Peer-Reviewed Publications

1. Powell, A. J. Conant, G. C., Brown, D. E. Carbone, I. and R. A. Dean. 2008. Altered patterns of gene duplication and differential gene gain and loss in fungal pathogens.  BMC Genomics 9:147.

2. Parks, R., Carbone, I. Murphy, J. P., Marshall, D. S. and C. Cowger. 2008. Virulence structure of the Eastern U.S. wheat powdery mildew population.  Plant Disease. In Press.

3. Charlton, N.D., Carbone, I., Tavantzis, S.M., and M.A. Cubeta. 2008. The occurrence of the M2 double stranded RNA element in Rhizoctonia fungi. Mycologia. In Press.

4. Clark, C. M. and I. Carbone. 2007. Chloroplast DNA phylogeography in long lived Huon Pine (Lagarostrobos franklinii), a Tasmanian rainforest conifer. Canadian Journal of Forest Research. In Press.

5. Carbone, I., Jakobek, J. L., Ramirez-Prado, J. H. and B. W. Horn. 2007.  Recombination, balancing selection and adaptive evolution in the aflatoxin gene cluster of Aspergillus parasiticus.  Molecular Ecology 16: 4401-4417.

6. Carbone, I., Ramirez-Prado, J. H., Jakobek, J. L., and B. W. Horn. 2007. Gene duplication, modularity and adaptation in the evolution of the aflatoxin gene cluster. BMC Evolutionary Biology 7:111.

7. Moser, J. M., Carbone, I., Arasu, P. and G. Gibson. 2007. Impact of population structure on genetic diversity of a potential vaccine target in the canine hookworm (Ancyclostoma caninum). Journal of Parasitology 93: 796-805.

8. Deng, J., Carbone, I. and R. A Dean.  2007.  The evolutionary history of Cytochrome P450 genes in four filamentous ascomycetes.  BMC Evolutionary Biology 7: 30.

9. Gómez-Alpizar, L, I. Carbone, and J. B. Ristaino. 2007. An Andean origin of Phytophthora infestans inferred from nuclear and mitochondrial gene genealogies. Proc Nat. Acad. Sci. 104: 3306-3311.

10. Malvárez, G, Carbone, I., Grünwald N. J., Subbarao, K. V., Schafer, M. and L. M. Kohn.  2007.  New populations of Sclerotinia sclerotiorum from lettuce in California and peas and lentils in Washington.  Phytopathology 97: 512-525

11. Aylor, D. L., Price, E.W. and I. Carbone. 2006. SNAP: Combine and Map modules for multilocus population genetic analysis.  Bioinformatics 22: 1399-1401. |   Abstract  |  PDF  |

12. Charles, L., Carbone, I., Davies, K.G., Bird, D., Burke, M., Kerry, B.R., and Opperman, C.H. 2005. Phylogenetic analysis of Pasteuria penetrans by use of multiple genetic loci. Journal of Bacteriology 187: 5700-5708.

13. Dean, R.A., Talbot, N.J., Ebbole, D.J., Farman, M.L., Mitchell, T., Orbach, M.J., Thon, M., Kulkarni, R., Xu, J-R.,Pan, H., Read, N.D., Lee, Y-H., Carbone, I., Brown, D., Oh, Y.Y., Donofrio, N., Jeong, J.S., Soanes, D.M., Djonovic, S., Kolomiets, E., Rehmeyer, C., Li, W., Harding, M., Kim S., Lebrun M-H., Bohnert, H., Coughlan, S., Butler, J., Calvo, S., Ma, L-J., Nicol, R., Purcell, S., Nusbaum, C., Galagan, J.E., Birren, B.W. 2005. The genome sequence of the rice blast fungus Magnaporthe grisea. Nature 434: 980-986.

14. Price, E.W., and I. Carbone. 2005. SNAP: workbench management tool for evolutionary population genetic analysis. Bioinformatics 21: 402-404. |   PDF reprint  |

15. Carbone, I., Y. Liu, B. I. Hillman and M. G. Milgroom. 2004. Recombination and migration of Cryphonectria hypovirus 1 as inferred from gene genealogies and the coalescent. Genetics 166: 1611-1629. |   PDF reprint  |  SNAP Workbench  |

16. Phillips, D.V., I. Carbone, S. E. Gold, and L. M. Kohn. 2002. Phylogeography and genotype - symptom associations in early and late season infections of canola by Sclerotinia sclerotiorum. Phytopathology 92: 785-793. |   PDF reprint  |

17. Carbone, I. and L. M. Kohn. 2001b. Multilocus nested haplotype networks extended with DNA fingerprints show common origin and fine-scale, ongoing genetic divergence in a wild microbial metapopulation. Molecular Ecology 10: 2409-2422.  |   PDF reprint  |  Fingerprints  | 

18. Carbone, I. and L. M. Kohn. 2001a. A microbial population-species interface: nested cladistic and coalescent inference with multilocus data. Molecular Ecology 10: 947-964.  |  PDF reprint |  Samples  |  Loci  |  Sequences  |  Haplotypes  |   Tables 1, 2, 3 |

19. Carbone, I., J. B. Anderson, and L. M. Kohn. 1999. Patterns of descent in clonal lineages and their multilocus fingerprints are resolved with combined gene genealogies. Evolution 53: 11-21. |   PDF reprint  |

20. Carbone, I., and L. M. Kohn. 1999. A method for designing primer sets for speciation studies in filamentous ascomycetes. Mycologia 91: 553-556. |   PDF reprint  |

21. Carbone, I., J. B. Anderson, and L. M. Kohn. 1995. A group-I intron in the mitochondrial small subunit ribosomal RNA gene of Sclerotinia sclerotiorum. Current Genetics 27: 166-176.

22. Carbone, I., and L. M. Kohn. 1993. Ribosomal DNA sequence divergence within internal transcribed spacer 1 of the Sclerotiniaceae. Mycologia 85: 415-427.

23. Kohn, L. M., E. Stasovski, I. Carbone, J. Royer, and J. B. Anderson. 1991. Mycelial incompatibility and molecular markers identify genetic variability in field populations of Sclerotinia sclerotiorum. Phytopathology 81: 480-485.

24. Kohn, L. M., I. Carbone, and J. B. Anderson. 1990. Mycelial interactions in Sclerotinia sclerotiorum. Experimental Mycology 14: 255-267.

Book Chapter

1. Carbone, I. and L. M. Kohn. 2004. Inferring process from pattern in fungal population genetics, pp. 29-58. In Fungal Genomics, Applied Mycology and Biotechnology Series (D. K. Arora and G. G. Khachatourians, editors), Vol. 4. Elsevier Science. |   PDF reprint  |