Molecular identification of ceratitis capitata (Diptera: Tephritidae) using DNA sequences of the COI barcode region

Annals of the Entomological Society of America

Volumn 105, Issue 2, 2012, Pages 339-350

  Barr, N B ^a   Islam, M S ^b   De Meyer, M ^c   McPheron, B A ^b  

^a UNITED STATES DEPARTMENT OF AGRICULTURE   (United States)

^b PENNSYLVANIA STATE UNIVERSITY   (United States)

^c ROYAL MUSEUM FOR CENTRAL AFRICA   (Belgium)

Author keywords

diagnostic; DNA barcode; restriction fragment length polymorphism; Tephritidae

Indexed keywords

CYTOCHROME; FLY; INTRASPECIFIC VARIATION; MITOCHONDRIAL DNA; MOLECULAR ANALYSIS; PARSIMONY ANALYSIS; QUANTITATIVE ANALYSIS;

CERATITIS; CERATITIS CAETRATA; CERATITIS CAPITATA; CERATITIS COSYRA; DIPTERA; TEPHRITIDAE;

EID: 84857131060     PISSN: 00138746     EISSN: None     Source Type: Journal    
DOI: 10.1603/AN11100     Document Type: Article

References (63)

1. Armstrong, K. 2010. DNA barcoding: a new module in New Zealand's plant biosecurity diagnostic toolbox. OEPP/EPPO Bull. 40: 91-100.
2. Armstrong, K. F., and S. L. Ball. 2005. DNA barcodes for biosecurity: invasive species identification. Phil. Trans. R. Soc. B 360: 1813-1823. (Pubitemid 44365042)
3. Armstrong, K. F., C. M. Cameron, and E. R. Frampton. 1997. Fruit fly (Diptera: Tephritidae) species identification: a rapid molecular diagnostic technique for quarantine application. Bull. Entomol. Res. 87: 111-118. (Pubitemid 27362800)
4. Ball, S. L., and K. F. Armstrong. 2006. DNA barcodes for insect pest identification: a test case with tussock moths (Lepidoptera: Lymantriidae). Can. J. For. Res. 36: 337-350. (Pubitemid 43774128)
5. Barr, N. B. 2009. Pathway analysis of Ceratitis capitata (Dip-tera: Tephritidae) using mitochondrial DNA. J. Econ. Entomol. 102: 401-411.
6. Barr, N. B., and B. A. McPheron. 2006. Molecular phyloge-netics of the genus Ceratitis (Diptera: Tephritidae). Mol. Phylogenet. Evol. 38: 216-230. (Pubitemid 41773284)
7. Barr, N. B., and B. M. Wiegmann. 2009. Phylogenetic relationships of Ceratitis fruit flies inferred from nuclear CAD and tango/ARNT gene fragments: testing monophyly of the subgenera Ceratitis (Ceratitis) and C. (Pterandrus). Mol. Phylogenet. Evol. 53: 412-424.
8. Barr, N. B., R. S. Copeland, M. De Meyer, D. Masiga, H. G. Kibogo, M. K. Billah, E. Osir, R. A. Wharton, and B. A. McPheron. 2006. Molecular diagnostics of economically important Ceratitis fruit fly species (Diptera: Tephriti-dae) in Africa using PCR and RFLP analyses. Bull. Entomol. Res. 96: 505-521. (Pubitemid 46445753)
9. Carew, M. E., V. Pettigrove, and A. A. Hoffman. 2005. The utility of DNA markers in classical taxonomy using cyto-chrome oxidase I markers to differentiate Australian Cla-dopelma (Diptera: Chironomidae) midges. Ann. Entomol. Soc. Am. 98: 587-594. (Pubitemid 41052086)
10. Chen, H., M. Strand, J. L. Norenburg, S. Sun, H. Kajihara, A. V. Chernyshev, S. A. Maslakova, and P. Sundberg. 2010. Statistical parsimony networks and species assemblages in Cephalotrichid Nemerteans (Nemertea). PLoS ONE 5: e12885.
11. Cognato, A. I. 2006. Standard percent DNA sequence difference for insects does not predict species boundaries. J. Econ. Entomol. 99: 1037-1045. (Pubitemid 44645585)
