* denotes undergraduate authors. Full Text PDFs linked to DOIs.
2021
Põlme, S., Abarenkov, K., Nilsson, R.H., Lindahl, B.D., Clemmensen, K., Kauserud, H., Nguyen, N., Kjoller, R., Bates, S.T., Baldrian, P., Guldberg Frøslev, T., Adojaan, K., Vizzini, A., Suija, A., Pister, D., Baral, H., Järv, H., Madrid, H., Nordén, J., Liu, J., Pawlowska, J., Põldmaa, K., Pärtel, K., Runnel, K., Hansen, K., Larsson, K., Hyde, K.D., Sandoval-Denis, M., Smith, M.E., Toome-Heller, M., Wijayawardene, N.N., Menolli Jr, N.N., Reynolds, N.K., Drenkhan, R., Maharachchikumbura, S.S.N., Gibertoni, T.B., Læssøe, T., Davis, W., Tokarev, Y., Corrales, A., Soares, A.M., Agan, A., Reis Machado, A., Argüelles-Moyao, A., Detheridge, A., de Meiras-Ottoni, A., Verbeken, A., Kumar Dutta, A., Cui, B., Pradeep, C.K., Marín, C., Stanton, D., Gohar, D., Wanasinghe, D.N., Otsing, E., Aslani, F., Griith, G.W., Thorsten Lumbsch, H., Grossart, H., Masigol, H., Timling, I., Hiiesalu, I., Oja, J., Kupagme, J.Y., Geml, J., Alvarez Manjarrez, J., Ilves, K., Loit, K., Adamson, K., Nara, K., Küngas, K., Rojas-Jimenez, K., Bitenieks, K., Irinyi, L., Nagy, L., Soonvald, L., Zhou, L., Wagner, L., Aime, M.C., Öpik, M., Mujica, M.I., Metsoja, M., Ryberg, M., Vasar, M., Murata, M., Nelsen, M.P., Cleary, M., Samarakoon, M.C., Doilom, M., Bahram, M., Hagh-Doust, N., Dulya, O., Johnston, P., Kohout, P., Chen, Q., Tian, Q., Nandi, R., Amiri, R., Hansika Perera, R., dos Santos Chikowski, R., Mendes-Alvarenga, R.L., Garibay Orijel, R., Gielen, R., Phookamsak, R., Jayawardena, R.S., Rahimlou, S., Karunarathna, S.C., Tibpromma, S., Brown, S.P., Sepp, S., Mundra, S., Luo, Z., Bose, T., Vahter, T., Netherway, T., Yang, T., May, T., Varga, T., Li, W., Matos Coimbra, V.R., Targino de Oliveira, V.R., de Lima, V.X., Mikryukov, V.S., Lu, Y., Matsuda, Y., Miyamoto, Y., Kõljalg, U., Tedersoo, L. (2021). FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles. Fungal Diversity. Accepted. ~ DOI: 10.1007/s13225-020-00466-2
2020
Brown, S.P., Grillo, M.A., Podowski, J.C., and Heath, K.D. (2020). Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula. Microbiome 8: 139. ~ DOI: 10.1186/s40168-030-00915-9
Shor, E.K., Brown, S.P., and Freeman, D.A. (2020). A novel role for the pineal gland: regulating seasonal shifts in the gut microbiota if Siberian hamsters. Journal of Pineal Research 69: e12696. ~ DOI: 10.1111/jpi.12696
Weeks, D.M., Parris, M.J., and Brown, S.P. (2020). Recovery and resiliency of skin microbial communities on the southern leopard frog (Lithobates sphenocephalus) following two biotic disturbances. Animal Microbiome 2: 35. ~ DOI: 10.1186/s42523-020-00053-5
Brown, S.P., and Tucker A.E (2020). Distribution and biogeography of Sanguina snow algae: Fine-scale sequence analyses reveal previously unknown population stricture. Ecology and Evolution 10: 11352-11361. ~ DOI: 10.1002/ece3.6772
Ahamed, T., Brown, S.P., and Salehi M (2020). Investigate the role of biofilm and water chemistry on lead deposition onto and release from polyethylene: an implication for potable water pipes. Journal of Hazardous Materials 400: 123253 ~ DOI: 10.1016/j.jhazmat.2020.123253
Seballos, R.C., Wyatt, K.H., Bernot, R.J., Brown, S.P., Chandra, S., and A.R. Rober (2020). Nutrient availability and organic matter quality shape bacterial community structure in a lake biofilm. Aquatic Microbial Ecology 85: 1-18. ~ DOI: 10.3354/ame01937
