Publications

Peer-Reviewed

Olarte, R. A., Horn, B. W., Dorner, J. W., Monacell, J. T., Singh, R., Stone, E. A. and I. Carbone.  2012.  Effect of sexual recombination on population diversity in alfatoxin production by Aspergillus flavus and evidence for cryptic heterokaryosis. Molecular Ecology 21: 1453–1476. DOI: 10.1111/j.1365-294X.2011.05398.x.

*Paper is the topic of a News and Views Perspective article: Fisher, M. C. and D. A. Henk. 2012.  Sex, drugs and recombination: the wild life of Aspergillus. Molecular Ecology 21: 1305–1306.

Abbas, H. K., Weaver, M. A., Horn, B. W., Carbone, I., Monacell, J. T. and W. T. Shier.  2011. Selection of Aspergillus flavus isolates for biological control of aflatoxins in corn.  Toxin Reviews 30: 59-70.

Olson, H., Carbone, I. and M. Benson. 2011.  Phylogenetic history of Phytophthora cryptogea and P. drechsleri isolates from floriculture crops in North Carolina greenhouses.  Phytopathology  101:1373-1384.

Litvintseva, A. P., Carbone, I., Rossouw, J., Thakur, R., Govender, N. P., and T. G. Mitchell. 2011. Evidence that the human pathogenic fungus Cryptococcus neoformans var. grubii may have evolved in Africa. PLoS One 6(5): e19688. doi:10.1371/journal.pone.0019688.

Wu, F., Bhatnagar, D., T. Bui-Klimke, I. Carbone, R. Hellmich, G. Munkvold, P. Paul, G. Payne, E. Takle. 2011. Climate Change Impacts on Mycotoxin Risks in US Maize. World Mycotoxin Journal 4: 79-93.

Kaye, A.C., J.W. Moyer, E.J. Parks, I. Carbone, and M.A. Cubeta. 2011. Population genetic analysis of tomato spotted wilt virus on peanut in North Carolina and Virginia. Phytopathology 101:147-153.

Horn, B. W., Moore, G. G. and I. Carbone. 2011. Sexual reproduction in aflatoxin-producing Aspergillus nomius.  Mycologia 103: 174–183. DOI: 10.3852/10-115.

Moore, G. G., Singh, R., Horn, B. W., and I. Carbone. 2009. Recombination and lineage-specific gene loss in the aflatoxin gene cluster of Aspergillus flavus. Molecular Ecology 18: 4870-4887.

Parks, R., Carbone, I., Murphy, P and C. Cowger.  2009. Population genetic analysis of an eastern U.S. wheat powdery mildew population reveals geographic subdivision and recent common ancestry with U.K. and Israeli populations.  Phytopathology 99: 840-849.

Lourenço Jr., V., Moya, A., González-Candelas, F., Carbone, I., Maffia, L. A. and E. S. G. Mizubuti.  2009. Molecular diversity and evolutionary processes of Alternaria solani in Brazil inferred using genealogical and coalescent approaches. Phytopathology 99: 765-774.

Horn, B. W., Moore, G. G. and I. Carbone. 2009. Sexual reproduction in Aspergillus flavus.  Mycologia 101: 423-429.

Goss, E. M., Carbone, I., and N. J. Grünwald. 2009. Ancient isolation and independent evolution of the three clonal lineages of the exotic sudden oak death pathogen Phytophthora ramorum. Molecular Ecology 18: 1161-1174.

Horn, B. W., Ramirez-Prado, J. H. and I. Carbone. 2009. The sexual state of Aspergillus parasiticus.  Mycologia 101: 275-280.

Horn, B. W., Ramirez-Prado, J. H. and I. Carbone. 2009. Sexual reproduction and recombination in the aflatoxin-producing fungus Aspergillus parasiticus.  Fungal Genetics and Biology 46: 169-175. (cover page) (recommended by Faculty of 1000 Biology)

Ramirez-Prado, J. H., Moore, G. G., Horn, B. W. and I. Carbone. 2008. Characterization and population analysis of the mating-type genes in Aspergillus flavus and Aspergillus parasiticus.  Fungal Genetics and Biology 45: 1292-1299.

Brown DE, Powell A. J., Carbone I. and R. A Dean. 2008. GT-Miner: a graph-theoretic data miner, viewer and model processor. Bioinformation 3(5): 235-237.

Charlton, N. D., Carbone, I., Tavantzis, S. M., and M. A. Cubeta. 2008. Phylogenetic relatedness of the M2 double-stranded RNA in Rhizoctonia fungi. Mycologia 100: 555-564.

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 92: 1074-1082.

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.

Clark, C. M. and I. Carbone. 2008. Chloroplast DNA phylogeography in long lived Huon Pine (Lagarostrobos franklinii), a Tasmanian rainforest conifer. Canadian Journal of Forest Research 38: 1576-1589.

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. (recommended by Faculty of 1000 Biology)

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.

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.

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.

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.

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.

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

Charles, L., I. Carbone, K. G. Davies, D. Bird, M. Burke, B. R. Kerry, and C. H. Opperman. 2005. Phylogenetic Analysis of Pasteuria penetrans by Use of Multiple Genetic Loci.  Journal of Bacteriology 187: 5700-5708.

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.

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

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.

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.

Carbone, I. and L. M. Kohn. 2001. 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.

Carbone, I. and L. M. Kohn. 2001. A microbial population-species interface: nested cladistic and coalescent inference with multilocus data. Molecular Ecology 10: 947-964.

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

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.

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.

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

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.

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

Book Chapter

Moore, G. G., Beltz, S. B., Carbone, I., Ehrlich, K. C.  and B. W. Horn (2011). The population dynamics of aflatoxigenic Aspergilli.  In Aflatoxins - Biochemistry and Molecular Biology, Ramón Gerardo Guevara-González (Ed.), ISBN: 978-953-307-395-8, InTech,  Available from: http://www.intechopen.com/articles/show/title/the-population-dynamics-of-aflatoxigenic-aspergilli

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.