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Project Caffeinated coli

The widespread use of caffeine (1,3,7–trimethylxanthine) and other methylxanthines in beverages and pharmaceuticals has led to significant environmental pollution. We have developed a novel detection and bioremediation strategy for caffeine contamination by refactoring the methylxanthine degradation operon native to Pseudomonas putida CBB5. Escherichia coli cells with this synthetic operon degrade caffeine by N-demethylation to the guanine precursor, xanthine. Cells deficient in guanine biosynthesis and containing our refactored operon were addicted to caffeine; their growth density was limited by the availability of caffeine. Remarkably, they were able to sense the caffeine content of several common beverages. Characterization of nearby genes in the P. putida operon revealed a potential methylxanthine regulatory system for use in biological circuit design. The synthetic N-demethylation operon could be useful for cheaply producing pharmaceuticals or precursor molecules and for detoxifying waste so that it can be recycled into animal feed and biofuels.

Project ZombiE.coli

UT’s ZombiE.coli project aims to a develop a tightly regulated genetic switch that is triggered by bacterial quorum signaling and leads to feed-forward propagation of the genetic output in the form of red or green fluorescence as well as amplification of quorum signaling. The switch relies on simple one-way Cre/loxP recombination combined with native quorum signaling to provide us with a system that models transmissible disease spread between populations. We have likened this to an airborne zombie epidemic, in which an “infected” zombie cell is capable of restructuring the genes of a normal cell, turning it into a flesh-hungry counterpart. This system will be useful not only as a simple disease outbreak model for intermediate-level biology education, but also, could provide new insights to how bacterial populations communicate in three dimensions and under different genetic backgrounds.

Project PopeyE.coli

In an effort to improve the efficiency, ease, and quality of promoter and RBS strength measurements, we focused on developing a dual fluorescence reporter for simultaneous monitoring both transcription and translation. To measure both processes separately, two fluorescent reporters, the Spinach aptamer and mCherry red fluorescent protein, were assembled into a single construct. The Spinach-mCherry dual reporter is a unique concept; Spinach is a short RNA aptamer that binds to its ligand, DFHBI, and allows it to emit green fluorescence similar to GFP. This gives insight into the direct production of the mCherry-encoding mRNA without the need to wait for protein folding and maturation of the fluorophore. This technique attempted to expand upon current efforts to measure promoter strength relative to a reference standard used by the iGEM community.