Shahrtash M., and S.P. Brown (2020). Drivers of foliar fungal endophytic communities of kudzu (Pueraria montana var. lobata) in the Southeast United States. Diversity 12: 185. ~DOI: 10.3390/d12050185
2019
Brown, S.P., Veach, A.M., Horton, J., *Ford, E., Jumpponen, A., and R. Baird (2019). Context dependent fungal and bacterial community shifts in response to recent wildfire in the Southern Appalachian Mountains. Forest Ecology and Management 451: 117520 ~ DOI: 10.1016/j.foreco.2019.117520
Wyatt, K.H., Seballos, R., *Shoemaker, M.N., Brown, S.P., Chandra, S., Kuehn, K.A., Rober, A.R., and S. Sadro (2019) Resource constraints highlight complex microbial interactions during lake biofilm development. Journal of Ecology 107: 2737-2746~ DOI:10.1111/1365-2745.13223
Brown, S.P. and A. Jumpponen (2019) Microbiology of snow reveals taxa-specific biogeographical structure. Microbial Ecology 77: 946-958 ~ DOI:10.1007/s00248-019-01357-z
Jones, J.M., Heath, K.D., Ferrer, A., Brown, S.P., Canam, T., and J.W. Dalling (2019) Wood decomposition in aquatic and terrestrial ecosystems in the tropics: contrasting biotic and abiotic processes. FEMS Microbiology Ecology 95: fiy223 ~ DOI:10.1093/femsec/fiy223
2018
Brown, S.P., Leopold, D.R., and P.E. Busby (2018) Protocols for investigating the leaf mycobiome using high-throughput DNA sequencing. In: Ma, W. and Wolpert, T. (eds.), Plant Pathogenic Fungi and Oomycetes: Methods and Protocols vol 1848. Humana Press, New York, NY, USA pp 39-51. ~ DOI:10.1007/978-1-4939-8724-5_4
2016
Veach, A.M., Stegen, J., Brown, S.P., Dodds, W.K., and A. Jumpponen (2016) Spatial and successional dynamics of microbial biofilm communities in a grassland stream ecosystem. Molecular Ecology 25: 4674-4688. ~ DOI:10.1111/mec.13784
Brown, S.P., Ungerer, M.C. and A. Jumpponen. (2016) A community of clones: snow algae are diverse communities of spatially structured clones. International Journal of Plant Sciences 177: 432-439. ~ DOI:10.1086/686019
Brown, S.P., A. Ferrer, J. Dalling, and K.D. Heath. (2016) Don’t put all your eggs in one basket: a cost-effective and powerful method to optimize primer choice for rRNA environmental community analyses using the Fluidigm Access Array. Molecular Ecology Resources 16: 946- 956. ~ DOI: 10.1111/1755-0998.12507
2015
Brown, S.P. and A. Jumpponen. (2015) Phylogenetic diversity analyses reveal disparity between fungal and bacterial communities during microbial primary succession. Soil Biology & Biochemistry 89: 52-60. ~ DOI:10.1016/j.soilbio.2015.06.025
Jumpponen, A., Brown, S.P., Trappe, J.M., Cázares, E., and R. Strömmer. (2015) Analyses of sporocarps, morphotyped ectomycorrhizae, environmental ITS and LSU sequences identify common genera that occur at a periglacial site. Journal of Fungi 1: 76-93. ~ DOI:10.3390/jof1010076
Brown, S.P., Olson, B.J.S.C., and A. Jumpponen (2015) Fungi and algae co-occur in snow: an issue of shared habitat of algal facilitation of heterotrophs? Alpine, Antarctic, and Alpine Research 47: 729-749. ~ DOI:10.1675/AAAR0014-071
Oliver, A.K., Brown, S.P., Callaham Jr., M.A., and A. Jumpponen (2015) Polymerase matters: non-proofreading enzymes inflate richness estimates by up to 15%. Fungal Ecology 15: 86-89. ~ DOI:10.1016/j.funeco.2015.03.003
Saravesi, K., Aikio, S., Wäli, P., Ruotsalainen, A.L., Kaukonen, M., Huusko K., Suokas, M., Brown, S.P., Jumpponen, A., Tuomi J., and A., Markkola. (2015) Moth outbreaks alter root-associated fungal communities in subarctic mountain birch forests. Microbial Ecology 69: 788-797. ~ DOI:10.1007/s00248-015-0577-8
