2024
Novak, J.K., Kennedy, P.G. and Gardner, J.G., 2024. Transcriptomic analyses of bacterial growth on fungal necromass reveal different microbial community niches during degradation. Applied and Environmental Microbiology, pp.e01062-24.
Michaud, T., Hobbie, E. and Kennedy, P., 2024. Carbon cycling through plant and fungal herbarium specimens tracks the Suess effect over more than a century of environmental change. Fungal Ecology, 71, p.101372.
Hu, Y.H., Johnson, D.J., Sun, Z.H., Gao, L.M., Wen, H.D., Xu, K., Huang, H., Liu, W.W., Cao, M., Song, Z.W. and Kennedy, P.G., 2024. Selection dictates the distance pattern of similarity in trees and soil fungi across forest ecosystems. Fungal Diversity, pp.1-19.
Pérez‐Pazos, E., Beidler, K.V., Narayanan, A., Beatty, B.H., Maillard, F., Bancos, A., Heckman, K.A. and Kennedy, P.G., 2024. Fungi rather than bacteria drive early mass loss from fungal necromass regardless of particle size. Environmental Microbiology reports, 16(3), p.e13280.
Michaud, T.J., Pearse, I.S., Kauserud, H., Andrew, C.J. and Kennedy, P.G., 2024. Mast seeding in European beech (Fagus sylvatica L.) is associated with reduced fungal sporocarp production and community diversity. Ecology Letters, 27(6), p.e14460.
Lofgren, L., Nguyen, N.H., Kennedy, P.G., Pérez‐Pazos, E., Fletcher, J., Liao, H.L., Wang, H., Zhang, K., Ruytinx, J., Smith, A.H. and Ke, Y.H., 2024. Suillus: an emerging model for the study of ectomycorrhizal ecology and evolution. New Phytologist, 242(4), pp.1448-1475.
Michaud, T.J., Cline, L.C., Hobbie, E.A., Gutknecht, J.L. and Kennedy, P.G., 2024. Herbarium specimens reveal that mycorrhizal type does not mediate declining temperate tree nitrogen status over a century of environmental change. New Phytologist, 242(4), pp.1717-1724.
Maillard, F., Colin, Y., Viotti, C., Buée, M., Brunner, I., Brabcová, V., Kohout, P., Baldrian, P. and Kennedy, P.G., 2024. A cryptically diverse microbial community drives organic matter decomposition in forests. Applied Soil Ecology, 193, p.105148.
2023
Cantoran, A., Maillard, F., Baldrian, P. and Kennedy, P.G., 2023. Defining a core microbial necrobiome associated with decomposing fungal necromass. FEMS Microbiology Ecology, 99(9), p.fiad098.
Maillard, F., Beatty, B., Park, M., Adamczyk, S., Adamczyk, B., See, C.R., Cavender-Bares, J., Hobbie, S.E. and Kennedy, P.G., 2023. Microbial community attributes supersede plant and soil parameters in predicting fungal necromass decomposition rates in a 12-tree species common garden experiment. Soil Biology and Biochemistry, 184, p.109124.
Fernandez, C.W., Mielke, L., Stefanski, A., Bermudez, R., Hobbie, S.E., Montgomery, R.A., Reich, P.B. and Kennedy, P.G., 2023. Climate change–induced stress disrupts ectomycorrhizal interaction networks at the boreal–temperate ecotone. Proceedings of the National Academy of Sciences, 120(34), p.e2221619120.
Maillard, F., Michaud, T.J., See, C.R.*, DeLancey, L.C., Blazewicz, S.J., Kimbrel, J.A., Pett-Ridge, J. and Kennedy, P.G., 2023. Melanization slows the rapid movement of fungal necromass carbon and nitrogen into both bacterial and fungal decomposer communities and soils. Msystems, pp.e00390-23.
Ke, Y.H., Branco, S., Bazzicalupo, A.L., Nguyen, N.H., Liao, H.L., Kennedy, P., Bruns, T.D., Kuo, A., LaButti, K., Barry, K. and Grigoriev, I., 2023. Genomic determination of breeding systems and trans-specific evolution of HD MAT genes in suilloid fungi. Genetics, 224(2), p.iyad069.
Beidler, K.V., Powers, J.S., Dupuy‐Rada, J.M., Hulshof, C., Medvigy, D., Pizano, C., Salgado‐Negret, B., Van Bloem, S.J., Vargas G, G., Waring, B.G. and Kennedy, P.G., 2023. Seasonality regulates the structure and biogeochemical impact of ectomycorrhizal fungal communities across environmentally divergent neotropical dry forests. Journal of Ecology. 111(8), 1598-1613.
Kennedy P.G. and Maillard, F. (2023). Knowns and unknowns of the soil fungal necrobiome. Trends in Microbiology. 31(2): 173-180.
