Dr. Jesse Zaneveld, Postdoctoral Scholar, Dr. Vega-Thurber Laboratory

  Office Nash Hall 334
Phone 541-737-7793
FAX 541-737-0496
Email zaneveje@onid.orst.edu
Education  Ph.D. University of Colorado

Research Interests:  My background is in microbial ecology and bioinformatics. I am currently focused on analyzing the response of the coral microbiota to nutrient enrichment and exclusion of herbivores.

Software:  Phylogenetic Investigation of Communities by Reconstruction of Unobserved STates (PICRUSt).  This software package predicts the bacterial and archaeal contributions to metagenomes using 16S rRNA libraries as input.

 

SELECTED PUBLICATIONS

Publications: Google Scholar

Lozupone, C., Faust, K., Raes, J., Faith, J.J., Frank, D.N., Zaneveld, J., Gordon, J.I., and Knight, R.  2012.  Identifying genomic and metabolic features that can underlie early successional and opportunistic lifestyles of human gut symbionts.  Genome Res.

Widmann, J. Stombaugh, J., McDonald, D., Chocholousova, J., Gardner, P., Iyer, M,.K., Liu, Z., Lozupone, C.A., Quinn, J., Smit, S., Wikman, S., Zaneveld, J.R., and Knight, R.  2012.  RNASTAR:  An RNA Structual alignment repository that provides insight into the evolution of natural and artificial RNAs.  RNA 18(7):  1319-1327.

Fierer, N., Lauber, C.L., Ramirez, K.S., Zaneveld, J., Bradford, M.A., and Knight, R.  2012.  Comparative metagenomic, phylogenetic and physiological analyses of soil microbial communities across nitrogen gradients.  The ISME Journal: 6:1007-1017.

Knights, D., Kuczynski, J., Charlson, E.S., Zaneveld, J., Mozer, M.C., Collman, R.G., Bushman, F.D., Knight, R., and Kelley, S.T.  2011.  Bayesian community-wide culture-independent microbial source tracking.  Nature Methods 8:761-763. 

Hansen, E.E., Lozupone, C.A., Rey, F.E., Wu, M., Guruge, J.L., Narra, A., Goodfellow, J., Zaneveld, J.R., McDonald, D.T., Goodrich, J.A., Heath, A.C., Knight, R. and Gordon, J.I.  2011.  Pan-genome of the dominant human gut-associated archaeon, Methanobrevibacter smithii, studied in twins.  Proc. Natl. Acad. Sci. U.S.A. 108, Suppl 1:4599-606.

Knights, D., Parfrey, L.W., Zaneveld, J., Lozupone, C., and Knight, R.  2011.  Human associated microbial signatures:  examining their predictive value.  Cell Host Microbe.  10(4):292-6. 

Zaneveld, J.R., Parfrey, L.W., Van Treuren, W., Lozupone, C., Clemente, J.C., Knights, D., Stombaugh, J., Kuczynski, J., Knight, R.  2011.  Combined phylogenetic and genomic approaches for the high-throughput study of microbial habitat adaptation.  Trends in Microbiology, 19(10):  472-82.