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Assistant Professor, Botany and Plant Pathology, Oregon State University, 2019 – current
Postdoctoral Scholar (Population Genomics) UCSF/UC Berkeley 2017 – 2019


Ph.D. (Genetics & Genomics) Duke University 2017
M.Sc. (Mycology) Humboldt State University 2012
B.S. (Botany) Humboldt State University  2010



1) M Gorris, M Van Dyke, A Carey, P Hamm, H Mead, Uehling J. A Review of Coccidioides Research, Outstanding Questions in the Field, and Contributions by Women Scientists. Current Clinical Microbiology Reports (open access)

2) C D’Enfert, M Cougnoux, D Engelthaler, J Bowers, D Eyre, F Hagen, D Vu, G Singh, M Fisher, W Meyer, R Farrer, N Chow, L Gade, J Munoz, A Alastray, A Litvintseva, J Uehling, and C Cuomo. Comparing genomic variant identification protocols for fungi to develop best practices. Genes, Genetics, Genomics. In Review

3) J Streich, A Furches, H Chhetri, A Harfouche, G Gazolla, M Pavicic, K Gruden, E Prates, P Busby, J Uehling, J Brawner, D Kainer, J Romero, M Exposito-Alonso, J Brown, C Schadt, D Pelletier, S DiFazio, P Abraham, M Doktycz, J Tuskan, and D Jacobson. Systems Biology and Artificial Intelligence Toward Evolutionary Adaptation. Plant Communications. In Review


4) Uehling JK, Entler MR, Meredith HR, Millet LJ, Timm CM, Aufrecht JA, Bonito GM, Engle NL, Labbé JL, Doktycz MJ, Retterer ST, Spatafora JW, Stajich JE, Tschaplinski TJ,Vilgalys RJ. 2019. Microfluidics and Metabolomics Reveal Symbiotic Bacterial–Fungal Interactions Between Mortierella elongata and Burkholderia Include Metabolite Exchange. Frontiers in Microbiology doi: 10.3389/fmicb.2019.02163  PDF

5) Millet L , Aufrecht J, Labbé J, Uehling J , Vande Pol N , Kremer J , Rhodes D , Estes M , Guennoc C , Deveau A, Olsson S, Bonito G, Vilgalys R, Doktycz M, Retterer S. 2017. Microfluidics: Windows into the biology of branching structures. Fungal Biology and Biotechnology doi:10.1186/s40694-019-0071-zPDF

6) Varga T, Krizsan K, Foldi C, Dima B, Sanchez-Garcia M, Sanchez-Ramirez S, Szollosi G, Szarkandi G, Papp V, Albert L, Angelini C, Antonín V, Bougher N, Buchanan P, Buyck B, Bense V, Catcheside P, Cooper J, Dämon W, Desjardin D, Finy P, Geml J, Hughes K, Alfredo F, Justo A, Karasiński D, Kautmanova I, Kerr S, Kiss B, Kocsubé S, Kotiranta H, Lechner B, Liimatainen K, Lukacs Z, Morgado L, Niskanen T, Noordeloos M, Beatriz Ortiz-Santana B, Ovrebo C, Rácz N, Savchenko A, Shiryaev A, Soop K, Spirin V, Szebenyi , Tomsovsky M, Tulloss R, Uehling J, Vagvolgyi C, Papp T, Martin F, Miettinen O, Hibbett D, Nagy L. 2018. Megaphylogeny resolves global patterns of mushroom diversification. Nature Ecology and Evolution doi:10.5061/dryad.gc2k9r PDF


7) Lofgren L, Uehling J, Sara Branco S, Tom D. Bruns T, Martin F, Peter G. Kennedy P. 2018. Genome-based estimates of fungal rDNA copy number variation across phylogenetic scales and ecological lifestyles. Molecular Ecology doi:10.1111/mec.14995 PDF

8) Misztal P, Lymperopoulou D, Adams R, Scott R, Lindow S, Bruns T, Taylor J, Uehling J, Bonito G, Vilgalys R, and Goldstein A . 2017. What controls the variance in microbial volatile organic compound (mVOC) emissions from different bacteria and fungi? Chemical Biology doi:10.1021/acs.est.8b00806  PDF

