Crispr effector system based coronavirus diagnostics

A single reaction composition for detecting the presence of a target polynucleotide in a crude or unprocessed sample, comprising:

• a DNA isolation solution capable of isolating target RNA from the crude or unprocessed sample comprising a cell or virus containing a target RNA;
• one or more thermostable Cas proteins possessing collateral activity;
• at least one guide polynucleotide comprising a sequence capable of binding the target RNA and designed to form a CRISPR-Cas complex with the one or more Cas proteins;
• isothermal amplification reagents comprising optimized loop-mediated isothermal amplification (LAMP) primers and amplification reagents;
• and
• a detection construct comprising a polynucleotide component, wherein the one or more Cas proteins exhibit collateral nuclease activity and cleave the polynucleotide component of the detection construct once activated by the target RNA, thereby generating a detectable signal.