Host, Viral, and Environmental Transcriptome Profiles of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)

Daniel J Butler; Christopher Mozsary; Cem Meydan; David C Danko; Jonathan Foox; Joel Rosiene; Alon Shaiber; Ebrahim Afshinnekoo; Matthew MacKay; Fritz J Sedlazeck; Nikolay A Ivanov; Maria A Sierra; Diana Pohle; Michael Zeitz; Vijendra Ramlall; Undina Gisladottir; Craig D Westover; Krista Ryon; Benjamin Young; Chandrima Bhattacharya; Phyllis Ruggiero; Bradley W Langhorst; Nathan A Tanner; Justyn Gawrys; Dmitry Meleshko; Dong Xu; Jenny Xiang; Angelika Iftner; Daniela Bezdan; John Sipley; Lin Cong; Arryn Craney; Priya Velu; Ari Melnick; Iman A Hajirasouliha; Thomas Iftner; Mirella Salvatore; Massimo Loda; Lars F Westblade; Shawn Levy; Melissa Cushing; Nicholas P Tatonetti; Marcin Imielinski; Hanna Rennert; Christopher Mason

The copyright holder for this preprint (which was not peer-reviewed) is the . https: //doi.org/10.1101 //doi.org/10. /2020 Supplemental Figure 3 . Reproducibility, sensitivity, and specificity for the LAMP Assay. (a) Testing with a synthetic SARS-CoV-2 RNA that was serially titrated and measured in replicates (n=10) showed 100% and 95% reproducibility at 1,000 and 500 copies, respectively, with lower rates at lower viral titers. (b) Replicates of a clinically positive (by qRT-PCR) sample at 10 uL (blue) compared to 5uL (green) showed high concordance, with greater sensitivity with increased reaction volume. (c) Whole oropharyngeal swab lysates from clinical positive (Cpvalue >0) and negative samples (Cp = NA) were used to test the LAMP reaction. (d) The standard curve with synthetic RNA was also tested relative to absolute number of copies (x-axis) and the Cp value (y-axis). (e) The Cp value for the LAMP positive (+, right) and negative (-, left) were compared to the Cp value from qRT-PCR (y-axis).