User:Joanne B. Emerson

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Joanne Emerson

Contact Info

Joanne Emerson
The Ohio State University
Joanne's Personal Website


2012, Ph.D., University of California, Berkeley
2003, B.S., College of William and Mary

Background and Research Interests

I use meta-omic, bioinformatic, and ecological techniques to study feedbacks between viral and microbial communities and their influences on biogeochemistry and ecosystem ecology in a variety of environments, with a current focus on soil and lake sediments. I completed my Ph.D. in 2012 in Jill Banfield's lab at UC Berkeley, where I used metagenomic techniques to study viral population dynamics and community ecology in hypersaline lakes and predicted the environmental impacts of microbial communities in the terrestrial deep subsurface with implications for geologic carbon sequestration. My first postdoctoral position was in Noah Fierer's lab at the University of Colorado, Boulder, where I studied bacterial, archaeal, and fungal ecology in the atmosphere and the built environment and developed metagenomic techniques for studying viral assemblages in soil. I am currently a postdoctoral researcher in Matt Sullivan's and Virginia Rich's labs at The Ohio State University (I moved with them from the University of Arizona in June, 2015), where I study viral and microbial controls on greenhouse gas emissions in thawing permafrost peatland soils and nearby lake sediments via metagenomic and metaproteomic techniques. For more detailed information on my research projects, click here


Click here for the most up-to-date list of publications with links to the articles

Emerson, J.B., Keady, P.B., Clements, N., Morgan, E.E., Awerbuch, J., Miller, S.L., Fierer, N. High temporal variability in airborne bacterial diversity and abundance inside single-family residences. Indoor Air, in press.

Probst, A.J., Castelle, C.J., Singh, A., Brown, C.T., Anantharaman, K., Sharon, I., Hug, L.A., Burstein, D., Emerson, J.B., Thomas, B.C., Banfield, J.F. Genomic resolution of a cold subsurface aquifer community provides metabolic insights for novel microbes adapted to high CO2 concentrations. Environmental Microbiology, in press.

Emerson, J.B., Thomas, B.C., Alvarez, W., Banfield, J.F. (2016). Metagenomic analysis of a high carbon dioxide subsurface microbial community populated by chemolithoautotrophs and bacteria and archaea from candidate phyla. Environmental Microbiology. 18(6):1686-1703.

Andrade, K., Logemann, J., Heidelberg, K.B., Emerson, J.B., Comolli, L.R., Hug, L.A., Probst, A.J., Keillar, A., Thomas, B.C., Miller, C.S., Allen, E.E., Moreau, J., Brocks, J.J., Banfield, J.F. (2015). Metagenomic and lipid analyses reveal a diel cycle in a hypersaline microbial ecosystem. The ISME Journal. 9:2697-2711.

Emerson, J.B., Keady, P.B., Brewer, T.E., Clements, N., Morgan, E.E., Awerbuch, J., Miller, S.L., Fierer, N. (2015). Impacts of flood damage on airborne bacteria and fungi in homes after the 2013 Colorado Front Range flood. Environmental Science & Technology. 49(5):2675-2684.

Probst, A.J., Weinmaier, T., Raymann, K., Perras, A., Emerson, J.B., Rattei, T., Wanner, G., Klingl, A., Berg, I., Yoshinaga, M., Viehweger, B., Hinrichs, K., Thomas, B.C., Meck, S., Auerbach, A.K., Heise, M., Schintlmeister, A., Schmid, M., Wagner, M., Gribaldo, S., Banfield, J.F., Moissl-Eichinger, C. (2014). Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface. Nature Communications. 5: 5497.

Tully, B., Emerson, J.B., Andrade, K., Brocks, J.J., Allen, E.E., Banfield, J.F., Heidelberg, K.B. (2014). De novo sequences of Haloquadratum walsbyi from Lake Tyrrell, Australia reveal a variable genomic landscape. Archaea. 2014:875784.

Podell, S., Emerson, J.B., Jones, C.M., Ugalde, J.A., Welch, S., Heidelberg, K.B., Banfield, J.F., Allen, E.E. (2014). Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community. The ISME Journal. 8(5):979-990.

