Taiga Forest Health

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Relevant publications by members of the TAIGA Team are listed. Other publications from members of the forest pathology and associated scientific community are also included below. Please see the GE3LS page for GE3LS publications .


  • Feau, N., Taylor, G., Dale, A. L., Dhillon, B.,  Bilodeau, G. J.,  Birol, I., Jones, S. J. M. and Hamelin, R. C. 2016. Genomics sequences of six Phytophthora species threatening forest ecosystems. Genomics Data: http://dx.doi.org/10.1016/j.gdata.2016.09.013


  • Lamarche, J., Potvin, A., Pelletier, G. Stewart, D., Feau, N., Alayon, D. I. O., Dale, A. L. , Coelho, A., Uzunovic, A., Bilodeau, G. J.,  Brière, S. C., Hamelin, R. C. and Tanguay, P. 2015. Molecular Detection of 10 of the Most Unwanted Alien Forest Pathogens in Canada Using Real-Time PCR. PLOS ONE DOI: 10.1371/journal.pone.0134265
  • Dhillon, B., Feau N., Aerts, A. L., Beauseigle, S.,Bernier, L, Copeland, A., Foster, A., Gill, N., Henrissat, B., Herath, P., LaButti, K. M., Levasseur, A., Lindquist, E. A., Majoor, E., Ohm, R. A., Pangilinan, J. L., Pribowo, A., Saddler, J. N., Sakalidis, M. L., de Vries, R. P., Grigoriev, I. V., Goodwin, S. B., Tanguay, P. and Hamelin, R. C. 2015. Horizontal gene transfer and gene dosage drives adaptation to wood colonization in a tree pathogen. Proceedings of the National Academy of Sciences of the United States of America, 112(11): 3451–3456.


  • Alamout S.M., Haridas S., Feau N., Robertson G., Bohlmann J., Breuil C. 2014. Comparative genomics of the pine pathogens and beetle symbionts in the genus Grosmannia. Molecular biology and evolution. doi:10.1093/molbev/msu102
  • Hall J., Matos M., Martin, M. 2014.  Innovation Pathways at the Base of the Pyramid: Establishing Technological Legitimacy through Social Attributes.  The Case of WLED Lighting and Naturally Colored Cotton. Technovation.
  • Feau N., Dutech C., Brusini J., Rigling D., Robin C. 2014. Multiple introductions and recombination in Cryphonectria hypovirus 1 : perspective for a sustainable biological control of chestnut blight. Evolutionary applications. doi:10.1111/eva.12157.
  • Hall J., Bachor V., Matos S. 2014. The Impact of Stakeholder Heterogeneity on Risk Perceptions in Technological Innovation, Technovation: DOI: 10.1016/j.technovation.2013.12.002.


  • Sakalidis, M. L., Slippers, B., Wingfield, B. D., Hardy, G. E. St. J., Burgess, T. I. 2013. The challenge of understanding the origin, pathways and extent of fungal invasions: global populations of the Neofusicoccum parvum–N. ribis  species complex. Diversity and Distributions, (2013): 1-11.
  • Tsui, C. K-M. , DiGuistini, S., Wang, Y., Feau, N., Dhillon , B., Bohlmann, J. and Hamelin, R.C . 2013. Unequal recombination and evolution of the mating-type (MAT) loci in the pathogenic fungus Grosmannia Clavigera and relatives.G3 3:465-480; doi: 10.1534/g3.112.004986.
  • Vialle, A., Feau, N. , Frey, P., Bernier, L., & Hamelin, R. C. 2013. Phylogenetic species recognition reveals host-specific lineages among poplar rust fungi. Molecular Phylogenetics and Evolution, 66(3), 628–644. doi:10.1016/j.ympev.2012.10.021


