1. Room temperature CRISPR diagnostics for low-resource settings.
- Author
-
Nalefski EA, Sinan S, Cantera JL, Kim AG, Kooistra RM, Rivera RE, Janshen JP, Bhadra S, Bishop JD, Ellington AD, Finklestein IJ, and Madan D
- Subjects
- Humans, Endodeoxyribonucleases genetics, Endodeoxyribonucleases metabolism, Human papillomavirus 16 genetics, Human papillomavirus 16 isolation & purification, CRISPR-Associated Proteins genetics, Bacterial Proteins genetics, Female, Recombinases metabolism, Nucleic Acid Amplification Techniques methods, Papillomavirus Infections diagnosis, Papillomavirus Infections virology, Sensitivity and Specificity, CRISPR-Cas Systems, Temperature
- Abstract
Maintaining elevated reaction temperatures and multi-step sample preparations increases the costs and complexity of diagnostics, impeding their deployment in low-resource settings. Here, we develop a one-pot, room temperature recombinase polymerase amplification (RPA)-CRISPR reaction that removes these critical challenges. We show that RPA amplification is reduced by several orders of magnitude at 25 °C as compared to 37 °C. Similarly, when coupled to RPA, the performance of multiple Cas12a orthologs, including the widely used LbCas12a, is severely compromised at temperatures below 37 °C. To mitigate these limitations, we identify the ortholog TsCas12a as a highly active nuclease at 25 °C and develop a single-protocol RPA-Cas12a detection reaction with this enzyme. A quantitative kinetic analysis reveals that fast nuclease activation is more critical than higher steady-state trans-cleavage activity for room temperature diagnostic applications. RPA-TsCas12a reactions performed at 25 °C effectively detected HPV-16 in crudely prepared cervical swab samples with high sensitivity and specificity using both optical and lateral flow readouts. The reactions developed herein reduce the complexity and equipment requirements for affordable diagnostics in low- and middle-income countries., Competing Interests: Declarations. Competing interests: The authors declare no competing interests., (© 2025. The Author(s).)
- Published
- 2025
- Full Text
- View/download PDF