12. Copeland, R. S., R. A. Wharton, Q. Luke, and M. De Meyer. 2002. Indigenous hosts of Ceratitis capitata (Diptera: Te-phritidae) in Kenya. Ann. Entomol. Soc. Am. 95: 672-694. (Pubitemid 36225386)
13. Copeland, R. S., R. A. Wharton, Q. Luke, M. De Meyer, S. Lux, N. Zenz, P. Machera, and M. Okumu. 2006. Geographic distribution, host fruit, and parasitoids of African fruit fly pests Ceratitis anonae, Ceratitis cosyra, Ceratitis fasciventris, and Ceratitis rosa (Diptera: Tephritidae) in Kenya. Ann. Entomol. Soc. Am. 99: 261-278. (Pubitemid 44724987)
14. Clement, M., D. Posada, and K. A. Crandall. 2000. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 9: 1657-1660.
15. De Meyer, M. 1996. Revision of the subgenus Ceratitis (Pardalaspis) Bezzi, 1918 (Diptera: Tephritidae: Cera-titini). Syst. Entomol. 21: 15-26. (Pubitemid 126431846)
16. De Meyer, M. 1998. Revision of the subgenus Ceratitis (Ceratalaspis) Hancock (Diptera: Tephritidae). Bull. En-tomol. Res. 88: 257-290. (Pubitemid 28290068)
17. De Meyer, M. 2000a. Phylogeny of the genus Ceratitis (Dacinae: Ceratitidini), pp. 409-428. In M. Aluja and A. L. Norrbom (eds.), Fruit flies (Tephritidae): phylog-eny and evolution of behavior. CRC, Boca Raton, FL.
18. De Meyer, M. 2000b. Systematic revision of the subgenus Ceratitis MacLeay s. s. (Diptera: Tephritidae). Zool. J. Linn. Soc. 128: 439-467.
19. De Meyer, M. 2001. Distribution patterns and host-plant relationships within the genus Ceratitis MacLeay (Dip-tera: Tephritidae) in Africa. Cimbebasia 17: 219-228.
20. De Meyer, M. 2005. Phylogenetic relationships within the fruit fly genus Ceratitis MacLeay (Diptera: Tephritidae), derived from morphological and plant evidence. Insect Syst. Evol. 36: 459-480.
21. De Meyer, M. 2006. Systematic revision of the fruit fly genus Carpophthoromyia Austen (Diptera, Tephritidae). Zoot-axa 1235: 1-48. (Pubitemid 43973108)
22. De Meyer, M., and R. S. Copeland. 2005. Description of new Ceratitis MacLeay (Diptera: Tephritidae) species from Africa. J. Nat. Hist. 39: 1283-1297. (Pubitemid 40263267)
23. De Meyer, M., and A. Freidberg. 2005a. Revision of the subgenus Ceratitis (Pterandrus) Bezzi (Diptera: Tephriti-dae). Isr. J. Entomol. 35-36: 197-315. (Pubitemid 46046860)
24. De Meyer, M., and A. Freidberg. 2005b. Revision of the fruit fly genus Capparimyia (Diptera, Tephritidae). Zoologica Scr. 34: 279-303. (Pubitemid 40654052)
25. De Meyer, M., R. S. Copeland, S. A. Lux, M. Mansell, S. Quilici, R. Wharton, I. M. White, and N. J. Zenz. 2002. Annotated check list of host plants for afrotropical fruit flies (Diptera: Tephritidae) of the genus Ceratitis. Documentations Zoologiques, Musee Royal de l'Afrique Cen-trale 27: 1-91.
26. th International Symposium on Fruit Flies of Economic Importance, 6-10 May 2002, Stellenbosch, South Africa. Isteg Scientific Publications, Irene, South Africa.
27. De Meyer, M., M. P. Robertson, A. T. Peterson, and M. W. Mansell. 2008. Ecological niches and potential distributions of Mediterranean fruit fly (Ceratitis capitata) and Natal fruit fly (Ceratitis rosa). J. Biogeogr. 35: 270-281.
28. DeSalle, R., M. G. Egan, and M. Siddall. 2005. The unholy trinity: taxonomy, species delimitation and DNA barcod-ing. Phil. Trans. Soc. B 360: 1905-1916. (Pubitemid 44365051)
