Real-Time Automated Pathogen Identification by Enhanced Ribotyping (RAPIER) LDRD Final Report
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Exploratory Systems Dept.
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); uBiome, San Francisco, CA (United States)
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Bioenergy and Defense Technology Dept.
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Exploratory Systems Dept.; Univ. of Toronto, ON (Canada). Inst. of Biomaterials and Biomedical Engineering
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Exploratory Systems Dept.; Roche Molecular Systems, Pleasanton, CA (United States)
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Systems Biology Dept.
- Sandia National Lab. (SNL-NM), Albuquerque, NM (United States). Exploratory Systems Dept., and Purdue Partnerships Dept.
Funded through the IHNS/E&HS investment area for FY16-18, the RAPIER LDRD sought to evaluate the potential benefits and applicability of the new Oxford MinION nanopore sequencer to pathogen diagnostic applications in biodefense, biosurveillance, and global/public health. The project had four primary objectives: 1) to investigate the performance of the MinION sequencer while building facility with its operation, 2) to develop microfluidic library prep automation facilitating the use of the MinION in field-forward or point-of-care applications, 3) to leverage CRISPR/Cas9 technology to enable targeted identification of bacterial pathogens, and 4) to capitalize on the real- time data output capabilities of the MinION to enable rapid sequence-based diagnostics. While the rapid evolution of the MinION sequencing technology during the course of the project posed a number of challenges and required a reassessment of initial project priorities, it also provided unique opportunities, notably culminating in our development of the RUBRIC real-time selective sequencing software.
- Research Organization:
- Sandia National Laboratories (SNL-CA), Livermore, CA (United States); Sandia National Laboratories (SNL-NM), Albuquerque, NM (United States)
- Sponsoring Organization:
- USDOE National Nuclear Security Administration (NNSA)
- DOE Contract Number:
- AC04-94AL85000
- OSTI ID:
- 1481615
- Report Number(s):
- SAND--2018-11323; 669502
- Country of Publication:
- United States
- Language:
- English