Resequencing Pathogen Microarray (RPM) for prospective detection and identification of emergent pathogen strains and variants

Clark Tibbetts; Agnieszka M. Lichanska; Lisa A. Borsuk; Brian Weslowski; Leah M. Morris; Matthew C. Lorence; Klaus O. Schafer; Joseph Campos; Mohamadou Sene; Christopher A. Myers; Dennis Faix; Patrick J. Blair; Jason Brown; David Metzgar

doi:10.1117/12.853469

5 May 2010 Resequencing Pathogen Microarray (RPM) for prospective detection and identification of emergent pathogen strains and variants

Clark Tibbetts, Agnieszka M. Lichanska, Lisa A. Borsuk, Brian Weslowski, Leah M. Morris, Matthew C. Lorence, Klaus O. Schafer, Joseph Campos, Mohamadou Sene, Christopher A. Myers, Dennis Faix, Patrick J. Blair, Jason Brown, David Metzgar

Author Affiliations +

Proceedings Volume 7666, Sensors, and Command, Control, Communications, and Intelligence (C3I) Technologies for Homeland Security and Homeland Defense IX; 76661D (2010) https://doi.org/10.1117/12.853469
Event: SPIE Defense, Security, and Sensing, 2010, Orlando, Florida, United States

Abstract

High-density resequencing microarrays support simultaneous detection and identification of multiple viral and bacterial pathogens. Because detection and identification using RPM is based upon multiple specimen-specific target pathogen gene sequences generated in the individual test, the test results enable both a differential diagnostic analysis and epidemiological tracking of detected pathogen strains and variants from one specimen to the next. The RPM assay enables detection and identification of pathogen sequences that share as little as 80% sequence similarity to prototype target gene sequences represented as detector tiles on the array. This capability enables the RPM to detect and identify previously unknown strains and variants of a detected pathogen, as in sentinel cases associated with an infectious disease outbreak. We illustrate this capability using assay results from testing influenza A virus vaccines configured with strains that were first defined years after the design of the RPM microarray. Results are also presented from RPM-Flu testing of three specimens independently confirmed to the positive for the 2009 Novel H1N1 outbreak strain of influenza virus.

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Clark Tibbetts, Agnieszka M. Lichanska, Lisa A. Borsuk, Brian Weslowski, Leah M. Morris, Matthew C. Lorence, Klaus O. Schafer, Joseph Campos, Mohamadou Sene, Christopher A. Myers, Dennis Faix, Patrick J. Blair, Jason Brown, and David Metzgar "Resequencing Pathogen Microarray (RPM) for prospective detection and identification of emergent pathogen strains and variants", Proc. SPIE 7666, Sensors, and Command, Control, Communications, and Intelligence (C3I) Technologies for Homeland Security and Homeland Defense IX, 76661D (5 May 2010); https://doi.org/10.1117/12.853469

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