Molecular detection of trophic links in a complex insect host-parasitoid food web

Molecular Ecology Resources

Volumn 11, Issue 5, 2011, Pages 786-794

  Hrcek, Jan ^a   Miller, Scott E ^b   Quicke, Donald L J ^c,d   Smith, M Alex ^e  

^a UNIVERSITY OF SOUTH BOHEMIA   (Czech Republic)

^b DEPARTMENT OF PALEOBIOLOGY   (United States)

^c IMPERIAL COLLEGE LONDON   (United Kingdom)

^d DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^e UNIVERSITY OF GUELPH   (Canada)

Author keywords

Cytochrome oxidase I; Diptera; Hymenoptera; Immature stages; Lepidoptera; Papua New Guinea

Indexed keywords

PRIMER DNA;

ANIMAL; ARTICLE; BIOLOGY; CLUSTER ANALYSIS; DNA BARCODING; DNA SEQUENCE; FLY; FOOD CHAIN; GENETICS; HOST PARASITE INTERACTION; HYMENOPTERA; LARVA; LEPIDOPTERA; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PAPUA NEW GUINEA; PARASITOLOGY; PHYLOGENY; SPECIES DIFFERENCE; TROPIC CLIMATE;

ANIMALS; BASE SEQUENCE; CLUSTER ANALYSIS; COMPUTATIONAL BIOLOGY; DIPTERA; DNA BARCODING, TAXONOMIC; DNA PRIMERS; FOOD CHAIN; HOST-PARASITE INTERACTIONS; HYMENOPTERA; LARVA; LEPIDOPTERA; MOLECULAR SEQUENCE DATA; PAPUA NEW GUINEA; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; TROPICAL CLIMATE;

DIPTERA; HEXAPODA; HYMENOPTERA; LEPIDOPTERA;

EID: 80051681331     PISSN: 1755098X     EISSN: 17550998     Source Type: Journal    
DOI: 10.1111/j.1755-0998.2011.03016.x     Document Type: Article

References (53)