9) Deveau A,  Bonito G, Millet L,
 Bindschedler S, Uehling J, Becker M, Hacquard S,
 Hervé, V, Lastovetsky O, Mieszkin S, Vajna B, 
Paoletti M,
 Bonfante P, 
van Elsas JD. 2017. Bacterial – Fungal Interactions: impacts, mechanisms and challenges. FEMS Microbiology Reviews. doi: 10.1093/femsre/fuy008. FEMS Microbiology Reviews doi: 10.1093/femsre/fuy008  PDF


10.) Uehling J, Deveau A, Paoletti M. 2017. Do fungi have an innate immune response? An NLR-based comparison to plant and animal immune systems. PLoS Pathogens Pearls. PLoS Pathogens Pearls PDF 

11.) Uehling J, Gryganskyi A, Hameed K, Tschaplinski T, Misztal PK, Wu S, Desirò A, Vande Pol N, Du Z, Zienkiewicz A, Zienkiewicz K, Morin E, Tisserant E, Splivallo R, Hainaut M, Henrissat B, Ohm R, Kuo A, Yan J, Lipzen A, Nolan M, LaButti K, Barry K, Goldstein AH, Labbé J, Schadt C, Tuskan G, Grigoriev I, Martin F, Vilgalys R, Bonito G. Comparative genomics of Mortierella elongata and its bacterial endosymbiont Mycoavidus cysteinexigens. Environmental Microbiology. doi: 10.1111/1462-2920.13669.  PDF


12.) Li Z, Yao Q, Dearth S, Entler M, Castro Gonzalez M, Uehling J, Vilgalys R, Hurst G, Campagna S, Labbé J, Pan C. 2016. Integrated Proteomics and Metabolomics Reveal Symbiotic Metabolism and Multimodal Regulation in a Fungal-Endobacterial System. Environmental Microbiology. 19(3):1041-1053. doi: 10.1111/1462-2920.13605. PDF

13.) Spatafora J, Benny G, Lazarus K, Smith M, Berbee M, Bonito G, Corradi N, Gryganskyi A, James T, Taylor T, Uehling J, Vilgalys R, White M, Stajich J. 2016. A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data. Mycologia. (108)5:1028-1046. doi: 10.3852/16-042.  PDF

14.) Henkel TW, Obase, K, Husbands D, Uehling J, Bonito G, Aime MC, Smith ME. 2016. New Boletaceae taxa from Guyana: Binderoboletus segoi gen. et sp. nov., Guyanaporus albipodus gen. et sp. nov., Singerocomus rubriflavus gen. et sp. nov., and a new combination for Xerocomus inundabilis. Mycologia, (108)1:158-173) doi: 10.3852/15-075. PDF


15.) Grupe AC, Baker AD, Uehling JK, Smith ME, Baroni TJ, Lodge DJ, Henkel TW. 2015. Sarcodon in the Neotropics I: new species from Guyana, Puerto Rico and Belize. Mycologia 107.3 (2015): 591-606.,  doi:10.3852/14-185. PDF


16) Labbé J, Uehling J, Payer T, Plett J 2014. Fungal biology: compiling genomes and exploiting them. New Phytologist. 203(2):359-361. doi: 10.1111/nph.12891. PDF

17) Henkel TW, Wilson AW, Aime MC, Dierks J, Uehling J, Roy M, Schimann H, Wartchow F, Mueller GM. 2014. Cantharellaceae of Guyana II. New species of Craterellus, new South American distribution records for Cantharellus guyanensis and Craterellus excelsus, and a key to the Neotropical taxa. Mycologia. 106: 307-322. doi: 10.3852/106.2.307.  PDF


18) Smith ME, Henkel TW, Uehling JK, Fremier AK, Clarke HD,R Vilgalys R. 2013. The ectomycorrhizal fungal community in a Neotropical forest dominated by the endemic dipterocarp Pakaraimaea dipterocarpacea. PLoS one 8.1 (2013): doi: 10.1371/journal.pone.0055160. PDF


19) Uehling JK, Henkel TW, Aime MC, Smith ME. 2012c. New species and distribution records for Clavulina (Cantharellales, Basidiomycota) from the Guiana Shield, with a key to the lowland neotropical taxa. Fungal Biology. 116(12): 1203-1274. doi: 10.1016/j.funbio.2012.09.004. PDF

