Probability of occurrence and phenology of pine wilt disease transmission by insect vectors in the southern Rocky Mountains. Atkins DH, Davis TS*, Stewart, JE*. Ecological Solutions and Evidence.

Eastern black walnut (Juglans nigra L.) originating from native range varies in response to inoculation with Geosmithia morbida. Sitz RA, Luna, EK, Ibarra Caballero, J, Tisserat, NA, Cranshaw, WS, Mckenna JR, Stolz J, Stewart, JE*. Frontiers in Forests and Global Change. 4: 12.

Exploring fungicides and sealants for management of Cytospora plurivora infections in western Colorado peach production systems. Miller ST, Sterle D, Minas IS, Stewart JE*. 2021. Crop Protection.

Molecular characterization and phylogenetic analyses of Lophodermella needle pathogens (Rhytismataceae) on Pinus species in the USA and Europe Ata J, Burns KS, Marchetti S, Munck I, Beenken L, Worrall JJ, Stewart JE*. PeerJ.

Soil fertility interactions with Sinorhizobium-Legume symbiosis in a simulated Martian regolith. Harris F, Dobbs JT, Atkins DA, Ippolito JA*, Stewart JE*. PlosOne. Accepted with Revision.

Fusarium spp. diversity associated with symptomatic Acacia koa in Hawaiʽi Dobbs JT, Kim M-S, Dudley NS, Jones TC, Yeh A, Dumroese RK, Cannon PG, Hauff RD, Klopfenstein NB, Wright S, Stewart JE*. Forest Pathology. Accepted with Revision.

Calonectria vigiensis sp. nov. (Hypocreales, Nectraceae) associated with dieback and sudden death symptoms Theobroma cacao Mohali-Castillo S*, Stewart JE*. Merida state, Venezuela. Canadian Journal of Botany. Accepted. 

Phylogenetic and population analyses of the invasive brown root-rot pathogen (Phellinus noxius) highlights the existence of three distinct populations with unique climate habitats J. E. Stewart, M. S. Kim, Y. Ota, N. Sahashi, J. W. Hanna, M. Akiba, J. P. Ata, N. Atibalentia, F. Brooks, C.-L Chung, E. K. Dann, A. Mohd Farid, T. Hattori, S. S. Lee, K. Otto, G. S. Pegg, R. L. Schlub, L. S. Shuey, A. M. C. Tang, J.-N Tsai, P. G. Cannon, N. B. Klopfenstein. NB. 2020. European Journal of Plant Pathology.

Genome comparison and transcriptome analysis of the invasive brown root rot pathogen, Phellinus noxius, from different geographic regions reveals potential enzymes associated with degradation of distinct wood substrates. Ibarra Caballero, JR, Ata JP, Leddy, KA, Glenn, TC, Kieran TJ, Klopfenstein, NB, Kim M-S, Stewart, JE*. 2020. Fungal Biology.

Responses of Engelmann spruce to inoculation with Leptographium abietinum, a symbiotic fungus of the North American spruce beetle. Stewart, JE, Harris, FL, Otto, K, Davis, TS. 2020. Canadian Journal of Forest Research.

Subalpine fir decline in Colorado is associated with stand density, warming climates and interactions among fungal diseases and the western balsam bark beetle. Lalande BL, Hughes K, Jacobi WR, Tinkham W, Reich R, Stewart JE. 2020. Forest Ecology and Management.

Pathogenicity and distribution of two species of Cytospora to quaking aspen (Populous tremuloides Michx.) in selected regions of the Rock Mountain and Midwest in the United States. Dudley, MM, Tisserat, NA, Jacobi, WR, Stewart JE. 2020. Forest Ecology and Management.

Draft Genome Assembly of Passalora sequoia a needle blight pathogen on Leyland cypress. Copes, WE, Ibarra Caballero J, Babiker E, Stewart JE, Orner VA, Windham AS, Arias RS. 2020. BMC Data Note. DOI: 10.21203/rs.3.rs-29710/v1

Dietary supplementation with phytochemical improves diversity and abundance of honey bee gut microbiota.  Geldert C, Abdo Z, Stewart JE, Seshardri A. 2020. Applied Microbiology.