1. Agusti N, Bourguet D, Spataro T et al. (2005) Detection, identification and geographical distribution of European corn borer larval parasitoids using molecular markers. Molecular Ecology, 14, 3267-3274.
2. Ashfaq M, Braun L, Hegedus D, Erlandson M (2004) Estimating parasitism levels in Lygus spp. (Hemiptera: Miridae) field populations using standard and molecular techniques. Biocontrol Science and Technology, 14, 731-735.
3. Clare EL, Fraser EE, Braid HE, Fenton MB, Hebert PDN (2009) Species on the menu of a generalist predator, the eastern red bat (Lasiurus borealis): using a molecular approach to detect arthropod prey. Molecular Ecology, 18, 2532-2542.
4. Craft KJ, Pauls SU, Darrow K et al. (2010) Population genetics of ecological communities with DNA barcodes: an example from New Guinea Lepidoptera. Proceedings of the National Academy of Sciences of the United States of America, 107, 5041-5046.
5. Deagle BE, Kirkwood R, Jarman SN (2009) Analysis of Australian fur seal diet by pyrosequencing prey DNA in faeces. Molecular Ecology, 18, 2022-2038.
6. Dormann CF, Fründ J, Blüthgen N, Gruber B (2009) Indices, graphs and null models: analyzing bipartite ecological networks. The Open Ecology Journal, 2, 7-24.
7. Gariepy TD, Kuhlmann U, Haye T, Gillott C, Erlandson M (2005) A single-step multiplex PCR assay for the detection of European Peristenus spp., parasitoids of Lygus spp. Biocontrol Science and Technology, 15, 481-495.
8. Gariepy TD, Kuhlmann U, Gillott C, Erlandson M (2007) Parasitoids, predators and PCR: the use of diagnostic molecular markers in biological control of Arthropods. Journal of Applied Entomology, 131, 225-240.
9. Gariepy T, Kuhlmann U, Gillott C, Erlandson M (2008) A large-scale comparison of conventional and molecular methods for the evaluation of host-parasitoid associations in non-target risk-assessment studies. Journal of Applied Ecology, 45, 708-715.
10. Greenstone MH (2006) Molecular methods for assessing insect parasitism. Bulletin of Entomological Research, 96, 1-13.
11. Hajibabaei M, Singer GAC, Clare EL, Hebert PDN (2007) Design and applicability of DNA arrays and DNA barcodes in biodiversity monitoring. BMC Biology, 5, 24.
12. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41, 95-98.
13. Hebert PDN, Penton EH, Burns JM, Janzen DH, Hallwachs W (2004) Ten species in one: DNA barcoding reveals cryptic species in the neotropical skipper butterfly Astraptes fulgerator. Proceedings of the National Academy of Sciences of the United States of America, 101, 14812-14817.
14. Holloway J, Miller S, Pollock D, Helgen L, Darrow K (2009) GONGED (Geometridae of New Guinea Electronic Database): a progress report on development of an online facility of images. Spixiana, 32, 122-123.
15. Ivanova NV, Dewaard JR, Hebert PDN (2006) An inexpensive, automation-friendly protocol for recovering high-quality DNA. Molecular Ecology Notes, 6, 998-1002.
16. Janzen DH, Hallwachs W, Blandin P et al. (2009) Integration of DNA barcoding into an ongoing inventory of complex tropical biodiversity. Molecular Ecology Resources, 9, 1-26.
17. Jarman SN, Deagle BE, Gales NJ (2004) Group-specific polymerase chain reaction for DNA-based analysis of species diversity and identity in dietary samples. Molecular Ecology, 13, 1313-1322.
18. Jones DB, Giles KL, Chen Y, Shufran KA (2005) Estimation of hymenopteran parasitism in cereal aphids by using molecular markers. Journal of Economic Entomology, 98, 217-221.
19. Jurado-Rivera JA, Vogler AP, Reid CAM, Petitpierre E, Gomez-Zurita J (2009) DNA barcoding insect-host plant associations. Proceedings of the Royal Society B-Biological Sciences, 276, 639-648.
20. Kaartinen R, Stone GN, Hearn J, Lohse K, Roslin T (2010) Revealing secret liaisons: DNA barcoding changes our understanding of food webs. Ecological Entomology, 35, 623-638.
21. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111-120.
22. King RA, Read DS, Traugott M, Symondson WOC (2008) Molecular analysis of predation: a review of best practice for DNA-based approaches. Molecular Ecology, 17, 947-963.
23. Lewis OT, Memmott J, Lasalle J et al. (2002) Structure of a diverse tropical forest insect-parasitoid community. Journal of Animal Ecology, 71, 855-873.
24. Miller SE (2007) DNA barcoding and the renaissance of taxonomy. Proceedings of the National Academy of Sciences of the United States of America, 104, 4775-4776.
25. Miller SE, Novotny V, Basset Y (2003) Studies on New Guinea moths. I. Introduction (Lepidoptera). Proceedings of the Entomological Society of Washington, 105, 1034-1042.
26. Novotny V, Basset Y, Miller SE et al. (2002) Low host specificity of herbivorous insects in a tropical forest. Nature, 416, 841-844.
27. Novotny V, Miller SE, Leps J et al. (2004) No tree an island: the plant-caterpillar food web of a secondary rain forest in New Guinea. Ecology Letters, 7, 1090-1100.
28. Novotny V, Miller SE, Hulcr J et al. (2007) Low beta diversity of herbivorous insects in tropical forests. Nature, 448, 692-695.