20) Kennedy P, Matheny B, Ryberg M, Henkel T, Uehling J, Smith M. 2012b. Scaling up: examining the macroecology of ectomycorrhizal Fungi. Molecular Ecology. 21:4151–4154. doi: 10.1111/j.1365-294X.2012.05703.x PDF

21) Uehling JK, Henkel TW, Vilgalys R, Smith ME. 2012a. Membranomyces species are common ectomycorrhizal symbionts in North temperate forests. Mycorrhiza. 22(7):577-81. doi: 10.1007/s00572-012-0457-8. PDF


22) Hodkinson BP, Uehling JK, Smith ME. Lepidostroma vilgalysii, a new basidiolichen from the New World with an inverted thallus. 2011b. Mycological Progress. 11(3): 827-833. doi:10.1007/s11557-011-0800-z. PDF

23) Uehling JK, Henkel TW, Aime MC, Vilgalys R, Smith ME. 2011b. New species of Clavulina (Cantharellales, Basidiomycota) with resupinate and effused basidiomata from the Guiana Shield. Mycologia 104:547-556. doi: 10.3852/11-130.  PDF

24) Henkel TW, Aime MC, Uehling JK, Smith ME. 2011a. New species and distribution records for Clavulina (Cantharellales, Basidiomycota) from the Guiana Shield. Mycologia 103(4):883-889. doi: 10.3852/10-355. PDF



United States Forest Service, ‘Oregon State University herbarium fungal curation’ Principal investigator, ($11,000)

Biodiversity Research Collective, Fungal Herbarium Improvement grant, Principal Investigator ($10,000)

National Science Foundation, Dimensions of Biodiversity (DoB): ‘Dimensions US-South Africa: Unravelling the influence of endosymbiotic bacteria on the biodiversity of Mucoromycota fungi’ co-Principal investigator with Dr. Teresa Pawlowska, Cornell University and Rasheed Adelke, North West University, Potchefstroom campus, South Africa ($1,999,458)

National Science Foundation, Thematic Collections Network (TCN):Digitization TCN: ‘Collaborative Research: Building a global consortium of bryophytes and lichens: keystones of cryptobiotic communities’ lead Jessica Budke, University of Tennessee Knoxville ($609,365)

Department of Energy, Joint Genome Institute Community Sequencing Program; ‘Large Structural Variant discovery in the poplar GWAS population to further unlock the heritability of yield and sustainability’, collaborator, lead  Daniel Jacobson, DOE ORNL (service trade)


Department of Energy, Joint Genome Institute Community Sequencing Program; Evaluating the role of endosymbionts in fungal mating and evolution


MSA Special Topics award; computational infrastructure for Coccidioides population genomics

International Mycological Congress Travel Award


NASA Astrobiology Science Conference Student Travel Award


International Society for Molecular Plant Microbe Interactions Student Travel Award

North American Mycological Association Student Travel Award


Department of Energy Oak Ridge National Laboratory Go! Graduate fellowship

Oak Ridge National Laboratory the Center for Nanophase Materials Sciences (CNMS) user facility “Microfluidic environmental control platforms for chemical and transcriptomic analysis of fungal-bacterial interactions” Vilgalys R, Uehling J, Millet L, Labbe J, Doktycz M.


Seed Grant from Department of Energy Biosciences Division “Filamentous fungi for biodiesel production using lignocellulosic residuals “ Co-PI Jessy Labbé, Collaborators Wellington Muchero, Timothy Tschaplinski and Rytas Vilgalys.

Duke University Graduate School International Travel Award

Mycological Society of America Backus Award


European Conference for Fungal Genetics student travel grant

Fungal Environmental Sampling and Informatics Network research dissemination grant

Duke University Genetics & Genomics summer training travel grant


California State University Program for Education and Research in Biotechnology travel grant

McConkey Outstanding Graduate Student Award, Alistair McCrone Graduate Fellowship Award, Gregory Mark Jennings Research Dissemination grant, Humboldt State University

Humboldt Bay Mycology Society George Verback Memorial Scholarship


Friends of the Farlow Visiting Scholar Fellowship, Harvard University

Sonoma County Mycological Society Outstanding Graduate Research Scholarship


Cascade Mycological Society Promising Graduate Student Research Grant

Institute for Tropical Ecology & Conservation Sarah Glanzer Memorial Fellowship