Fungal diversity associated with hawaiian drosophila host plants

PLoS ONE

Volumn 7, Issue 7, 2012, Pages

  Ort, Brian S ^a   Bantay, Roxanne M ^a   Pantoja, Norma A ^a   O'Grady, Patrick M ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA 26S;

26S RDNA GENE; ACACIA; ARALIACEAE; ARTICLE; CAMPANULACEAE; CHEIRODENDRON; CLERMONTIA; DNA SEQUENCE; DROSOPHILA; FUNGUS IDENTIFICATION; GENE IDENTIFICATION; GENETIC SIMILARITY; MICROBIAL DIVERSITY; MOLECULAR PHYLOGENY; NONHUMAN; NUCLEOTIDE SEQUENCE; NYCTAGINACEAE; PISONIA; PLANT GENE; PLANT INSECT INTERACTION; PLANT LEAF; PLANT STEM; SEQUENCE ANALYSIS; SPECIES COMPOSITION; SPECIES DIFFERENCE; UNINDEXED SEQUENCE; UNITED STATES;

ANIMALS; BIODIVERSITY; BIOLOGICAL EVOLUTION; DNA, FUNGAL; DROSOPHILA; ECOSYSTEM; FUNGI; HAWAII; HOST SPECIFICITY; PHYLOGENY; TREES;

ACACIA; CHEIRODENDRON; CLERMONTIA; DROSOPHILIDAE; FUNGI; PISONIA;

EID: 84864084420     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0040550     Document Type: Article

References (77)

