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DNA-affinity-purified Chip (DAP-chip) Method to Determine Gene Targets for Bacterial Two component Regulatory Systems

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Different evolutionary modifications as a guide to rewire two-component systems.

Beate Krueger¹, Torben Friedrich, Frank Förster

¹Dept of Bioinformatics, Biocenter, Am Hubland, University of Würzburg, D-97074 Würzburg, Germany.

Bioinformatics and Biology Insights

|May 16, 2012

Summary

This study explores rewiring two-component systems (TCS) in prokaryotes for new functions. It details three modification scenarios and provides alignments for engineering novel responses in biotechnology.

Keywords:

Mycoplasma connector engineering histidine kinase promoter response regulator sensor sequence alignment synthetic biology

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Area of Science:

Microbiology and Synthetic Biology
Molecular Biology and Biochemistry

Background:

Two-component systems (TCS) are crucial prokaryotic signaling pathways regulating stimulus responses.
TCS are of significant interest for engineering applications in biotechnology and synthetic biology.

Purpose of the Study:

To elucidate and describe the rewiring of two-component systems (TCS) under various evolutionary scenarios.
To provide detailed data, alignments, and structural analysis for understanding TCS modification.

Main Methods:

Large-scale screening of TCS across diverse organisms.
Sequence and domain analysis of TCS.
Structural analysis of modified TCS.

Main Results:

Identified three general scenarios for TCS rewiring: intra-domain sequence exchange, whole-domain exchange, and addition of modulatory components.
Provided concrete alignments and structural insights for these modification scenarios.
Demonstrated that replacing stimulus and promoter cassettes effectively rewires TCS.

Conclusions:

Rewiring of TCS for novel functions is achievable through defined modification strategies.
The study offers valuable data and alignments for designing and engineering TCS in biotechnology.
Designed connector proteins present a potential avenue for targeted TCS modification.