Bowers, R.M., Clements, N., Emerson, J.B., Wiedinmyer, C., Hannigan, M.P., Fierer, N. (2013). Seasonal variability in the bacterial and fungal diversity of the near-surface atmosphere. Environmental Science & Technology. 47(21):12097-12106.

Doll, H.M., Armitage, D.W., Daly, R.A., Emerson, J.B., Goltsman, D.A., Yelton, A.P., Kerekes, J., Firestone, M.K., Potts, M.D. (2013). Utilizing novel diversity estimators to quantify multiple dimensions of microbial biodiversity across domains. BMC Microbiology. 13:259. doi:10.1186/1471-2180-13-259.

Emerson, J.B., Thomas, B.C., Andrade, K., Heidelberg, K.B., Banfield, J.F. (2013). New approaches indicate constant viral diversity despite shifts in assemblage structure in an Australian hypersaline lake. Applied and Environmental Microbiology. 79(21):6755-6764.

Emerson, J.B., Andrade, K., Thomas, B.C., Norman, A., Allen, E.E., Heidelberg, K.B, Banfield, J.F. (2013). Virus-host and CRISPR dynamics in archaea-dominated hypersaline Lake Tyrrell, Victoria, Australia. Archaea. 2013:370871.

Heidelberg, K.B., Nelson, W.C., Holm, J.B., Eisenkolb, N., Andrade, K., Emerson, J.B. (2013). Characterization of eukaryotic microbial diversity in hypersaline Lake Tyrrell, Australia. Frontiers in Microbiology. 13(4):115.

Emerson, J.B., Thomas, B.C., Andrade, K., Allen, E.E., Heidelberg, K.B, Banfield, J.F. (2012). Dynamic viral populations in hypersaline systems as revealed by metagenomic assembly. Applied and Environmental Microbiology. 78(17):6309-6320.

Narasingarao, P., Podell, S., Ugalde, J.A., Brochier-Armanet, C., Emerson, J.B., Brocks, J.J., Heidelberg, K.B., Banfield, J.F., Allen, E.E. (2012). De novo metagenomic assembly reveals abundant, novel major lineage of Archaea in hypersaline microbial communities. The ISME Journal. 6:81-93.

Bik, E.M., Long, C.D., Armitage, G.C., Loomer, P., Emerson, J., Mongodin, E.F., Nelson, K.E., Gill, S.R., Fraser-Liggett, C.M., and Relman, D.A. (2010). Bacterial diversity in the oral cavity of 10 healthy individuals. The ISME Journal. 4(8):962-974.

Brulc, J.M., Antonopoulos, D.A., Berg Miller, M.E., Wilson, M.K., Yannarell, A.C., Dinsdale, E.A., Edwards, R.E., Frank, E.D., Emerson, J.B., Wacklin, P., Coutinho, P.M., Henrissat, B., Nelson, K.E., White, B.A. (2009). Gene-centric metagenomics of the fiber-adherent bovine rumen microbiome reveals forage specific glycoside hydrolases. Proceedings of the National Academy of Sciences. 106(6):1948-1953.

DeBoy, R.T., Mongodin, E.F., Fouts, D., Tailford, L., Khouri, H., Emerson, J.B., Mohamoud, Y., Watkins, K., Henrissat, B., Gilbert, H.J., Nelson, K.E. (2008). Insights into plant cell wall degradation from the genome sequence of the soil bacterium Cellvibrio japonicus. Journal of Bacteriology. 190(15):5455-5463.

Mongodin, E.F., Shapir, N., Daugherty, S.C., DeBoy, R.T., Emerson, J.B., Shvartzbeyn, A., Radune, D.,Vamathevan, J., Riggs, F., Grinberg, V., Khouri, H., Wackett, L.P., Nelson, K.E., Sadowsky, M.J. (2006). Secrets of soil survival revealed by the genome sequence of Arthrobacter aurescens TC1. PLoS Genetics. 2(12):e214.

DeBoy, R.T., Mongodin, E.F., Emerson, J.B., Nelson, K.E. (2006). Chromosome evolution in the Thermotogales: large-scale inversions and strain diversification of CRISPR sequences. Journal of Bacteriology. 188(7):2364-2374.

Mongodin, E.F., Emerson, J.B., Nelson, K.E. (2005). Microbial metagenomics. Genome Biology. 6(10):347.1-347.3.