Environmental Sciences Division
Microbial Genomics Group

Publications

Shewanella oneidensis MR-1

Beliaev, A. S., D. K. Thompson, T. Khare, H. Lim, C. C. Brandt, G. Li, A. E. Murray, J. F. Heidelberg, C. S. Giometti, J. Yates III, K. H. Nealson, J. M. Tiedje, and J. Zhou. 2002. Gene and Protein Expression Profiles of Shewanella oneidensis during Anaerobic Growth with Different Electron Acceptors. OMICS: A Journal of Integrative Biology 6:39-60.

Thompson, D. K., A. S. Beliaev, C. S. Giometti, S. L. Tollaksen, T. Khare, D. P. Lies, K. H. Nealson, H. Lim, J. Yates III, C. C. Brandt, J. M. Tiedje, and J. Zhou. 2002. Transcriptional and Proteomic Analysis of a Ferric Uptake Regulator (Fur) Mutant of Shewanella oneidensis: Possible Involvement of Fur in Energy Metabolism, Regulation, and Oxidative Stress. Applied and Environmental Microbiology 68:881-892.

Liu, Y., J. Zhou, M. Omelchenko, A. Beliaev, A. Venkateswaran, J. Stair, L. Wu, D. Thompson, D. Xu, I. B. Rogozin, E. K. Gaidamakova, M. Zhai, K. S. Makarova, E. V. Koonin, and M. J. Daly. 2003. Transcriptome Dynamics of Deinococcus radiodurans Recovering from Ionizing Radiation. Proc. Natl. Acad. Sci. USA (in press).

Functional Gene Arrays (FGAs)

Rhee, S.K., Liu, X., Wu, L., Chong, S.C., Wan, X., and Zhou, J. (2004). Detection of biodegradation and biotransformation genes in microbial communities using 50-mer oligonucleotide microarrays. Appl. Environ. Microl. 70:4303-4317.

Schadt C., Leibich J, Chong S., Gentry T., He Z., Pan H., and J. Zhou. (2004) Design and Use of Functional Gene Microarrays (FGAs) for the Characterization of Microbial Communities. In Methods in Microbiology Volume 33: Microbial Imaging, (Savidge & Pothoulakis, eds). Academic Press, Pp 331-368.

Wu, L. Y., Thompson, D. K., Li, G., Hurt, R. A., Tiedje, J. M., and Zhou, J. (2001). Development and evaluation of functional gene arrays for detection of selected gene in the environment. Applied and Environmental Microbiology 67, 5780-5790.

Zhou, J. (2003). Microarrays for bacterial detection and microbial community analysis. Curr. Opin. Microbiol. 6, 288-294.

Microbial Ecology

Hurt, R. A., X. Qiu, L. Wu, Y. Roh, A. V. Palumbo, J. M. Tiedje, and J. Zhou. 2001. Simultaneous Recovery of RNA and DNA from Soils and Sediments. Applied and Environmental Microbiology 67:4495-4503.

Zhou, J., B. Xia, D. S. Treves, L.-Y. Wu, T. L. Marsh, R. V. O’Neill, A. V. Palumbo, and J. M. Tiedje. 2002. Spatial and Resource Factors Influencing High Microbial Diversity in Soil. Applied and Environmental Microbiology 68:326-334.

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Last Modified: February 22, 2005