Brown, S.P., Veach, A.M., Rigdon-Huss, A.R., Grond, K., *Lickteig, S.K., *Lothamer, K., Oliver, A.K., and A. Jumpponen (2015) Scraping the bottom of the barrel: are rare high-throughput sequences artifacts? Fungal Ecology 13: 221-225. ~ DOI:10.1046/j.funeco.2014.08.006
2014
Jumpponen, A. and S.P. Brown (2014) The rich and the sensitive: diverse fungal communities change functionally with the warming Arctic. Molecular Ecology 23: 3127-3129. ~ DOI:10.0000/mec.12805
Brown, S.P., Rigdon-Huss, A.R. and A. Jumpponen (2014) Analyses of ITS and LSU gene regions provide congruent results on fungal community responses. Fungal Ecology 9: 65-68. ~ DOI:10.1016/j.funeco.2014.02.002
*Lothamer, K.L., Brown, S.P., Mattox, J.D. and A. Jumpponen (2014) Comparison of root-associated communities of native and non-native ectomycorrhizal hosts in an urban landscape. Mycorrhiza 24: 267-280. ~ DOI:10.1007/s00572-013-0539-2
Brown, S. P. and A. Jumpponen (2014) Contrasting primary successional trajectories of fungi and bacteria in retreating glacier soils. Molecular Ecology 23: 481-497. ~ DOI:10.1111/mec.12487
2013
Brown, S. P., Callaham Jr, M.A., Oliver, A.K. and A. Jumpponen (2013) Deep Ion Torrent sequencing identifies soil fungal community shifts after frequent prescribed fires in a southeastern US forest ecosystem. FEMS Microbiology Ecology 86: 557-566. ~ DOI:10.1111/1574-6941.12181
2012
Jumpponen, A., Brown, S.P., Trappe, J.M., Cázares, E., and R. Strömmer (2012) Twenty years of research on fungal-plant interactions on Lyman Glacier forefront – lessons learned and questions yet unanswered. Fungal Ecology 5(4): 430-442. ~ DOI:10.1016/j.funeco.2012.01.002
2021
Põlme, S., Abarenkov, K., Nilsson, R.H., Lindahl, B.D., Clemmensen, K., Kauserud, H., Nguyen, N., Kjoller, R., Bates, S.T., Baldrian, P., Guldberg Frøslev, T., Adojaan, K., Vizzini, A., Suija, A., Pister, D., Baral, H., Järv, H., Madrid, H., Nordén, J., Liu, J., Pawlowska, J., Põldmaa, K., Pärtel, K., Runnel, K., Hansen, K., Larsson, K., Hyde, K.D., Sandoval-Denis, M., Smith, M.E., Toome-Heller, M., Wijayawardene, N.N., Menolli Jr, N.N., Reynolds, N.K., Drenkhan, R., Maharachchikumbura, S.S.N., Gibertoni, T.B., Læssøe, T., Davis, W., Tokarev, Y., Corrales, A., Soares, A.M., Agan, A., Reis Machado, A., Argüelles-Moyao, A., Detheridge, A., de Meiras-Ottoni, A., Verbeken, A., Kumar Dutta, A., Cui, B., Pradeep, C.K., Marín, C., Stanton, D., Gohar, D., Wanasinghe, D.N., Otsing, E., Aslani, F., Griith, G.W., Thorsten Lumbsch, H., Grossart, H., Masigol, H., Timling, I., Hiiesalu, I., Oja, J., Kupagme, J.Y., Geml, J., Alvarez Manjarrez, J., Ilves, K., Loit, K., Adamson, K., Nara, K., Küngas, K., Rojas-Jimenez, K., Bitenieks, K., Irinyi, L., Nagy, L., Soonvald, L., Zhou, L., Wagner, L., Aime, M.C., Öpik, M., Mujica, M.I., Metsoja, M., Ryberg, M., Vasar, M., Murata, M., Nelsen, M.P., Cleary, M., Samarakoon, M.C., Doilom, M., Bahram, M., Hagh-Doust, N., Dulya, O., Johnston, P., Kohout, P., Chen, Q., Tian, Q., Nandi, R., Amiri, R., Hansika Perera, R., dos Santos Chikowski, R., Mendes-Alvarenga, R.L., Garibay Orijel, R., Gielen, R., Phookamsak, R., Jayawardena, R.S., Rahimlou, S., Karunarathna, S.C., Tibpromma, S., Brown, S.P., Sepp, S., Mundra, S., Luo, Z., Bose, T., Vahter, T., Netherway, T., Yang, T., May, T., Varga, T., Li, W., Matos Coimbra, V.R., Targino de Oliveira, V.R., de Lima, V.X., Mikryukov, V.S., Lu, Y., Matsuda, Y., Miyamoto, Y., Kõljalg, U., Tedersoo, L. (2021). FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles. Fungal Diversity. Accepted. ~ DOI: 10.1007/s13225-020-00466-2