29. deWaard, J. R., A. Mitchell, M. A. Keena, D. Gopurenko, L. M. Boykin, K. F. Armstrong, M. G. Pogue, J. Lima, R. Floyd, R. H. Hanner, et al. 2010. Towards a global barcode library for Lymantria (Lepidoptera: Lymantriinae) tussock moths of biosecurity concern. PLoS ONE 5: e14280.
30. Douglas, L. J., and D. S. Haymer. 2001. Ribosomal ITS1 polymorphism in Ceratitis capitata and Ceratitis rosa (Diptera: Tephritidae). Ann. Entomol. Soc. Am. 94: 726-731. (Pubitemid 33734139)
31. Floyd, R., J. Lima, J. deWaard, L. Humble, and R. Hanner. 2010. Common goals: policy implications of DNA bar-coding as a protocol for identification of arthropod pests. Biol. Invasions 12: 2947-2954.
32. Folmer, O., M. Black, W. Hoeh, R. Lutz, and R. Vrijenhoek. 1994. DNA primers for amplification of mitochondrial cytochrome c oxidase I from diverse metazoan invertebrates. Mol. Marine Biol. Biotechnol. 3: 294-299.
33. Hart, M. W., and J. Sunday. 2007. Things fall apart: biological species form unconnected parsimony networks. Biol. Lett. 3: 509-512.
34. Hebert, P.D.N., A. Cywinska, S. L. Ball, and J. R. deWaard. 2003. Biological identifications through DNA barcodes. Proc. R. Soc. Lond. B 270: 313-321. (Pubitemid 36228536)
35. Hebert, P.D.N., A. Cywinska, S. L. Ball, and J. R. deWaard. 2004. Biological identifications through DNA barcodes. Proc. R. Soc. Lond. B 270: 313-321.
36. Huang, C.-G., J.-C. Hsu, D. S. Haymer, G.-C. Lin, and W.-J. Wu. 2009. Rapid identification of the Mediterranean fruit fly (Diptera: Tephritidae) by loop-mediated isothermal amplification. J. Econ. Entomol. 102: 1239-1246.
37. Kakouli-Duarte, T., D. G. Casey, and A. M. Burnell. 2001. Development of a diagnostic DNA probe for the fruit flies Ceratitis capitata and Ceratitis rosa (Diptera: Tephriti-dae) using amplified fragment-length polymorphism. J. Econ. Entomol. 94: 989-997. (Pubitemid 33750091)
38. Kumar, S., M. Nei, J. Dudley, and K. Tamura. 2008. MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences. Brief. Bioinform. 9: 299-306. (Pubitemid 351890826)
39. Lanzavecchia, S. B., J. L. Cladera, P. Faccio, N. Petit Marty, J. C. Vilardi, and R. O. Zandomeni. 2008. Origin and distribution of Ceratitis capitata mitochondrial DNA hap-lotypes in Argentina. Ann. Entomol. Soc. Am. 101: 627-638. (Pubitemid 351791393)
40. Librado, P., and J. Rozas. 2009. DnaSP version 5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25: 1451-1452.
41. Little, D. P., and D. W. Stevenson. 2007. A comparison of algorithms for the identification of specimens using DNA barcodes: examples from gymnosperms. Cladistics 23: 1-21. (Pubitemid 46376264)
42. Lowenstein, J. H., G. Amato, and S.-O. Kolokotronis. 2009. The real maccoyii: identifying tuna sushi with DNA barcodes-contrasting characteristic attributes and genetic distances. PLoS ONE 4: e7866.
43. Magnacca, K. N., and M.J.F. Brown. 2010. Tissue segregation of mitochondrial haplotypes in heteroplasmic Hawaiian bees: implications for DNA barcoding. Mol. Ecol. Res. 10: 60-68.
44. Meier, R., K. Shiyang, G. Vaidya, and P.K.L. Ng. 2006. DNA barcoding and taxonomy in Diptera: a tale of high intras-pecific variability and low identification success. Syst. Biol. 55: 715-728.
45. Meyer, C. P., and G. Paulay. 2005. DNA barcoding: error rates based on comprehensive sampling. PLoS Biol. 3: e422.
46. Nei, M., and S. Kumar. 2000. Molecular evolution and phy-logenetics. Oxford University Press, New York.
