Abstract
Phenotype microarrays nicely complement traditional genomic, transcriptomic, and proteomic analysis by offering opportunities for researchers to ground microbial systems analysis and modeling in a broad yet quantitative assessment of the organism’s physiological response to different metabolites and environments. Biolog phenotype assays achieve this by coupling tetrazolium dyes with minimally defined nutrients to measure the impact of hundreds of carbon, nitrogen, phosphorous, and sulfur sources on redox reactions that result from compound-induced effects on the electron transport chain. Over the years, we have used Biolog’s reproducible and highly sensitive assays to distinguish closely related bacterial isolates, to understand their metabolic differences, and to model their metabolic behavior using flux balance analysis. This chapter describes Biolog phenotype microarray system components, reagents, and methods, particularly as they apply to bacterial identification, characterization, and metabolic analysis.
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Acknowledgments
This work was funded in part by a grant from the United States Defense Threat Reduction Agency (TMTI0049_09_RD_T) and Joint Program Executive Office-Chemical and Biological Defense, Medical Identification & Treatment Systems, Critical Reagents Program (JPEO-CBD, CBMS, MITS, and CRP). Opinions, interpretations, conclusions, and recommendations are those of the authors and are not necessarily endorsed by the United States Army.
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Shea, A., Wolcott, M., Daefler, S., Rozak, D.A. (2012). Biolog Phenotype Microarrays. In: Navid, A. (eds) Microbial Systems Biology. Methods in Molecular Biology, vol 881. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-61779-827-6_12
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DOI: https://doi.org/10.1007/978-1-61779-827-6_12
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