plant microbiome research

Selected Publications

Busby PE. Newcombe G. Neat AS, Averill C. 2022. Facilitating reforestation through the plant microbiome: Perspectives from the Phyllosphere. Annual Review of Phytopathology 60. DOI: 10.1146/annurev-phyto-021320-010717

Barge EG, Leopold D, Rojas A, Vilgalys R, Busby PE. 2022. Phylogenetic conservatism of mycoparasitism and its contribution to pathogen antagonism. Molecular Ecology.

Gervers KA, Thomas DC, Roy BA, Spatafora JW, Busby PE. 2022. Crown closure affects endophytic leaf mycobiome compositional dynamics over time in Pseudotsuga menziesii var. menziesii. Fungal Ecology.

Newcombe G, Marlin M, Barge E, Heitmann S, Ridout M, Busby PE. 2022. Plant seeds commonly host Bacillus spp., potential antagonists of phytopathogens. Microbial Ecology. DOI: 10.1007/s00248-022-02024-6

Bergmann G & Busby PE. Geographic variation in the seed mycobiome of Pseudotsuga menziesii var. menziesii across the Pacific Northwest. 2021. Mycologia. bioRxiv 2020.11.03.367300;

Christian N, Espino Basurto B, Toussaint A, Xu X, Ainsworth E, Busby PE, Heath K. 2021. Elevated CO2 reduces a common soybean leaf endophyte. Global Change Biology 27: 4154-4168.

Heitmann S, Bergmann G, Barge EG, Ridout M, Newcombe G, Busby PE. 2021. The culturable seed microbiome of Populus trichocarpa. Pathogens 10: 653.

Leopold DR & Busby PE. 2020. Host genotype and colonist arrival order jointly govern plant microbiome composition and function. Current Biology 30: 3260-3266.

Wagner MR, Busby PE, Balint-Kurti P. 2020. Analysis of leaf microbiome composition of near-isogenic maize lines differing in broad-spectrum disease resistance. New Phytologist 225: 2152-2165.

Zane AE, Abarenkov K, Afkhami ME, Aguilar-Trigueros CA, Bates S, Bhatnagar JM, Busby PE, Christian N, Cornwell WK, Crowther TW, Flores-Moreno H, Floudas D, Gazis R, Hibbett D, Kennedy P, Lindner DL, Maynard DS, Milo AM, Nilsson RH, Powell J, Schildhauser M, Schilling J and Treseder KK. 2020. Fungal functional ecology: Bringing a trait-based approach to plant-associated fungi. Biological Reviews 95: 409-433.

Dundore-Arias JP, Eloe-Fadrosh EA, Schriml LM, Beattie GA, Brennan FP, Busby PE, Calderon RB, Castle SC, Emerson JB, Everhart SE, Eversole K, Frost KE, Herr JF, Huerta AI, Iyer-Pascuzzi AS, Kalil AK, Leach JE, Leonard J, Maul JE, Prithiviraj B, Potrykus M, Redekar NR, Rojas JA, Silverstein KAT, Tomso JD, Tringe SG, Vinatzer BA, and Kinkel LL. 2020. Understanding, promoting and generating minimum metadata standards relevant to agricultural microbiome research. Phytobiomes 4: 115-121.

Barge E, Leopold DR, Peay KG, Newcombe G, Busby PE. 2019. Differentiating spatial from environmental effects on foliar fungal communities of Populus trichocarpa. Journal of Biogeography 46: 2001-2011. DOI: 10.1111/jbi.13641

Busby PE, Crutsinger G, Barbour M, Newcombe G. 2019. Contingency rules for pathogen competition and pathogen antagonism in a genetically based, plant defense hierarchy. Ecology and Evolution 9: 6860-6868.

Newcombe G, Muchero W, Busby PE. 2018. Resistance to an eriophyid mite in an interspecific hybrid pedigree of Populus. PLoS ONE 13(11): e0207839.

Brown SP, Leopold DR, Busby PE. 2018. Protocols for investigating the leaf mycobiome using high-throughput DNA sequencing. In: Ma W., Wolpert T. (eds) Plant Pathogenic Fungi and Oomycetes. Methods in Molecular Biology, vol 1848. Humana Press, New York, NY

Newcombe G, Harding A, Ridout M and Busby PE. 2018. A hypothetical bottleneck in the plant microbiome. Front. Microbiol. 9:1645. doi: 10.3389/fmicb.2018.01645

Busby PE, Soman C, Wagner MR, Friesen ML, Kremer J, Bennett A, Morsy A, Eisen J, Leach J, Dangl JL. 2017. Research priorities for harnessing plant microbiomes in sustainable agriculture. PLoS Biology 15(3): e2001793.

Busby PE, Ridout M, Newcombe G. 2016. Fungal endophytes: Modifiers of plant disease. Plant Molecular Biology 90:645-655.

Busby PE, Peay KG, Newcombe G. 2016. Common foliar fungi of Populus trichocarpa modify Melampsora rust disease severity. New Phytologist 209:1681-1692.

Wolf A, Zimmerman N, Anderegg W, Busby PE,  Christensen J. 2016. Altitudinal shifts of the native and introduced flora of California in the context of 20th century warming. Global Ecology and Biogeography 25:418-429.

Lamit LJ, Busby PE, Lau MK, Compson ZG, Wojtowicz T, Keith AR, Zinkgraf MS, Schweitzer JA, Shuster SM, Gehring CA and Whitham TG. 2015. Tree genotype mediates covariance among diverse communities from microbes to arthropods. Journal of Ecology 103: 840-850.

Busby PE, Lamit LJ, Keith AR, Newcombe,G, Gehring CA, Whitham TG, Dirzo R. 2015 Genetics-based interactions among plants, pathogens and herbivores define arthropod community structure. Ecology 96: 1974-1984.

Houbraken J, Visagie CM, Meijer M, Frisvad JC, Busby PE, Pitt J, Seifert KA, Demirel R, Yilmaz N, Jacobs, K, Samson RA. 2014. A taxonomic and phylogenetic revision of Penicillium section Aspergilloides. Studies in Mycology 78: 373-451.

Busby PE, Newcombe G, Dirzo R, Whitham TG. 2014. Differentiating genetic and environmental drivers of plant-pathogen community interactions. Journal of Ecology 102: 1300-1309.

Busby PE, Newcombe G, Dirzo R, Whitham TG. 2013. Genetic basis of pathogen community structure for foundation tree species in a common garden and in the wild. Journal of Ecology 101: 867-877.

Busby PE, Zimmerman N, Weston D, Jawdy S, Houbraken J, Newcombe G. 2013. Leaf endophytes and host genotype in Populus alter severity of damage from the necrotrphic leaf pathogen, Drepanopeziza populi. Ecosphere 4(10): 125.

Busby PE, Aime CA, and Newcombe G. 2012. Foliar pathogens of Populus angustifolia are consistent with a hypothesis of Beringian migration into North America. Fungal Biology 116: 792-801.

Busby PE and Canham CD. 2011. Exotic pest-pathogen disease reduces biomass accumulation in eastern deciduous forests of North America. Canadian Journal of Forest Research 41: 401-411.

Pringle EG, Adams RI, Broadbent E, Busby PE, Donatti CI, Kurten EL Renton K and Dirzo R. 2011. Distinct leaf-trait syndromes of evergreen and deciduous trees in a seasonally dry tropical forest. Biotropica 43:299-388.

Busby PE, Vitousek P, and Dirzo R. 2010. Prevalence of tree regeneration by sprouting and seeding along a rainfall gradient in Hawaii. Biotropica 42: 80-86.