Whole genome analysis of the koa wilt pathogen (Fusarium oxysporum f. sp. koae) and the development of molecular tools for early detection and monitoring Dobbs, JT, Kim M-K, Dudley NS, Jones TC, Yeh A, Dumroese RK, Cannon PG, Hauff RD, Klopfenstein NB, Stewart JE*. 2020. BMC Genomics.

 Preventive chemical control of Cytospora canker in peaches in western Colorado. Miller, ST, Otto, KL, Sterling, D, Minas, IS, Stewart, JE. 2019. Plant Disease.

Genomic comparisons of the laurel wilt pathogen, Raffaelea lauricola, and related tree pathogens highlight an arsenal of pathogenicity related genes. Ibarra Caballero, JR, Jeon, J, Lee Y-H, Fraedrich S, Kim, M-S, Stewart, JE. 2019. Fungal Biology and Genetics. 125: 84-92.

 Transcriptome analysis of Podosphaera pannosa infecting Eucalyptus urophylla: de novo assembly, expression profiling, secretome prediction and, discovery of SSR markers. Fonseca NR, ^Ibarra Caballero, JR, Stewart JE*, Kim M-S, Lucio MS. Guimarães, Alfenas, A.C., Klopfenstein, N.B. 2019. Forest Pathology.

 Armillaria altimontana is associated with unimpeded growth and survival of western white pine (Pinus monticola) planted in northern Idaho: Potential in situ biological control agent for Armillaria root disease caused by A. solidipes.  Warwell, MV, McDonald, GI, Hanna, JW, Kim, M-S, #Lalande, B, Stewart, JE, Klopfenstein, NB. 2019. Forests. 10: 294-298.

 Insects visiting drippy blight diseased red oak trees are contaminated with the pathogenic bacterium Lonsdalea quercina subsp. quercina. Sitz, R.A.^#, Aquino, V., Tisserat, N.A., Stewart J.E., Cranshaw W.S. 2019. Plant Disease.

Responses of bacterial and fungal community structure to different rates of 1,3-dichloropropene fumigation. Zeng, Y., Abdo, Z., Charkowski, A., Stewart, JE, Frost, K. 2019. Phytobiomes.

Mining the Uromyces transveralis genome for molecular markers reveals a lack of genotypic diversity among gladioulus rust isolates Delong, JA, Stewart, JE, Balencia-Botin, A, Pedley, KF, Buck, JW, Brewer, MT. 2019. PeerJ.

Drippy blight, a disease of red oaks in Colorado Produced from the combined effect of the scale insect Allokermes galliformis and the bacterium Lonsdalea quercina subsp. quercina. Sitz, R, Snelling, J., Ibarra Caballero, J., Zerillo, M., Alexander, K., Tisserat, N., Cranshaw, W., Stewart, JE. 2018. Arboriculture and Urban Forestry 44: 146-153. Journal Impact: 0.80

The influence of prescribed crown fire on Lodgepole Pine Dwarf Mistletoe (Arceuthobium americanum) populations 33 years post-fire. Ritter, S.M., Hoffman, C.M., Stewart, JE, Zimmerman, T. 2018. Forest Pathology, 48: e12419.  

Molecular genetic approaches towards understanding forest-associated fungi and their interactive roles within forest ecosystems. Stewart, JE*, Kim M-S, Klopfenstein NB. 2018. Current Forestry Reports. 1: 1-13.

Engelmann spruce chemotypes and their effects on symbiotic fungi associated with North American spruce beetle. Davis, TS, Home, F.B, Yetter, JC, Stewart, JE. 2018. Journal of Chemical Ecology. 44: 601-610.

Evaluating ecological roles of Leptographium abietinum, a symbiotic fungus associated with North American spruce beetle. Davis TS, Stewart JE, Mann A, Ramey SM, Bradley C, Hofstetter RW. 2018. Fungal Ecology. doi: 10.1016/j.funeco.2018.04.008.