1. Bronstein JL, Alarcon R, Geber M, (2006) The evolution of plant-insect mutualisms. New Phytologist 172: 412-428.
2. Janz N, Nylin S, Wahlberg N, (2006) Diversity begets diversity: host expansions and the diversification of plant-feeding insects. BMC Evolutionary Biology 6: 1-10.
3. Machado CA, Robbins N, Gilbert MTP, Herre EA, (2005) Critical review of host specificity and its coevolutionary implications in the fig/fig-wasp mutualism. Proceedings of the National Academy of Sciences of the United States of America 102: 6558-6565.
4. Pellmyr O, (2003) Yuccas, yucca moths, and coevolution: A review. Annals of the Missouri Botanical Garden 90: 35-55.
5. Weiblen GD, (2002) How to be a fig wasp. Annual Review of Entomology pp. 299-330.
6. Currie CR, Poulsen M, Mendenhall J, Boomsma JJ, Billen J, (2006) Coevolved crypts and exocrine glands support mutualistic bacteria in fungus-growing ants. Science 311: 81-83.
7. Currie CR, Wong B, Stuart AE, Schultz TR, Rehner SA, et al. (2003) Ancient tripartite coevolution in the attine ant-microbe symbiosis. Science 299: 386-388.
8. Mikheyev AS, Mueller UG, Boomsma JJ, (2007) Population genetic signatures of diffuse co-evolution between leaf-cutting ants and their cultivar fungi. Molecular Ecology 16: 209-216.
9. Moran NA, Baumann P, (2000) Bacterial endosymbionts in animals. Current Opinion in Microbiology 3: 270-275.
10. Werren JH, Baldo L, Clark ME, (2008) Wolbachia: master manipulators of invertebrate biology. Nature Reviews Microbiology 6: 741-751.
11. Anderson TM, Lachance MA, Starmer WT, (2004) The relationship of phylogeny to community structure: The cactus yeast community. American Naturalist 164: 709-721.
12. Barker JSF, Starmer WT, (1982) Ecological genetics and evolution: The cactus-yeast-Drosophila model system; Sydney; New York. Academic Press.
13. Starmer WT, Lachance MA, Phaff HJ, Heed WB, (1990) The biogeography of yeasts associated with decaying cactus tissue in North America, the Caribbean, and northern Venezuela. Evolutionary Biology 24: 253-296.
14. Starmer WT, Phaff HJ, Miranda M, Miller MW, Heed WB, (1982) The yeast flora associated with the decaying stems of columnar cacti and Drosophila in North America. Evolutionary Biology 14: 269-295.
15. Barker JSF, Starmer WT, (1999) Environmental effects and the genetics of oviposition site preference for natural yeast substrates in Drosophila buzzatii. Hereditas 130: 145-175.
16. Barker JSF, Starmer WT, Fogleman JC, (1994) Genotype-specific habitat selection for oviposition sites in the cactophilic species Drosophila buzzatii. Heredity 72: 384-395.
17. Markow TA, O'Grady PM, (2005) Evolutionary genetics of reproductive behavior in Drosophila: Connecting the dots. Annual Review of Genetics 39: 263-291.
18. Singh R, Xu J, Kulanthial R, eds. O'Grady P, Markow T (in press) Rapid morphological, behavioral, and ecological evolution in Drosophila: Comparisons between the endemic Hawaiian Drosophila and the cactophilic repleta species group. editors. Rapidly Evolving Genes and Genetic Systems. New York: Oxford University Press.
19. Lachance MA, (2006) Yeast biodiversity: How many and how much? Biodiversity and Ecophysiology of Yeasts pp. 1-9.
20. Markow TA, O'Grady PM, (2006) Drosophila: a guide to species identification and use. Amsterdam: Academic Press.
21. Starmer WT, (1981) A comparison of Drosophila habitats according to the physiological attributes of the associated yeast communities. Evolution 35: 38-52.
22. Starmer WT, Schmedicke RA, Lachance MA, (2003) The origin of the cactus-yeast community. FEMS Yeast Research 3: 441-448.
23. O'Grady PM, Magnacca KN, Lapoint RT, (2010) Taxonomic relationships within the endemic Hawaiian Drosophilidae (Insecta: Diptera). Bishop Museum Occasional Papers 108: 1-34.
24. Baker RH, DeSalle R, (1997) Multiple sources of character information and the phylogeny of Hawaiian Drosophilids. Systematic Biology 46: 654-673.
25. DeSalle R, (1992) The origin and possible time of divergence of the Hawaiian Drosophilidae: evidence from DNA sequences. Mol Biol Evol 9: 905-916.
26. Lapoint RT, Gidaya A, O'Grady PM, (2011) Phylogenetic relationships in the spoon tarsus subgroup of Hawaiian Drosophila: Conflict and concordance between gene trees. Molecular Phylogenetics and Evolution 58: 492-501.
