Back to top

Dan Buckley

Professor of Soil Microbial Ecology

705 Bradfield Hall

Buckley is a microbial ecologist with a joint appointment in the Department of Microbiology and the School of Integrative Plant Science. He investigates the soil microbiome and its impacts on ecosystem health, the plants we grow, the water we drink, and the air we breathe. His research program employs genomic and molecular tools to examine the ecological and evolutionary mechanisms that regulate microbial diversity and its impacts on soil processes.



  1. Barnett, S. E., Youngblut, N. D., Koechli, C. N., Buckley, D. H. (2021) Multi-substrate DNA stable isotope probing reveals guild structure of bacteria that mediate soil carbon cycling. Proceedings of the National Academy of Sciences of the United States of America.
  2. Liao, J., Guo, X., Weller, D. L., Pollak, S., Buckley, D. H., Wiedmann, M., Cordero, O. X. (2021) Nationwide genomic atlas of soil-dwelling Listeria reveals effects of selection and population ecology on pangenome evolution. Nature Microbiology. 6:1021–1030.
  3. Wilhelm, R. C., Pepe-Ranney C., Weisenhorn, P., Lipton, M., Buckley, D. H. (2021) Competitive exclusion and metabolic dependency among microorganisms structure the cellulose economy of an agricultural soil. mBio. 12:e03099-20.
  4. Wilhelm, R. C., van Es, H. M., Buckley, D. H. (2021) Predicting measures of soil health using the microbiome and supervised machine learning. Soil Biology and Biochemistry. 164:108472.
  5. Wilhelm, R. C., DeRito, C. M., Shapleigh, J. P., Buckley, D. H., Madsen E. L. (2021) Phenolic acid-degrading Paraburkholderia prime decomposition in forest soil. International Society for Microbial Ecology Journal Communications. 1:4.
  6. Higgins, S. A., Panke-Buisse, K., Buckley, D. H. (2021) The biogeography of Streptomyces in New Zealand enabled by high-throughput sequencing of genus-specific rpoB amplicons. Environmental Microbiology. 23:1452-1468.
  7. Karasz, D. C., Weaver, A. I., Buckley, D. H., Wilhelm, R. C. (2021) Conditional filamentation as an adaptive trait of bacteria and its ecological significance in soils. Environmental Microbiology.
  8. Hariharan, J., Choudoir, M.J.,  Diebold, P., Panke-Buisse, K.,  Buckley, D. H. (2021) Species description of Streptomyces apricus sp. nov. isolated from soil. International Journal of Systematic and Evolutionary Microbiology. In Press.
  9. Munoz-Ucros, J. Wilhelm, J. C., Buckley, D. H., Bauerle, T. (2021) Drought legacy in rhizosphere bacterial communities alters subsequent plant performance. Plant and Soil.
  10. Madigan, M. T., Bender, K., Buckley, D. H., Sattley, W. M., Stahl, D. A. (2020) Brock Biology of Microorganisms, Sixteenth Edition. Pearson, New York.
  11. NayFach, S., Roux, S., Seshadri, R. [and 228 others including Buckley, D. H.] (2020) A genomic catalog of Earth’s microbiomes. Nature Biotechnology.
  12. Wilhelm, R. C., Cyle, K. T., Martinez, C. E., Karasz, D. C., Newman, J. D., Buckley, D. H. (2020) Paraburkholderia solitsugae sp. nov. and Paraburkholderia elongata sp. nov., phenolic acid-degrading bacteria isolated from forest soil and emended description of  Paraburkholderia madseniana. International Journal of Systematic and Evolutionary Microbiology. 70:5093–510.
  13. Zwetsloot, M. J., 2, Muñoz Ucros, J., Wickings, K., Wilhelm, R. C., Sparks, J., Buckley, D. H., Bauerle, T. (2020) Prevalent root-derived phenolics drive shifts in microbial community composition and prime decomposition in forest soil. Soil Biology & Biochemistry. Soil Biology & Biochemistry. 145:107797.
  14. Wilhelm, R. C., Murphy, S. J. L., Feriancek, N. M., Karasz, D. C., DeRito, C. M., Newman, J. D.,  Buckley, D. H. (2020) Paraburkholderia madseniana sp. nov., a phenolic acid-degrading bacterium isolated from acidic forest soil. International Journal of Systematic and Evolutionary Microbiology. 70:2137–214.
  15. Barnett, S. E., Youngblut, N. D., Buckley, D. H. (2020) Soil characteristics and land-use drive bacterial community assembly patterns. FEMS Microbiology Ecology. 96:fiz194.
  16. Barnett, S. E., Youngblut, N. D., Buckley, D. H. (2020) Simulating metagenomic stable isotope probing datasets with MetaSIPSim. BMC Bioinformatics. 21:37.
  17. Kapili, B. J., Barnett, S. E., Buckley, D. H., Dekas, A. E. (2020) Candidate diazotrophs in deep-sea sediments are phylogenetically and catabolically diverse. International Society for Microbial Ecology Journal. 14:971–983.
  18. Barnett, S. E., Cala, A. R., Hanson, J. L., Crawford, J., Viands, D. R., Smart, L. B., Buckley, D. H. (2020) Evaluating the microbiome of hemp. Phytobiomes Journal. 4:351-363.
  19. Emmett, B. D., Buckley, D. H., Drinkwater, L. E. (2019) Plant growth rate and nitrogen uptake shape rhizosphere bacterial microbiome composition and activity in an agricultural field. New Phytologist. 225:960-973.
  20. Barnett, S. E., Youngblut, N. D., Buckley, D. H. (2019) Data analysis for DNA stable isotope probing experiments using multiple window high-resolution SIP. In. Stable Isotope Probing. Dumont, M. G. and Hernández García, M., Eds. Humana Press, New York. 247 pgs.
  21. Drott, M. T., Debenport, T., Higgins, S. A., Buckley, D. H., Milgroom, M. G. (2019) Fitness cost of aflatoxin production in Aspergillus flavus when competing with soil microbes could maintain balancing selection. Mbio. 10:e02782-18.
  22. Koechli, C., Campbell, A. N., Pepe-Ranney, C., Buckley, D. H. (2019) DNA-SIP reveals the majority of cellulolytic Fungi in soils remain uncharacterized. Soil Biology and Biochemistry. 130:150-158.
  23. Sirois, S. H. and Buckley, D. H. (2019) Factors governing extracellular DNA (eDNA) degradation dynamics in soil. Environmental Microbiology Reports. 11:173-184.