Methods: We have developed a rapid molecular concatemerization library approach to increase the throughput of the nanopore sequencer analysis for metagenomic and RNA-Seq approaches. We have also developed a pipeline (SURPIrt, “Sequence-based ultra-rapid pathogen identification, real-time") that allows for real-time, simultaneous metagenomic and transcriptomic analyses on the same sample.
Results: With the use of molecular concatemerization library approach, we show that metagenomic and transcriptomic data generated on the MinION are comparable to those on the Illumina platform, yet can be collected and analyzed in significantly less time (6 hours versus 2-3 days).
Conclusion: Here we demonstrate simultaneous metagenomic and RNA-Seq analyses on a nanopore-based sequencing platform with real-time analysis of results. We foresee that this approach could be leveraged into a rapid screening test for diagnosis of infectious diseases in both hospital and field settings.
X. D. Deng, None
W. Gu, None
G. Yu, None
C. Sanchez San Martin, None
S. Miller, None
C. Y. Chiu, None