our mission

Our research interests lie at the intersection of molecular microbial ecology, human/ environmental health, and bioinformatics. Understanding the microbial ecology of natural and engineered ecosystems is integral to the proper application of microorganisms in solving complex environmental and public health-related problems. The degree to which we can recover, read, and interpret theinformation encoded in biological molecules is the limiting factor for understanding the identity and behavior of micro-organisms in their "natural environments‟. Currently, a revolution in DNA sequencing is allowing us to produce sequence data on an unprecedented scale and at a fraction of the costs required for traditional methods. With ever increasing affordability, these advances are offering new strategies for exploring the microbial universe at a resolution that was previously unimaginable.

Projects and Students

• Ryan Trexler and Caroline Solomon, 2012-2013, “Microbial community response to fracking in aquatic ecosystems”
• Mitchell Dunklebarger and Erin McClure, 2012-2013, “Longitudinal analysis of gut microbial community dynamics of an Inflammatory Bowel Disease Cohort’
• Steven Strutt and Jared Haidet, 2012-2013, “Genome sequencing of hydrocarbon degrading bacteria isolated from biotrap amended beads in the Gulf of Mexico”
• Andrew Maul and Keiko Sing, 2012-2013, “Impact of Resistant Starch Diets on Gut Microbial Community dynamics"
• GCAT-SEEK and HHMI initiative

recent publications

1. Lamendella R.,  Jansson, J.K., Russell, A., Cantarel, B., et al. Metaproteomics of the human gut microbiome in a twin cohort with Crohn’s disease,” (accepted, PLOS One).
2. Lamendella, R., Verberkmoes, N., and Jansson, J.K. 2012. “Omics of the mammalian gut-new insights into function,” Current Opinion in Biotechnology, 23:491-500.
3. Baelum, J, Borglin, S., Chakraborty, R. Fortney, J.L., Lamendella., R., et al. “Deep-sea bacteria enriched by oil and dispersant from the Deepwater Horizon Spill,” Environmental Microbiology, 14:2405-2416.
4. Mason, O.U., Hazen, T.C., Borglin, S., Chain, P.S.G., Dubinsky, E.A., Fortney, J.L., Han, J., Holman, H.-Y.N., Hultman, J., Lamendella, R., et al . 2012. “Metagenomics, metatranscriptomics and single cell sequencing reveal bacterial response to the Gulf oil spill,” ISME Journal, 6:1715-1727.
5. Lamendella, R., Oerther, D.B., Martinson, J., and Santo Domingo, J.W.  2011. “Comparative fecal metagenomics reveals previously unknown functionality of the distal swine gut,” BMC Microbiology, 11:103 (highly accessed).
6. Lu, Z., Deng, Y., Van Nostrand, J.D., He, Z., Voordeckers, J., Zhou, A., Lee, Y.J., Mason, O.U., Dubinsky, E.A., Chavarria, K.L., Tom, L.M., Fortney, J.L, Lamendella, et al. 2011 “Microbial gene function enriched in the Deepwater Horizon deep-sea oil plume,” ISME Journal, 6:451-460.
7. Hazen, T.C., Dubinsky, E.A., DeSantis, T.Z., Andersen, G.L., Piceno, Y.M., Singh, N., Jansson, J.K., Probst, A., Borglin, S.E., Fortney, J.L., Stringfellow, W.T., Bill, M., Conrad, M.E., Tom, L.M., Chavarria, K.L., Alusi, T.R., Lamendella, R., et al. 2010. "Deep-sea oil plume enriches indigenous oil-degrading bacteria," Science, 330:204-208.