  • Ohm, R. A., Feau, N., Henrissat, B., Schoch, C. L., Horwitz, B. A., Barry, K. W., Condon, B. J., Copeland, A. C., Dhillon, B., Glaser, F., Hesse, C. N., Kosti, I, LaButti, K., Lindquist, E. A., Lucas, S., Salamov, A. A., Bradshaw, R. E.,  Ciuffetti, L., Hamelin, R. C., Kema, G. H. J., Lawrence, C., Scott, J. A., Spatafora, J. W., Turgeon, B. G.,  de Wit, P. J. G. M., Zhong, S., Goodwin, S. B., Grigoriev, I.  V. 2012. Diverse Lifestyles and Strategies of Plant Pathogenesis Encoded in the Genomes of Eighteen Dothideomycetes Fungi. PLOS ONE, 8(12): e1003037
  • Bilodeau G.J., S. T. Koike, P. Uribe, and F. N. Martin. 2012. Assay development for rapid detection and quantification of Verticillium dahliae in soil. Phytopathology, 102:331-343.
  • Hacquard, S., Joly, D. L. ,  Lin, Y. C. ,  Tisserant, E.,  Feau, N., Delaruelle, C., Legué, V.,  Kohler, A. , Tanguay, P.,  Petre, B.,  Frey, P.,  Van de Peer, Y., Rouzé, P.,  Martin, F.,  Hamelin, R. C. and Duplessis, S. 2012. A Comprehensive Analysis of Genes Encoding Small Secreted Proteins Identifies Candidate Effectors in Melampsora larici-populina (Poplar Leaf Rust). Molecular Plant-Microbe Interaction, 25(3): 279-93.
  • Hamelin, R. C. 2012. Contributions of genomics to forest pathology. Canadian  Journal of Plant Pathology, 34(1): 20–28.
  • Schoch, C. L., Seifert, K. A., Huhndorf, S., Robert, V., Spouge, J. L., Levesque, C. A., Chen, W and Fungal Barcoding Consortium. 2012. Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of the National Academy of Sciences of the United States of America, 109(16): 6241-6246.
  • Tsui, C. K. M., Roe, A. D., El-Kassaby, Y. A., Rice, A. V., Alamouti, S. M., Sperling, F. A. H., Cooke, J. E. K., Bohlmann, J. and Hamelin, R. C. 2012. Population structure and migration pattern of a conifer pathogen, Grosmannia clavigera , as influenced by its symbiont, the mountain pine beetle. Molecular Ecology, 21(1): 71–86.


  • Alamouti, S. M., Wang, V., DiGuistini, S., Six, D. L., Bohlmann, J., Hamelin, R. C., Feau, N. and Breuil, C. 2011. Gene genealogies reveal cryptic species and host preferences for the pine fungal pathogen Grosmannia clavigera. Molecular Ecology, 20(12): 2581–2602.
  • Bergeron, M.-J., Leal, I., Foord, B., Ross, G., Davis, C. Slippers, B., de Groot, P. and Hamelin, R.C. 2011. Putative origin of clonal lineages of Amylostereum areolatum , the fungal symbiont associated with Sirex noctilio , retrieved from Pinus sylvestris , in eastern Canada. Fungal Biology, 115(8): 750-758.
  • Dale, A. D., Lewis, K. J. and Murray, B. W. 2011. Sexual reproduction and gene flow in the pine pathogen Dothistroma septosporum in British Columbia . Phytopathology, 101: 68-76.
  • DiGuistini, S., Wang, Y., Liao, N. Y., Taylor, G., Tanguay, P., Feau, N., Henrissat, B., Chan, S. K., Hesse-Orce, U., Alamouti, S. M., Tsui, C. K., Docking, R. T., Levasseaur, A., Haridas, S., Robertson, G., Birol, I., Holt, R. A., Marra, M. A., Hamelin, R. C., Hirst, M., Jones, S. J., Bohlmann, J., Breuil, C. 2011. Genome and transcriptome analyses of the mountain pine beetle-fungal symbiont Grosmannia clavigera, a lodgepole pine pathogen. Proceedings of the National Academy of Sciences, 108(6): 2504–2509.
  • Duplessis, S., Cuomo, C. A., Lin, Y.-C., Aerts, A., Tisserant, E., Veneault-Fourrey, C., Joly, D. L., Hacquard, S., Amselem,  J., Cantarel, B. L., Chiu, R., Coutinho, P. M., Feau, N., Field, M., Frey, P., Gelhaye, E., Goldberg, J., Grabherr, M. G., Kodira, C. D., Kohler, A., Kües, U., Lindquist, E. A., Lucus, S. M., Mago, R., Mauceli, E., Morin, E., Murat, C., Pangilinan, J. L., Park, R., Pearson, M.,  Quesneville, H., Rouhier, N., Sakthikumar, S., Salmov, A. A., Schmutz, J., Selles, B., Shapiro, H., Tanguay, P., Tuskan, G. A., Henrissat, B., Van de Peer, Y., Rouzé, P., Ellis, J. G., Dodds, P. N., Schein, J. E., Zhong, S., Hamelin, R. C., Grigoriev, I. V., Szabo, L. J. and Martin, F. 2011. Obligate biotrophy features unraveled by the genomic analysis of rust fungi. Proceedings of the National Academy of Sciences, 108(22): 9166–9171.
  • Feau, N., Decourcelle, T., Husson, C., Desprez-Loustau, M.-L., and Dutech, C. 2011. Finding single copy genes out of sequenced genomes for multilocus phylogenetics in non-model fungi. PLoS ONE, 6(4): e18803.
  • Feau, N., Vialle, A., Allaire, M. M.,  Maier, W., and Hamelin, R. C. 2011. DNA barcoding in the rust genus Chrysomyxa and its implications for the phylogeny of the genus. Mycologia, 103(6):1250–1266.
  • Goodwin, S. B., M'barek, S. B., Dhillon, B., Wittenberg, A. H. J., Crane, C. F., Hane, J. K., Foster, A. J., Van der Lee, T. A. J., Grimwood, J., Aerts, A., Antoniw, J., Bailey, A., Bluhm, B., Bowler, J., Brisow, J., van der Burgt, A., Canto-Canché, B., Churchill, A. C. L., Conder-Ferràez, L., Cools, H. J., Coutinho, P. M., Csukai, M., Dehal, P., De Wit, P., Donzelli, B., van de Geest, H. C., van Ham, R. C. H. J., Hammond-Kosack, K. E., Henrissat, B., Kilian, A., Kobayashi, A. K., Koopmann, E., Kourmpetis, Y., Kuzniar, A., Lindquist, E., Lombard, V., Maliepaard, C., Martins, N., Mehrabi, R., Nap, J. P. H., Ponomarenko, A., Rudd, J. J., Salamov, A., Schmutz, J., Schouten, H. J., Shapiro, H., Stergiopoulos, I., Torriani, S. F. F., Tu, H., de Vries, R. P., Waalwijk, C., Ware, S. B., Wiebenga, A., Zwiers, L-H., Oliver, R. P., Grigoriev, I. V. and Kema, G. H. J. 2011. Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis. PLoS Genet, 7(6):  e1002070.
  • Hintz, W., Pinchback, M., de la Bastide, P., Burgess, S., Jacobi, V., Hamelin, R., Breuil, C. and Bernier, L. 2011. Functional categorization of unique expressed sequence tags obtained from the yeast-like growth phase of the elm pathogen Ophiostoma novo-ulmi . BMC Genomics, 12(1): 431.
  • James, P.M. A., Coltman, D. W., Murray, B. W., Hamelin, R. C., Sperling, F. A. H. 2011. Spatial Genetic Structure of a Symbiotic Beetle-Fungal System: Toward Multi-Taxa Integrated Landscape Genetics. PLoS ONE, 6(10): e25359.
  • Sakalidis, M., Hardy, G., and Burgess, T. 2011. Endophytes as potential pathogens of the baobab species Adansonia gregorii : a focus on the Botryosphaeriaceae. Fungal Ecology, 4(1): 1–14.
  • Tsui, C. K. M., Woodhall, J., Chen, W., Lévesque, C. A., Lau, A., Schoen, C. D., Baschien, C., Najafzadeh, M.J. and de Hoog, G. S. 2011. Molecular techniques for pathogen identification and fungus detection in the environment. IMA Fungus, 2(2):177-189 .
  • Vialle, A., Frey, P., Hambleton, S., Bernier, L. and Hamelin, R. C. 2011. Poplar rust systematics and refinement of Melampsora species delineation. Fungal Diversity, 50(1): 227-248.


