@article{c3157c1706b64be7adf1b885812194d8,
title = "Universal microbial diagnostics using random DNA probes",
abstract = "Early identification of pathogens is essential for limiting development of therapy-resistant pathogens and mitigating infectious disease outbreaks. Most bacterial detection schemes use target-specific probes to differentiate pathogen species, creating time and cost inefficiencies in identifying newly discovered organisms. We present a novel universal microbial diagnostics (UMD) platform to screen for microbial organisms in an infectious sample, using a small number of random DNA probes that are agnostic to the target DNA sequences. Our platform leverages the theory of sparse signal recovery (compressive sensing) to identify the composition of a microbial sample that potentially contains novel or mutant species. We validated the UMD platform in vitro using five random probes to recover 11 pathogenic bacteria. We further demonstrated in silico that UMD can be generalized to screen for common human pathogens in different taxonomy levels. UMD{\textquoteright}s unorthodox sensing approach opens the door to more efficient and universal molecular diagnostics.",
author = "Amirali Aghazadeh and Lin, {Adam Y.} and Sheikh, {Mona A.} and Chen, {Allen L.} and Atkins, {Lisa M.} and Johnson, {Coreen L.} and Petrosino, {Joseph F.} and Drezek, {Rebekah A.} and Baraniuk, {Richard G.}",
note = "Funding Information: We thank J. Moake for allowing use of his laboratory{\textquoteright}s thermal cycler. A.A., M.A.S., and R.G.B. were supported by the NSF (CCF-0728867). A.Y.L. was supported by the Medical Scientist Training Program at Baylor College of Medicine, the Edward and Josephine Hudson Scholarship, and the Ruth L. Kirschstein National Research Service Awards for Individual Predoctoral MD/PhD Fellows (5F30CA165686) of the NIH and National Cancer Institute. A.L.C. was supported by the NSF through a Graduate Research Fellowship (0940902) and the Keck Center of the Gulf Coast Consortia through the Nanobiology Interdisciplinary Graduate Training Program (NIH grant T32EB009379). J.F.P. and L.M.A. were supported by the NIH Biodefense and Emerging and Infectious Disease Regional Center of Excellence Program (U54 AI057156). Publisher Copyright: {\textcopyright} 2016 The Authors.",
year = "2016",
month = sep,
doi = "10.1126/sciadv.1600025",
language = "English (US)",
volume = "2",
journal = "Science advances",
issn = "2375-2548",
publisher = "American Association for the Advancement of Science",
number = "9",
}