2020
Brown, S.P., Grillo, M.A., Podowski, J.C., and Heath, K.D. (2020). Soil origin and plant genotype structure distinct microbiome compartments in the model legume Medicago truncatula. Microbiome 8: 139. ~ DOI: 10.1186/s40168-030-00915-9
Shor, E.K., Brown, S.P., and Freeman, D.A. (2020). A novel role for the pineal gland: regulating seasonal shifts in the gut microbiota if Siberian hamsters. Journal of Pineal Research 69: e12696. ~ DOI: 10.1111/jpi.12696
Weeks, D.M., Parris, M.J., and Brown, S.P. (2020). Recovery and resiliency of skin microbial communities on the southern leopard frog (Lithobates sphenocephalus) following two biotic disturbances. Animal Microbiome 2: 35. ~ DOI: 10.1186/s42523-020-00053-5
Brown, S.P., and Tucker A.E (2020). Distribution and biogeography of Sanguina snow algae: Fine-scale sequence analyses reveal previously unknown population stricture. Ecology and Evolution 10: 11352-11361. ~ DOI: 10.1002/ece3.6772
Ahamed, T., Brown, S.P., and Salehi M (2020). Investigate the role of biofilm and water chemistry on lead deposition onto and release from polyethylene: an implication for potable water pipes. Journal of Hazardous Materials 400: 123253 ~ DOI: 10.1016/j.jhazmat.2020.123253
Seballos, R.C., Wyatt, K.H., Bernot, R.J., Brown, S.P., Chandra, S., and A.R. Rober (2020). Nutrient availability and organic matter quality shape bacterial community structure in a lake biofilm. Aquatic Microbial Ecology 85: 1-18. ~ DOI: 10.3354/ame01937
Shahrtash M., and S.P. Brown (2020). Drivers of foliar fungal endophytic communities of kudzu (Pueraria montana var. lobata) in the Southeast United States. Diversity 12: 185. ~DOI: 10.3390/d12050185
2019
Brown, S.P., Veach, A.M., Horton, J., *Ford, E., Jumpponen, A., and R. Baird (2019). Context dependent fungal and bacterial community shifts in response to recent wildfire in the Southern Appalachian Mountains. Forest Ecology and Management 451: 117520 ~ DOI: 10.1016/j.foreco.2019.117520
Wyatt, K.H., Seballos, R., *Shoemaker, M.N., Brown, S.P., Chandra, S., Kuehn, K.A., Rober, A.R., and S. Sadro (2019) Resource constraints highlight complex microbial interactions during lake biofilm development. Journal of Ecology 107: 2737-2746~ DOI:10.1111/1365-2745.13223
Brown, S.P. and A. Jumpponen (2019) Microbiology of snow reveals taxa-specific biogeographical structure. Microbial Ecology 77: 946-958 ~ DOI:10.1007/s00248-019-01357-z
Jones, J.M., Heath, K.D., Ferrer, A., Brown, S.P., Canam, T., and J.W. Dalling (2019) Wood decomposition in aquatic and terrestrial ecosystems in the tropics: contrasting biotic and abiotic processes. FEMS Microbiology Ecology 95: fiy223 ~ DOI:10.1093/femsec/fiy223
2018
Brown, S.P., Leopold, D.R., and P.E. Busby (2018) Protocols for investigating the leaf mycobiome using high-throughput DNA sequencing. In: Ma, W. and Wolpert, T. (eds.), Plant Pathogenic Fungi and Oomycetes: Methods and Protocols vol 1848. Humana Press, New York, NY, USA pp 39-51. ~ DOI:10.1007/978-1-4939-8724-5_4
2016
Veach, A.M., Stegen, J., Brown, S.P., Dodds, W.K., and A. Jumpponen (2016) Spatial and successional dynamics of microbial biofilm communities in a grassland stream ecosystem. Molecular Ecology 25: 4674-4688. ~ DOI:10.1111/mec.13784