Virulence of genetically distinct Geosmithia morbida isolates to black walnut and their response to co-inoculation with Fusarium solani Sitz, R.A., Luna, E.K., Ibarra Caballero, J., Tisserat, N.A., Cranshaw, W.S., Stewart, JE. 2017. Plant Disease. 101: 116-120.

Impacts of lodgepole pine dwarf mistletoe (Arceuthobium americanum) infestation on stand structure and fuel load in lodgepole pine dominated forests in central Colorado. Ritter S, Hoffman C, Ex S, Stewart, JE. 2017. Botany. 95: 307-231.

Draft Genome Sequence of the Fungus Associated with Oak-Wilt Mortality in South Korea, Raffaelea quercus-mongolicae KACC44405, Genome Announcements Jongbum, J, Ki-Tae K, H-J Song, G-W Lee, K Cheong, H Kim, G Choi, Y-H Lee, JE Stewart, NB Klopfenstein, M-S Kim. 2017. https://doi.org/10.1128/genomeA.00797-17

Two horizontally transferred xenobiotic resistance gene clusters associate with detoxification of benzoxazolinones by Fusarium species. Glenn, A.T., Davis, B., Minglu, G., Gold, S.E., Mitchell, T., Proctor, R., Stewart, J.E., Snook, M. 2016. PlosOne.

Observed and anticipated impacts of drought on forests insects and diseases in the United States. Kolb, T.E., Fettig, C.J., Bentz, B.J., Stewart, J.E., Weed, A.S., Hicks, J.A., Aryes, M.P. 2016. Forest Ecology and Management.

First Report of Fusarium proliferatrum causing Fusarium root disease on sugar pine (Pinus lambertiana) in a forest container nursery in California. Stewart, J.E., K. Otto, Cline, G.A., Dumroese, R.K., Klopfenstein, N.B., Kim, M.-S. 2016. Plant Disease. 100: 12.

Phylogeographic analysis of Alternaria alternata causing brown spot of tangerines in China reveals previously unknown diversity Huang, F., Fu, Y., Nie, D., Stewart, J.E., Peever, T.L., Li, H. 2015. Fungal Biology. 119: 320-330.

 Evolutionary history and variation in host range in the Didymella bryoniae/Stagonosporopsis caricae species complex pathogenic to curcurbits and papaya. Stewart, J.E., Turner, A.N., Brewer, MT. 2015. Fungal Biology. 119: 370-182.

Extreme diversity found in the emerging pathogen of blueberry Exobasidium maculosum. Stewart, J.E., Brooks^# K., Brannen, P.M, Cline, W.O., Brewer, M.T. 2015. PlosOne.

Discord between morphological and phylogenetic species boundaries: incomplete lineage sorting and recombination results in fuzzy species boundaries in an asexual fungal pathogen  Stewart, J.E., Timmer, L.M., Lawrence, C.B., Pryor, B.M., Peever, T.L. 2014. BMC Evolutionary Biology. 1: 38.

Population history and pathways of spread of the plant pathogen Phytophthora plurivora. Schoebel, C.N., Stewart, J.E., Grünwald, N.J., Prospero, S. 2014. PlosOne. e85368.

 Phytophthora rubi isolates collected from raspberry (Rubus idaeus) in the Western United States show no differentiation in pathogenicity, fungicide resistance or genetic structure. Stewart, J.E., Kroese, D., Tabima, J.F., Larsen, M.M., Press, C.M., Zasada, I., Grünwald, N.J. 2014. Plant Disease. 98: 1702-1706.

Transcriptome characterization of an Armillaria root disease pathogen reveals candidate pathogenicity-related genes. Ross-Davis^*, A.L., Stewart^*, J.E., Hanna, J.W., Kim, M.-S., Cronn, R., Rai, H., Richardson, B.R. McDonald, G.I., and Klopfenstein, N.B.^. 2013. Forest Pathology. doi: 10.1111/efp.12056

Development and utility of sequence characterized amplified genomic regions for lower-level fungal systematics: Proof of principle using Alternaria, Ascochyta and Tilletia. Stewart, J.E., Andrew, M., Bao, X., Chilvers, M.I., Carris, L. M. Peever, T.L., 2013. Mycologia. doi: 10.3852/12-287.