47. Naro-Maciel, E., B. Reid, N. N. Fitzsimmons, M. Le, R. De-Salle, and G. Amato. 2010. DNA barcodes for globally threatened marine turtles: a registry approach to documenting biodiversity. Mol. Ecol. Res. 10: 252-263.
48. Ratnasingham, S., and P.D.N. Hebert. 2007. BOLD: the Barcode of Life Data System (www.barcodinglife.org). Mol. Ecol. Notes 7: 355-364. (Pubitemid 46714172)
49. Sarkar, I. N., P. J. Planet, T. E. Bael, S. E. Stanley, M. Siddall, R. DeSalle, and D. H. Figurski. 2002. Characteristic attributes in cancer microarrays. J. Biomed. Inform. 35: 111-122. (Pubitemid 35352173)
50. Sarkar, I. N., P. J. Planet, and R. DeSalle. 2008. CAOS software for use in character-based DNA barcoding. Mol. Ecol. Res. 8: 1256-1259.
51. Scheffer, S. J., M. L. Lewis, and R. C. Josh. 2006. DNA barcoding applied to invasive leafminers (Diptera: Agro-myzidae) in the Philippines. Ann. Entomol. Soc. Am. 99: 204-210. (Pubitemid 44724982)
52. 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 polymerase chain reaction primers. Ann. Entomol. Soc. Am. 87: 651-701.
53. Srivathsan, A., and R. Meier. 2011. On the inappropriate use of Kimura 2-parameter (K2P) divergences in the DNA-barcoding literature. Cladistics 27: 1-5.
54. Templeton, A. R., K. A. Crandall, and C. F. Sing. 1992. A cladistics analysis of phenotypic associations with haplo-types inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132: 619-633.
55. Van Houdt, J.K.J., F. C. Breman, M. Virgilio, and M. De Meyer. 2009. Recovering full DNA barcodes from natural history collections of Tephritid fruitflies (Tephriti-dae, Diptera) using mini barcodes. Mol. Ecol. Res. 10: 459-465.
56. Vera, M. T., R. Rodriguez, D. F. Segura, J. L. Cladera, and R. W. Sutherst. 2002. Potential geographical distribution of the Mediterranean fruit fly, Ceratitis capitata (Diptera: Tephritidae), with emphasis on Argentina and Australia. Environ. Entomol. 31: 1009-1022. (Pubitemid 36101222)
57. Virgilio, M., T. Backeljau, N. Barr, and M. De Meyer. 2008. Molecular evaluation of nominal species in Ceratitis fas-civentris, C. anonae, C. rosa species complex (Diptera: Tephritidae). Mol. Phylogenet. Evol. 48: 270-280.
58. Virgilio, M., T. Backeljau, B. Nevado, and M. De Meyer. 2010. Comparative performances of DNA barcoding across insect orders. BMC Bioinform. 11: 206.
59. White, I. M., and M. M. Elson-Harris. 1992. Fruit flies of economic significance: their identification and bionomics. CAB, Wallingford, United Kingdom.
60. Wiemers, M., and K. Fiedler. 2007. Does the DNA barcod-ing gap exist?-a case study in blue butterflies (Lepi-doptera: Lycaenidae). Front. Zool. 4: 8.
61. Wong, E.H.-K., M. S. Shivji, and R. H. Hanner. 2009. Identifying sharks with DNA barcodes: assessing the utility of a nucleotide diagnostic approach. Mol. Ecol. Res. 9: 243-256.
62. Yancy, H. F., T. S. Zemlak, J. A. Mason, J. D. Washington, B. J. Tenge, N.-L.T. Nguyen, J. D. Barnett, W. E. Savary, W. E. Hill, M. M. Moore, et al. 2008. Potential use of DNA barcodes in regulatory science: applications of the Regulatory Fish Encyclopedia. J. Food Prot. 71: 210-217.
63. Yuval, B., and J. Hendrichs. 2000. Behavior of flies in the genus Ceratitis (Dacinae: Ceratitidini), pp. 429-457. In M. Aluja and A. L. Norrbom (eds.), Fruit flies (Tephriti-dae): Phylogeny and evolution of behavior. CRC, Boca Raton, FL.