Plant Pathology Graduate Program

Patrick Degnan


Patrick Degnan
Office: 951-827-4415
Webber Hall 2317A
Office Hours: , not specified - not specified
Email: patrick.degnan@ucr.edu

Patrick Degnan

Assistant Professor of Microbiology, Dept. of Microbiology and Plant Pathology

Assistant Professor, Dept. of Microbiology, University of Illinois at Urbana-Champaign
Postdoctoral, Microbial Pathogenesis, Yale University
Postdoctoral, Ecology and Evolutionary Biology, Yale University
Ph.D. Ecology and Evolutionary Biology, University of Arizona
B.S. Biology, Providence College

Biography & Research Interests

Genome-enabled examination of diversity, genome evolution and processes in complex microbial communities

Microbial communities are dynamic and subject not only to competition, predation and environmental perturbation, but extensive genetic adaptation through gene acquisition and exchange. Genome sequencing and related advances have fundamentally altered the field of microbiology, providing an unbiased means to investigate microbes that can both be cultured and those that cannot. Communities such as the mammalian gut however contain a surprising number of cultivable organisms. My lab is interested in leveraging cultivation-based techniques to manipulate individual gut community members and understand the responses of the uncultivable members with genome-enabled technologies. My principle research goals involve in situ examination of (i) microbial diversity and interactions within communities and hosts, and (ii) how these interactions impact bacterial genome evolution.


Roy J. Carver Charitable Trust Young Investigator Award: 2014 


Representative Publications

J.L. Kelliher, J.N. Radin, K.P. Grim, P.K.P. Solórzano, P.H. Degnan and T.E. Kehl-Fie 2018. Acquisition of the phosphate transporter NptA enhances Staphylococcus aureus pathogenesis by improving phosphate uptake in divergent environments. Infection and Immunity. 86: e00631-17. https://www.ncbi.nlm.nih.gov/pubmed/29084897

Z.A. Costliow and P.H. Degnan. (2017) Thiamine acquisition strategies impact metabolism and competition in the gut microbe Bacteroides thetaiotaomicron. MSystems. 2 e00116-17. https://www.ncbi.nlm.nih.gov/pubmed/28951891

S. Uprety, P.Y. Hong, N. Sadik, B. Dangol, R. Adhikari, A. Jutla, J.L. Shisler, P.H. Degnan and T. H. Nguyen (2017) The effect of the 2015 Earthquake on the bacterial community compositions in water in Nepal. Frontiers in Microbiology 8.  https://www.ncbi.nlm.nih.gov/pubmed/29270153

T.W. Cullen, W.B. Schofield, N.A. Barry, E.E. Putnam, E.A. Rundell, M.S. Trent, P.H. Degnan, C.J. Booth, H. Yu, A.L. Goodman (2015) Antimicrobial peptide resistance mediates resilience of prominent gut commensals during inflammation. Science. 347:170-175. https://www.ncbi.nlm.nih.gov/pubmed/25574022

P.H. Degnan, M.E. Taga, and A.L. Goodman. (2014) Vitamin B12 as a modulator of gut microbial ecology. Cell Metabolism. 20:769-778.  https://www.ncbi.nlm.nih.gov/pubmed/25440056

A.H. Hansen and P.H. Degnan. (2014) Widespread expression of conserved small RNAs in small symbiont genomes. The International Society for Microbial Ecology Journal, 8:2490-2502. ABSTRACT

N.W. Palm, M.R. de Zoete, T.W. Cullen, N.A. Barry, J. Stefanowski, L. Hao, P.H. Degnan, J. Hu, I. Peter, W. Zhang, E. Ruggiero, J.H. Cho, A.L. Goodman, and R.A. Flavell. (2014) Immunoglobulin a coating identifies colitogenic bacteria in inflammatory bowel disease. Cell 158:1000-1010. ABSTRACT

P.H. Degnan, N. Barry, K, Mok, M.E. Taga, and A.L. Goodman. (2014) Human gut microbes use multiple transporters to distinguish vitamin B12 analogs and compete in the gut. Cell Host Microbe, 15:47-57. ABSTRACT

G. Dantas, M. Sommer, P.H. Degnan, and A.L. Goodman. (2013) Experimental approaches for defining functional roles of microbes in the human gut. Annual Review of Microbiology, 67:459-75. ABSTRACT

A. Moeller, P.H. Degnan, A. Pusey, M. Wilson, B. Hahn and H. Ochman. Chimpanzees and Humans Harbor Compositionally Similar Gut Enterotypes. Nature Communications, 3:1179. ABSTRACT

P.H. Degnan, A.E. Pusey, E.V. Lonsdorf, J. Goodall, E.E. Wroblewski, M.L. Wilson, R. Rudicell, B.H. Hahn, and H. Ochman. (2012) Factors Associated with the Diversification of the Gut Microbial Communities within Chimpanzees from Gombe National Park. Proceedings of the National Academy of Sciences USA, 109:13034–13039. ABSTRACT

P.H. Degnan and H. Ochman (2012) Illumina-Based Analysis of Microbial Community Diversity. The International Society for Microbial Ecology Journal, 6:183–194.ABSTRACT



More Information

General Campus Information

University of California, Riverside
900 University Ave.
Riverside, CA 92521
Tel: (951) 827-1012

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Contact Information

Graduate Program in Plant Pathology
1140 Batchelor Hall

Tel: (800) 735-0717 or (951) 827-5688
Fax: (951) 827-5517
E-mail: laura.mcgeehan@ucr.edu

Department of Plant Pathology and Microbiology
Boyce Hall 1463

Tel: (951) 827-3598
Fax: (951) 827-4294
E-mail: margarita.flores@ucr.edu