2022
Shemesh, H., Bruns, T. D., Peay, K. G., Kennedy, P. G., & Nguyen, N. H. Changing balance between dormancy and mortality determines the trajectory of ectomycorrhizal fungal spore longevity over a 15 year burial experiment. New Phytologist. 238(1), 11-15.
Xia M., Suseela V., McCormack, M.L., Kennedy, P.G. & Tharayil, N. Common and lifestyle-specific traits of mycorrhiza-associated metabolite alterations in plant roots reflects strategies of root-mycorrhizal interactions. Journal of Ecology. 111(3), 601-616.
Maillard F., Pflender S., Heckman K.A., Chalot M., & Kennedy P.G. (2022). Fungal necromass presents a high potential for Mercury immobilization in soil. Chemosphere. 311, 136994.
See C.R., Keller, A.B., Hobbie, S.E., Kennedy, P.G., Weber, P.K. & Pett‐Ridge, J. (2022). Hyphae move matter and microbes to mineral microsites: Integrating the hyphosphere into conceptual models of soil organic matter stabilization. Global Change Biology, 28(8), 2527-2540.
Maillard F, Fernandez CW, Mundra S, Heckman KA, Kolka RK, Kauserud H, Kennedy PG (2022). Warming drives a ‘hummockification’of microbial communities associated with decomposing mycorrhizal fungal necromass in peatlands. New Phytologist.
Erlandson SR, Margis R, Ramirez A, Nguyen N, Lofgren LA, Liao HL, Vilgalys R, Kennedy PG, Peay KG (2022). Transcriptional acclimation and spatial differentiation characterize drought response by the ectomycorrhizal fungus Suillus pungens. New Phytologist.
Duque A, Peña MA, Cuesta F, González-Caro S, Kennedy P, Phillips OL, Calderón-Loor M, Blundo C, Carilla J, Cayola L, Farfán-Ríos W (2022). Mature Andean forests as globally important carbon sinks and future carbon refuges. Nature Communications 12(1):1-0.
2021
Ochoa-Beltrán A, Martínez-Villa JA, Kennedy PG, Salgado-Negret B, Duque A (2021). Plant Trait Assembly in Species-Rich Forests at Varying Elevations in the Northwest Andes of Colombia. Land 10(10):1057.
Pérez-Pazos E, Certano A, Gagne J, Lebeuf R, Siegel N, Nguyen N, Kennedy PG (2021). The slippery nature of ectomycorrhizal host specificity: Suillus fungi associated with novel pinoid (Picea) and abietoid (Abies) hosts. Mycologia 113(5):891-901.
Maillard F, Andrews E, Moran M, Du DV, Kennedy PG, Powers JS, Van Bloem SJ, Schilling JS (2021). Early chemical changes during wood decomposition are controlled by fungal communities inhabiting stems at treefall in a tropical dry forest. Plant and Soil 466(1):373-89.
See CR, Fernandez CW, Conley AM, DeLancey LC, Heckman KA, Kennedy PG, Hobbie SE (2021). Distinct carbon fractions drive a generalisable two‐pool model of fungal necromass decomposition. Functional Ecology. 35(3):796-806.
Lekberg Y, Arnillas CA, Borer ET, Bullington LS, Fierer N, Kennedy PG, Leff JW, Luis AD, Seabloom EW, Henning JA (2021). Nitrogen and phosphorus fertilization consistently favor pathogenic over mutualistic fungi in grassland soils. Nature Communications 12(1):1-8.
Maillard F, Kennedy PG, Adamczyk B, Heinonsalo J, Buée M. (2021) Root presence modifies the long‐term decomposition dynamics of fungal necromass and the associated microbial communities in a boreal forest. Molecular Ecology in press.
Lofgren LA, Nguyen NH, Vilgalys R, Ruytinx J, Liao HL, Branco S, Kuo A, LaButti K, Lipzen A, Andreopoulos W, Pangilinan J, Riley R, Hundley H, Na H, Barry K, Grigoriev IV, Stajich JE, Kennedy PG (2021). Comparative genomics reveals dynamic genome evolution in host specialist ectomycorrhizal fungi. New Phytologist. 230: 774–792.
2020
Kennedy PG, Gagne JS, Pérez-Pazos E, Lofgren LA, Nguyen NH (2020). Does fungal competitive ability explain host specificity or rarity in ectomycorrhizal symbioses? PLoS ONE 15(8): e0234099.
Maillard F, Andrews E, Moran M, Kennedy PG, Van Bloem SJ, Schilling JS (2020). Stem-inhabiting fungal communities differ between intact and snapped trees after hurricane Maria in a Puerto Rican tropical dry forest. Forest Ecology and Management. 75:118350.