Signatures of recombination in clonal lineages of the citrus brown spot pathogen, Alternaria alternata. Stewart, J.E., Thomas^# K.A., Lawrence, C.B., Pryor, B.M., Peever, T.L., 2013. Phytopathology. 103: 741-749.

Viability of conidiospores of the butternut canker fungus on potential beetle vectors. Stewart, J.E., S. Halik, and D.R. Bergdahl 2003. Northern Nut Growers Association Annual Report. 94:1-8.

Viability of Sirococcus clavigignenti  juglandacearum conidia on exoskeletons of three coleopteran species. Stewart, J.E., S. Halik, and D.R. Bergdahl. 2004. Plant Dis. 88:1085-1091.

Root diseases in coniferous forests of the Inland West: potential implications of fuels treatments. Rippy, R. C.; Stewart, J.E.; Zambino, P.J.; Klopfenstein, N. B.; Tirocke, J. M.; Kim, M.-S.; Thies, W. G. 2005. Gen. Tech. Rep. RMRS-GTR-141. Fort Collins, CO: U.S. Department of Agriculture, Forest Service, Rocky Mountain Research Station. 32 p.

Root Disease Analyzer – Armillaria Response Tool (ART). In: Sutherland, E.K., Black, A.E., eds. Science Synthesis and Integration. Environmental Consequences Fact Sheet: 13 McDonald, G.I., Tanimoto, P.D., Rice, T.M., Stewart, J.E., Tonn, J.R., Hall, D.E., Zambino, P.J., Klopfenstein, N.B., Kim, M.-S. 2005. Research Note RMRS-RN-23-13-WWW. Fort Collins, CO: U.S. Dept. of Agriculture, Forest Service, Rocky Mountain Research Station.

Molecular characterization of Fusarium oxysporum and Fusarium commune from a conifer nursery. Stewart, J.E., M.-S. Kim, R.L. James, R.K. Dumroese, N. B. Klopfenstein. 2006. Phytopathology. 96.1124-1133.

Didymella pisi sp. nov., the teleomorph of Ascochyta pisi. Chilvers, M.I., Rogers, J.D., Dugan, F.M., Stewart, J.E., Chen W., Peever, T.L. 2009. Mycological Research. 113: 391-400.

Identification and function of a polyketide synthase gene responsible for 1,8-dihydrozynaphtahlene-melanin pigment biosynthesis in Ascochyta rabiei. Akamastu, H.O., Chilvers, M.I., Stewart, J.E., Peever, T.L. 2010. Current Genetics. 56: 349-360.

Contrasting codon usage patterns and purifying selection at the mating locus in putatively asexual Alternaria fungal species. Stewart^*, J.E., Kawabe^*, M., Abdo, Z., Arie, T., Peever T.L. 2011. PLoS One. 6: e20083.

Complete genome of the onion pathogen Enterobacter cloacae EcWSU1. Humann, J.L., Wildung, M., Cheng, C-H, Lee, T., Stewart, J.E., Drew, J.C., Triplett, E.W., Main, D., B.K. Schroeder. 2011. Standards in Genomic Sciences. 5:3 ISSN 1944-3277 doi:10.4056/sigs.2174950.

Pathogenicity of Fusarium oxysporum and F. commune to Douglas-fir (Pseudotsuga menziesii) seedlings. Stewart, J.E., Abdo, Z., Dumroese, R.K., Klopfenstein, N.B., Kim, M.-S. 2012. Forest Pathology. DOI: 10.1111/j.1439-0329.2011.00746.x.

Occurrence of Fusarium commune in forest nurseries. Kim, M.-S., Stewart, J.E., Dumroese, R.K., and Klopfenstein, N.B. 2012. Journal of Phytopathology. 160: 112-114.