27. O'Grady PM, DeSalle R, (2008) Out of Hawaii: the origin and biogeography of the genus Scaptomyza (Diptera: Drosophilidae). Biology Letters 4: 195-199.
28. O'Grady PM, Lapoint RT, Bonacum J, Lasola J, Owen E, et al. (2011) Phylogenetic and ecological relationships of the Hawaiian Drosophila inferred by mitochondrial DNA analysis. Molecular Phylogenetics and Evolution 58: 244-256.
29. Remsen J, DeSalle R, (1998) Character congruence of multiple data partitions and the origin of the Hawaiian Drosophilidae. Molecular Phylogenetics and Evolution 9: 225-235.
30. Remsen J, O'Grady P, (2002) Phylogeny of Drosophilinae (Diptera: Drosophilidae), with comments on combined analysis and character support. Molecular Phylogenetics and Evolution 24: 249-264.
31. Thomas RH, Hunt JA, (1993) Phylogenetic relationships in Drosophila- a conflict between molecular and morphological data. Molecular Biology and Evolution 10: 362-374.
32. Magnacca KN, Foote D, O'Grady PM, (2008) A review of the endemic Hawaiian Drosophilidae and their host plants. Zootaxa pp. 1-58.
33. Heed WB, (1968) Ecology of the Hawaiian Drosophilidae. Wheeler, Marshall R pp. 387-419.
34. Heed WB, (1971) Host plant specificity and speciation in Hawaiian Drosophila. Taxon 20: 115-121.
35. Kaneshiro KY, Carson HL, Clayton FE, Heed WB, (1973) Niche separation in a pair of homosequential Drosophila species from the island of Hawaii. The American Naturalist 107: 766-774.
36. Phaff HJ, Starmer WT, Kurtzman CP, (2000) Pichia hawaiiensis sp nov., occurring in decaying bark of Charpentiera trees in the Hawaiian archipelago. International Journal of Systematic and Evolutionary Microbiology 50: 1683-1686.
37. da Cunha AB, Dobzhansky T, Sokoloff A, (1951) On food preferences of sympatric species of Drosophila. Evolution 5: 97-101.
38. Dobzhansky T, Cooper DM, Phaff HJ, Knapp EP, Carson HL, (1956) Studies on the ecology of Drosophila in the Yosemite region of California. IV. Differential attraction of species of Drosophila to different species of yeasts. Ecology 37: 544-550.
39. Fogleman JC, Starmer WT, Heed WB, (1982) Comparisons of yeast florae from natural substrates and larval guts of Southwestern Drosophila. Oecologia 52: 187-191.
40. Northrop JH, (1917) The role of yeast in the nutrition of an insect (Drosophila). Journal of Biological Chemistry 30: 0181-0187.
41. Anagnostou C, Dorsch M, Rohlfs M, (2010) Influence of dietary yeasts on Drosophila melanogaster life-history traits. Entomologia Experimentalis et Applicata 136: 1-11.
42. Cooper DM, (1960) Food preferences of larval and adult Drosophila. Evolution 14: 41-55.
43. Fellous S, Lazzaro BP, (2010) Larval food quality affects adult (but not larval) immune gene expression independent of effects on general condition. Molecular Ecology 19: 1462-1468.
44. Fricke C, Bretman A, Chapman T, (2008) Adult male nutrition and reproductive success in Drosophila melanogaster. Evolution 62: 3170-3177.
45. Lindsay SL, (1958) Food preferences of Drosophila larvae. American Naturalist 92: 279-285.
46. Fogleman JC, Starmer WT, Heed WB, (1981) Larval selectivity for yeast species by Drosophila mojavensis in natural substrates. Proceedings of the National Academy of Sciences of the United States of America-Biological Sciences 78: 4435-4439.
47. Lachance MA, Starmer WT, Bowles JM, (1989) The yeast community of morning glory and associated drosophilids in a Hawaiian kipuka. Yeast 5: 501-504.
48. Lachance MA, Starmer WT, Rosa CA, Bowles JM, Barker JSF, et al. (2001) Biogeography of the yeasts of ephemeral flowers and their insects. FEMS Yeast Research 1: 1-8.
49. Phaff HJ, Miller MW, Recca JA, Shifrine M, Mrak EM, (1956) Studies on the ecology of Drosophila in the Yosemite region of California. II. Yeasts found in the alimentary canal of Drosophila. Ecology 37: 533-538.
50. Chandler JA, Lang JM, Bhatnagar S, Eisen JA, Kopp A, (2011) Bacterial communities of diverse Drosophila species: Ecological context of a host-microbe model system. PLoS Genetics 7: 1-18.
51. Kurtzman CP, Robnett CJ, (1997) Identification of clinically important ascomycetous yeasts based on nucleotide divergence in the 5′ end of the large-subunit (26S) ribosomal DNA gene. Journal of Clinical Microbiology 35: 1216-1223.