McCormack ML, Kaproth MA, Cavender‐Bares J, Carlson E, Hipp AL, Han Y, Kennedy PG (2020). Climate and phylogenetic history structure morphological and architectural trait variation among fine‐root orders. New Phytologist 228(6):1824-34.
Ryan ME, Schreiner KM, Swenson JT, Gagne J, Kennedy PG (2020). Rapid changes in the chemical composition of degrading ectomycorrhizal fungal necromass. Fungal Ecology. 45:100922.
Daws SC, Cline LA, Rotenberry J, Sadowsky MJ, Staley C, Dalzell B, Kennedy PG (2020). Do shared traits create the same fates? Examining the link between morphological type and the biogeography of fungal and bacterial communities. Fungal Ecology. 100948.
Zanne AE, Abarenkov K, Afkhami ME, Aguilar‐Trigueros CA, Bates S, Bhatnagar JM, Busby PE, Christian N, Cornwell WK, Crowther TW, Flores‐Moreno H et al. (2020). Fungal functional ecology: bringing a trait‐based approach to plant‐associated fungi. Biological Reviews. 95(2): 409-33.
Fernandez CW, See CR, Kennedy PG (2020). Decelerated carbon cycling by ectomycorrhizal fungi is controlled by substrate quality and community composition. New Phytologist. 226(2): 569-82.
Maillard F, Schilling J, Andrews E, Schreiner KM, Kennedy PG (2020). Functional convergence in the decomposition of fungal necromass in soil and wood. FEMS microbiology ecology. 96(2): fiz209.
Beidler KV, Phillips RP, Andrews E, Maillard F, Mushinski RM, Kennedy PG (2020). Substrate quality drives fungal necromass decay and decomposer community structure under contrasting vegetation types. Journal of Ecology. In Press.
Voitk A, Saar I, Lebeuf R, Kennedy PG (2020). The Pseudoomphalina kalchbrenneri complex in North America. Botany. 98(2): 91-101.
2019
Grossman JJ, Butterfield AJ, Cavender-Bares J, Hobbie SE, Reich PB, Gutknecht J, Kennedy PG (2019). Non-symbiotic soil microbes are more strongly influenced by altered tree biodiversity than arbuscular mycorrhizal fungi during initial forest establishment. FEMS microbiology ecology. 95(10): fiz134.
See CR, Luke McCormack M, Hobbie SE, Flores‐Moreno H, Silver WL, Kennedy PG (2019). Global patterns in fine root decomposition: climate, chemistry, mycorrhizal association and woodiness. Ecology Letters. 22(6): 946-53.
Bogar L, Peay K, Kornfeld A, Huggins J, Hortal S, Anderson I, Kennedy PG (2019). Plant-mediated partner discrimination in ectomycorrhizal mutualisms. Mycorrhiza. 29(2): 97-111.
Fernandez CW, Heckman K, Kolka R, Kennedy PG (2019). Melanin mitigates the accelerated decay of mycorrhizal necromass with peatland warming. Ecology Letters 22(3): 498-505.
Lofgren LA, Uehling JK, Branco S, Bruns TD, Martin F, Kennedy PG (2019). Genome‐based estimates of fungal rDNA copy number variation across phylogenetic scales and ecological lifestyles. Molecular Ecology 28(4): 721-30.
2018
Certano AK, Fernandez CW, Heckman K, PG Kennedy (2018) The afterlife effects of fungal morphology: contrasting decomposing rates of diffuse and rhizomorphic necromass. Soil Biology and Biochemistry 126: 76-81.
Cline LC, Huggins J, Hobbie S, PG Kennedy (2018) Organic nitrogen addition suppresses fungal richness and alters community composition in temperate forest soils. Soil Biology and Biochemistry 125: 222-230.
Lofgren LA, Nguyen NH, PG Kennedy (2018) Ectomycorrhizal host specificity in a changing world: can legacy effects explain anomalous current associations? New Phytologist 220: 1273-1284.
Kennedy PG, Mielke LA, Nguyen NH (2018) Ecological responses to forest age, habitat, and host vary by mycorrhizal type in boreal peatlands. Mycorrhiza 28: 315-328.
Põlme S, Bahram M, Jacquemyn H, Kennedy P, Kohout P, Moora M, Oja J, Öpik M, Pecoraro L, L Tedersoo (2018) Host preference and network properties in biotrophic plant–fungal associations. New Phytologist 217: 1230-1239.
Kennedy PG, Cline LC, Z Song (2018) Probing promise versus performance in longer read fungal metabarcoding. New Phytologist 217: 973-976.
Fernandez CW, PG Kennedy (2018) Melanization of mycorrhizal fungal necromass structures microbial decomposer communities. Journal of Ecology 106: 468-479.
