Authors: F. Curtis Hewitt, Stephanie L. Guertin, Krista L. Ternus, Kathleen Schulte, and Dana R. Kadavy
Summary: High-throughput next generation sequencing platforms have not substantially impacted the human pathogen clinical diagnostics market despite the disruptive, transformative nature of the technology. The Oxford Nanopore Technologies MinION™ sequencing platform has significant appeal for clinical diagnostics due to its simple library preparation, long read generation, flexible run times, potential for real time data analysis, and small footprint. The workflow developed for this study incorporated a quick sample preparation method to fully capitalize on these capabilities. While utilizing several potential blood pathogens, Y. pestis was selected as the main focus. Y. pestis strain-level identification was performed by the interrogation of chromosomal variants and plasmid content via both shotgun and targeted sequence analyses, albeit at relatively high titer levels.
2nd ASM Conference on Rapid Applied Microbial Next-Generation Sequencing and Bioinformatic Pipelines held 8 - 11 October 2017 in Washington DC.