52. Haas BJ, Gevers D, Earl AM, Feldgarden M, Ward DV, et al. (2011) Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. Genome Research 21: 494-504.
53. Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, et al. (2009) Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environmental Microbiology 75: 7537-7541.
54. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ, (1990) Basic Local Alignment Search Tool. Journal of Molecular Biology 215: 403-410.
55. Katoh K, Kuma K, Toh H, Miyata T, (2005) MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Research 33: 511-518.
56. Miller MA, Pfeiffer W, Schwartz T, (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. Proceedings of the Gateway Computing Environments Workshop (GCE), 14 Nov 2010. New Orleans, LA pp. 1-8.
57. Felsenstein J, (1989) PHYLIP- Phylogeny Inference Package (Version 3.2). Cladistics 5: 164-166.
58. Kurtzman CP, Piškur J, (2006) Taxonomy and phylogenetic diversity among the yeasts. Comparative Genomics: Springer Berlin/Heidelberg pp. 29-46.
59. Chao A, (1984) Nonparametric estimation of the number of classes in a population. Scandinavian Journal of Statistics 11: 265-270.
60. Chao A, Shen TJ, (2003) Nonparametric estimation of Shannon's index of diversity when there are unseen species in sample. Environmental and Ecological Statistics 10: 429-443.
61. Stewart CN, Excoffier L, (1996) Assessing population genetic structure and variability with RAPD data: Application to Vaccinium macrocarpon (American Cranberry). Journal of Evolutionary Biology 9: 153-171.
62. Excoffier L, Smouse PE, Quattro JM, (1992) Analysis of molecular variance inferred from metric distances among DNA haplotypes: Application to human mitochondrial DNA restriction data. Genetics 131: 479-491.
63. Lozupone C, Knight R, (2005) UniFrac: a new phylogenetic method for comparing microbial communities. Applied and Environmental Microbiology 71: 8228-8235.
64. Storey JD, Taylor JE, Siegmund D, (2004) Strong control, conservative point estimation and simultaneous conservative consistency of false discovery rates: a unified approach. Journal of the Royal Statistical Society Series B-Statistical Methodology 66: 187-205.
65. Schloss PD, (2008) Evaluating different approaches that test whether microbial communities have the same structure. ISME Journal 2: 265-275.
66. Swofford DL, (1998) PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4.0b10. 4.0b10 ed. Sunderland, Massachusetts: Sinauer Associates.
67. Maddison DR, Maddison WP, (2005) MacClade 4: Analysis of phylogeny and character evolution, v. 4.08a. 4.08a ed http://macclade.org.
68. Fierer N, Breitbart M, Nulton J, Salamon P, Lozupone C, et al. (2007) Metagenomic and small-subunit rRNA analyses reveal the genetic diversity of bacteria, archaea, fungi, and viruses in soil. Applied and Environmental Microbiology 73: 7059-7066.
69. O'Brien HE, Parrent JL, Jackson JA, Moncalvo JM, Vilgalys R, (2005) Fungal community analysis by large-scale sequencing of environmental samples. Applied and Environmental Microbiology 71: 5544-5550.
70. Buée M, Reich M, Murat C, Morin E, Nilsson RH, et al. (2009) 454 Pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity. New Phytologist 184: 449-456.
71. Roderick GK, Gillespie RG, (1998) Speciation and phylogeography of Hawaiian terrestrial arthropods. Molecular Ecology 7: 519-531.
72. Wagner RP, (1944) The nutrition of Drosophila mulleri and D. aldrichi. Univ Texas Publ 4445: 104-128.
73. Ebbs ML, Amrein H, (2007) Taste and pheromone perception in the fruit fly Drosophila melanogaster. Pflugers Archiv-European Journal of Physiology 454: 735-747.
74. Hallem EA, Dahanukar A, Carlson JR, (2006) Insect odor and taste receptors. Annual Review of Entomology pp. 113-135.
75. Kopp A, Barmina O, Hamilton AM, Higgins L, McIntyre LM, et al. (2008) Evolution of gene expression in the Drosophila olfactory system. Molecular Biology and Evolution 25: 1081-1092.
76. Wisotsky Z, Medina A, Freeman E, Dahanukar A, (2011) Evolutionary differences in food preference rely on Gr64e, a receptor for glycerol. Nature Neuroscience 14: 1534-U1161.
77. Magnacca KN, Price DK, (2012) New species of Hawaiian picture wing Drosophila (Diptera: Drosophilidae), with a key to species. Zootaxa pp. 1-30.