2017
Cline LC, Schilling JS, Menke J, Groenhof E, PG Kennedy (2017) Ecological and functional effects of fungal endophytes on wood decomposition. Functional Ecology 32: 181-191
Cline LC, Song Z, Al-Ghalith G, Knights D, PG Kennedy (2017) Moving beyond de novo clustering in fungal community ecology. New Phytologist 216: 629-634.
Ballhorn D, Elias JD, Balkan MA, Fordyce RF, PG Kennedy (2017) Colonization by nitrogen-fixing Frankia bacteria causes short-term increases in herbivore susceptibility in red alder (Alnus rubra) seedlings. Oecologia 184: 497-506.
Song Z, Kennedy PG, Liew FJ, Schilling JS (2017) Fungal endophytes as priority colonizers initiating wood decomposition. Functional Ecology 31:407-418.
Fernandez CW, Nguyen NH, Stefanski A, Han Y, Hobbie SE, Montgomery RA, Reich PB, PG Kennedy (2017) Ectomycorrhizal fungal response to warming is linked to poor host performance at a boreal-temperate ecotone. Global Change Biology 23: 1598-1609.
2016
Nguyen NH, Vellinga E, Bruns TB, PG Kennedy (2016) Phylogenetic assessment of global Suillus ITS sequences supports morphologically defined species and reveals synonymous and undescribed taxa. Mycologia 108: 1216-1228.
Nguyen NH, Williams L, Vincent JB, Stefanski A, Cavender-Bares J, Messier C, Paquette A, Gravel D, Reich PB, PG Kennedy (2016) Ectomycorrhizal and saprotrophic fungal diversity are linked to different tree community attributes in a field-based tree experiment. Molecular Ecology 25: 4032-4046.
Peay KG, Kennedy PG, JM Talbot (2016) Dimensions of biodiversity in the Earth's mycobiome. Nature Reviews Microbiology 14: 434-447.
Rineau F, Stas J, Nguyen NH, Kuyper TW, Carleer R, Vangronsveld J, Colpaert JV, PG Kennedy (2016) Soil organic nitrogen availability predicts ectomycorrhizal fungal protein degradation ability. Applied and Environmental Microbiology 82: 1391-1400.
Mujic AB, Durall DM, Spatafora JW, Kennedy PG (2016) Competitive avoidance not edaphic specialization drives vertical niche partitioning among sister species of ectomycorrhizal fungi. New Phytologist 209:1174-1183.
Fernandez CW, Kennedy PG (2016). Revisiting the 'Gadgil Effect': do interguild fungal interactions control carbon cycling in forest soils? New Phytologist 209:1382-1394.
Nguyen NH, Song Z, Bates ST, Branco S, Tedersoo L, Menke J, Schilling JS, PG Kennedy (2016) FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild. Fungal Ecology 20:241-248.
2015
Kennedy PG, Walker JKM, Bogar LM (2015) Interspecific mycorrhizal networks and non-networking hosts: exploring the ecology of the host genus Alnus. In Mycorrrhizal Networks, Horton TR ed. Springer.
Bogar LM, Dickie IA, Kennedy PG (2015). Testing the co-invasion hypothesis: ectomycorrhizal fungal communities on Alnus glutinosa and Salix fragilis in New Zealand. Diversity and Distributions 21:268-278.
Song Z, Schlatter D, Kennedy PG, Kinkel L, Kistler HC, Nguyen NH, Bates S (2015) Effort versus reward: preparing samples for fungal community characterization in high-throughput sequencing surveys of soils. PLoS ONE 10(5) e0127234.
Nguyen NH, Smith D, Peay K, Kennedy PG (2015) Parsing ecological signal from noise in next generation amplicon sequencing. New Phytologist 205:1389–1393.
Fernandez CW, Kennedy PG (2015) Moving beyond the black-box: fungal traits, community structure, and carbon sequestration in forest soils. New Phytologist 205:1378–1380.
Kennedy PG, Stajich J (2015). Twenty-first century mycology: a diverse, collaborative, and highly relevant science. New Phytologist 205: 23-26.
2014
Kennedy PG, Nguyen NH, Cohen H, Peay KG (2014) Missing checkerboards? An absence of competitive signal in Alnus-associated ectomycorrhizal fungal communities. PeerJ 2:e686.
Huggins JA, Talbot J, Gardes M, Kennedy PG (2014) Unlocking environmental keys to host specificity: differential tolerance of acidity and nitrate by Alnus-associated ectomycorrhizal fungi. Fungal Ecology: 12: 52-61.
Bubriski R, Kennedy PG (2014) A molecular and morphological analysis of the genus Rhizopogon subgenus Villosuli section Villosuli as a preface to ecological monitoring. Mycologia 106:353-361.