetic Analysis Using Parsimony (and Other Methods). Version 4.0b10 (Sunderland, Massachusetts: Sinauer Associates).
30. K. Tamura J. Dudley M. Nei S. Kumar 2007 MEGA4: Molecular Evolutionary Genetics Analysis (MEGA). software version 4.0 Mol. Biol. Evol. 24 1596 1599 17488738 1:CAS:528:DC%2BD2sXpsVGrsL8%3D 10.1093/molbev/msm092 (Pubitemid 47236692)
31. J.D. Thompson D.G. Higgins T.J. Gibson 1997 CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice Nucleic Acid Res. 22 4673 4680 10.1093/nar/22.22.4673
32. White, I.M., and Elson-Harris, M.M. (1992). Fruit Flies of Economic Significance: Their Identification and Bionomics (Wallingford, UK: CAB International).
33. Z. Yang 1994 Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods J. Mol. Evol. 39 306 314 7932792 1:CAS:528:DyaK2cXmt1eit7c%3D 10.1007/BF00160154