Brown, S.P., Ungerer, M.C. and A. Jumpponen. (2016) A community of clones: snow algae are diverse communities of spatially structured clones. International Journal of Plant Sciences 177: 432-439. ~ DOI:10.1086/686019
Brown, S.P., A. Ferrer, J. Dalling, and K.D. Heath. (2016) Don’t put all your eggs in one basket: a cost-effective and powerful method to optimize primer choice for rRNA environmental community analyses using the Fluidigm Access Array. Molecular Ecology Resources 16: 946- 956. ~ DOI: 10.1111/1755-0998.12507
2015
Brown, S.P. and A. Jumpponen. (2015) Phylogenetic diversity analyses reveal disparity between fungal and bacterial communities during microbial primary succession. Soil Biology & Biochemistry 89: 52-60. ~ DOI:10.1016/j.soilbio.2015.06.025
Jumpponen, A., Brown, S.P., Trappe, J.M., Cázares, E., and R. Strömmer. (2015) Analyses of sporocarps, morphotyped ectomycorrhizae, environmental ITS and LSU sequences identify common genera that occur at a periglacial site. Journal of Fungi 1: 76-93. ~ DOI:10.3390/jof1010076
Brown, S.P., Olson, B.J.S.C., and A. Jumpponen (2015) Fungi and algae co-occur in snow: an issue of shared habitat of algal facilitation of heterotrophs? Alpine, Antarctic, and Alpine Research 47: 729-749. ~ DOI:10.1675/AAAR0014-071
Oliver, A.K., Brown, S.P., Callaham Jr., M.A., and A. Jumpponen (2015) Polymerase matters: non-proofreading enzymes inflate richness estimates by up to 15%. Fungal Ecology 15: 86-89. ~ DOI:10.1016/j.funeco.2015.03.003
Saravesi, K., Aikio, S., Wäli, P., Ruotsalainen, A.L., Kaukonen, M., Huusko K., Suokas, M., Brown, S.P., Jumpponen, A., Tuomi J., and A., Markkola. (2015) Moth outbreaks alter root-associated fungal communities in subarctic mountain birch forests. Microbial Ecology 69: 788-797. ~ DOI:10.1007/s00248-015-0577-8
Brown, S.P., Veach, A.M., Rigdon-Huss, A.R., Grond, K., *Lickteig, S.K., *Lothamer, K., Oliver, A.K., and A. Jumpponen (2015) Scraping the bottom of the barrel: are rare high-throughput sequences artifacts? Fungal Ecology 13: 221-225. ~ DOI:10.1046/j.funeco.2014.08.006
2014
Jumpponen, A. and S.P. Brown (2014) The rich and the sensitive: diverse fungal communities change functionally with the warming Arctic. Molecular Ecology 23: 3127-3129. ~ DOI:10.0000/mec.12805
Brown, S.P., Rigdon-Huss, A.R. and A. Jumpponen (2014) Analyses of ITS and LSU gene regions provide congruent results on fungal community responses. Fungal Ecology 9: 65-68. ~ DOI:10.1016/j.funeco.2014.02.002
*Lothamer, K.L., Brown, S.P., Mattox, J.D. and A. Jumpponen (2014) Comparison of root-associated communities of native and non-native ectomycorrhizal hosts in an urban landscape. Mycorrhiza 24: 267-280. ~ DOI:10.1007/s00572-013-0539-2
Brown, S. P. and A. Jumpponen (2014) Contrasting primary successional trajectories of fungi and bacteria in retreating glacier soils. Molecular Ecology 23: 481-497. ~ DOI:10.1111/mec.12487
2013
Brown, S. P., Callaham Jr, M.A., Oliver, A.K. and A. Jumpponen (2013) Deep Ion Torrent sequencing identifies soil fungal community shifts after frequent prescribed fires in a southeastern US forest ecosystem. FEMS Microbiology Ecology 86: 557-566. ~ DOI:10.1111/1574-6941.12181
2012
Jumpponen, A., Brown, S.P., Trappe, J.M., Cázares, E., and R. Strömmer (2012) Twenty years of research on fungal-plant interactions on Lyman Glacier forefront – lessons learned and questions yet unanswered. Fungal Ecology 5(4): 430-442. ~ DOI:10.1016/j.funeco.2012.01.002