CRISPR-BASED SHERLOCK ASSAY FOR RAPID DETECTION OF CHYTRID FUNGUS EDNA

Diana A Munoz; UC Davis and US Geological Survey; damunoz@ucdavis.edu; Andrea Schreier, Raman Nagarajan, Emily Funk, Brian Halstead, Patrick Kleeman, Thomas Jenkinson

Chytridiomycosis, caused by the fungal pathogen Batrachochytrium dendrobatidis (“Bd”), has been associated with amphibian declines worldwide. While Bd infection can be visually identified at amphibian larval stages, diagnoses for adults often rely on swabbing and quantitative PCR (qPCR) assays. However, processing samples via qPCR requires expensive instrumentation, molecular biology experience, and several hours of benchwork to produce results. Outsourcing to laboratories with the necessary equipment can further increase project costs and waiting times for results. Advances in CRISPR-based diagnostics have enabled the development of novel methods for pathogen detection. Specific High-sensitivity Enzymatic Reporter unLOCKing (SHERLOCK) assays use the CRISPR-Cas13a enzyme complex to detect target nucleic acids and produce a measurable fluorescent signal. These assays are rapid (< 1 hr), sensitive at low DNA concentrations, and can be performed by non-experts under field conditions. We developed a SHERLOCK assay to detect genome fragments of the Global Panzootic Lineage of Bd (“BdGPL”) on swabs and eDNA samples. Our assay detected culture derived BdGPL DNA within 20 minutes of SHERLOCK reaction initiation in the laboratory. Field trials are in-progress. Findings are preliminary and provided for timely best science.

Poster Session   Student Paper