29. Novotny V, Miller SE, Baje L et al. (2010) Guild-specific patterns of species richness and host specialization in plant-herbivore food webs from a tropical forest. Journal of Animal Ecology, 79, 1193-1203.
30. Prinsloo G, Chen Y, Giles KL, Greenstone MH (2002) Release and recovery in South Africa of the exotic aphid parasitoid Aphelinus hordei verified by the polymerase chain reaction. BioControl, 47, 127-136.
31. R Development Core Team (2009) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna, Austria.
32. Ratcliffe ST, Robertson HM, Jones CJ, Bollero GA, Weinzierl RA (2002) Assessment of parasitism of house fly and stable fly (Diptera: Muscidae) pupae by pteromalid (Hymenoptera: Pteromalidae) parasitoids using a polymerase chain reaction assay. Journal of Medical Entomology, 39, 52-60.
33. Ratnasingham S, Hebert PDN (2007) BOLD: The Barcode of Life Data System. Molecular Ecology Notes, 7, 355-364.
34. Ross HA, Murugan S, Li WLS (2008) Testing the reliability of genetic methods of species identification via simulation. Systematic Biology, 57, 216-230.
35. Rougerie R, Smith MA, Fernandez-Triana J et al. (2010) Molecular analysis of parasitoid linkages (MAPL): gut contents of adult parasitoid wasps reveal larval host. Molecular Ecology, 20, 179-186.
36. Russell RD, Beckenbach AT (2008) Recoding of translation in turtle mitochondrial genomes: programmed frameshift mutations and evidence of a modified genetic code. Journal of Molecular Evolution, 67, 682-695.
37. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4, 406-425.
38. Santos AMC, Besnard G, Quicke DLJ (2011) Applying DNA barcoding for the study of geographical variation in host-parasitoid interactions. Molecular Ecology Resources, 11, 46-59.
39. Schemske DW, Mittelbach GG, Cornell HV, Sobel JM, Roy K (2009) Is there a latitudinal gradient in the importance of biotic interactions? Annual Review of Ecology Evolution and Systematics, 40, 245-269.
40. Shaw MR (1994) Parasitoid host ranges. In: Parasitoid Community Ecology (eds Hawkins BA, Sheehan W), pp. 111-144. Oxford University Press, Oxford.
41. Shokralla S, Singer GAC, Hajibabaei M (2010) Direct PCR amplification and sequencing of specimens' DNA from preservative ethanol. BioTechniques, 48, 233-234.
42. Smith MA, Woodley NE, Janzen DH, Hallwachs W, Hebert PDN (2006) DNA barcodes reveal cryptic host-specificity within the presumed polyphagous members of a genus of parasitoid flies (Diptera: Tachinidae). Proceedings of the National Academy of Sciences of the United States of America, 103, 3657-3662.
43. Smith MA, Wood DM, Janzen DH, Hallwachs W, Hebert PDN (2007) DNA barcodes affirm that 16 species of apparently generalist tropical parasitoid flies (Diptera, Tachinidae) are not all generalists. Proceedings of the National Academy of Sciences of the United States of America, 104, 4967-4972.
44. Smith MA, Rodriguez JJ, Whitfield JB et al. (2008) Extreme diversity of tropical parasitoid wasps exposed by iterative integration of natural history, DNA barcoding, morphology and collections. Proceedings of the National Academy of Sciences of the United States of America, 105, 12359-12364.
45. Smith M, Eveleigh E, McCann K et al. (in press) Barcoding a quantified food web: crypsis, concepts, ecology and hypotheses. PLoS ONE.
46. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: Molecular evolutionary genetics analysis (MEGA) software version 4.0. Molecular Biology and Evolution, 24, 1596-1599.
47. Tilmon KJ, Danforth BN, Day WH, Hoffmann MP (2000) Determining parasitoid species composition in a host population: a molecular approach. Annals of the Entomological Society of America, 93, 640-647.
48. Traugott M, Symondson WOC (2008) Molecular analysis of predation on parasitized hosts. Bulletin of Entomological Research, 98, 223-231.
49. Traugott M, Zangerl P, Juen A, Schallhart N, Pfiffner L (2006) Detecting key parasitoids of lepidopteran pests by multiplex PCR. Biological Control, 39, 39-46.
50. Traugott M, Bell JR, Broad GR et al. (2008) Endoparasitism in cereal aphids: molecular analysis of a whole parasitoid community. Molecular Ecology, 17, 3928-3938.
51. Tylianakis JM, Tscharntke T, Lewis OT (2007) Habitat modification alters the structure of tropical host-parasitoid food webs. Nature, 445, 202-205.
52. Weathersbee AA, Shufran KA, Panchal TD, Dang PM, Evans GA (2004) Detection and differentiation of parasitoids (Hymenoptera: Aphidiidae and Aphelinidae) of the brown citrus aphid (Homoptera: Aphididae): species-specific polymerase chain reaction amplification of 18S rDNA. Annals of the Entomological Society of America, 97, 286-292.
53. Zhu YC, Riddick EN, Williams L et al. (2004) Potential of detection and identification of nymphal parasitoids (Hymenoptera: Braconidae) of Lygus bugs (Heteroptera: Miridae) by using polymerase chain reaction and ITS2 sequence analysis techniques. Annals of the Entomological Society of America, 97, 743-752.