  • Dhillon, B., Cavaletto, J. R., Wood, K. V., and Goodwin, S. B. 2010. Accidental amplification and inactivation of a methyltransferase gene eliminates cytosine methylation in Mycosphaerella graminicola . Genetics, 186(1) 67–77.
  • Joly, D. L., Feau, N., Tanguay, P., and Hamelin, R. C. 2010. Comparative analysis of secreted protein evolution using expressed sequence tags from four poplar leaf rusts (Melampsora spp.). BMC Genomics, 11: 422.
  • Tsui, C., Wang, B., Khadempour, L., Alamouti, S. M., Bohlmann, J., Murray, B. W. and Hamelin, R. C. 2010. Rapid identification and detection of pine pathogenic fungi associated with mountain pine beetles by padlock probes. Journal of Microbiological Methods, 83: 26-33.


  • Bilodeau, G.J., Pelletier, G., Pelletier, F., Hamelin, R. C. and Lévesque, C. A. 2009. Multiplex real-time polymerase chain reaction (PCR) for detection of Phytophthora ramorum , the causal agent of sudden oak death. Canadian Journal of Plant Pathology, 31(2): 195-210.
  • Martin, F. N., Coffey, M. D., Zeller, K., Hamelin, R. C., Tooley, P., Garbelotto, M., Hughes, K. J. D., Kubisiak, T., Bilodeau , G. J., Levy, L., Blomquist, C. and Berger, P. H.  2009. Evaluation of molecular markers for Phytophthora ramorum detection and identification: testing for specificity using a standardized library of isolates. Phytopathology, 99(4): 390-403 .
  • Tsui, C. K. M., Feau, N., Ritland, C. E., Massoumi Alamouti, S., DiGuistini, S., Khadempour, L., Bohlmann, J., Breuil, C., Hamelin, R. C. 2009. Characterization of microsatellite loci in the fungus, Grosmannia clavigera , a pine pathogen associated with the mountain pine beetle. Molecular Ecology Resources, 9(6): 1500–1503.