Jonathan Perreault

This paper optimizes SELEX to develop DNA aptamers targeting PirAB toxin for early detection of AHPND, achieving Kd values of 65-700 nM for PirB and 1-3 µM for PirAB complex.

The paper develops a pipeline to identify bacterial sRNAs with improved precision by integrating multiple computational and experimental methods across diverse species.

The paper evaluates an enzyme-free nucleic acid amplification method that eliminates purification steps and works in diverse sample matrices, showing robust performance in various conditions.

This paper introduces a novel aptazyme-based system for ligand-controlled gene regulation in bacteria, demonstrating its effectiveness in modulating tetracycline resistance and nickel sensitivity.

Ribosoft 2.0 is a web service that designs various ribozymes, including allosteric ones, using user-submitted templates and parameters, with tested active designs on mRNAs.

This paper introduces a simple method for in vitro preparation of single-stranded circular DNA using phosphorylated-phosphorothioated primers and validates it through SELEX for MERS-CoV spike protein aptamers.

This paper introduces SR-PAGE, a method to discover riboswitches and aptamers by detecting conformational changes in RNA upon ligand binding.

The paper validates sRNAs in Methylorubrum extorquens and identifies a novel sRNA specific to Methylobacteriaceae.

This paper introduces a DNA-based probe to measure hammerhead ribozyme cleavage kinetics without radioactive labels, gels, or regular sampling, using fluorescence from strand displacement reactions.

The paper surveys cis-regulatory non-coding RNAs in bacterial virulence genes to assess their role in pathogenesis and identify potential regulatory triggers.