BioLaboro: A bioinformatics system for detecting molecular assay signature erosion and designing new assays in response to emerging and reemerging pathogens

Mitchell Holland; Daniel Negrón; Shane Mitchell; Nate Dellinger; Mychal Ivancich; Tyler Barrus; Sterling Thomas; Katharine W. Jennings; Bruce Goodwin; Shanmuga Sozhamannan

We also tested the SARS-CoV-2 assays using PSET on near neighbor sequences that 351 were generated during this outbreak, such as the bat and pangolin sequences. As expected the 352 analyses showed a range of TP from pan assays, FN results due to sequence divergence (Table 353 8 ). Table 8 . PSET results of SARS-CoV-2 PCR assays against bat and pangolin SARS-CoV 355 sequences. Since its discovery in 2016, BOMV RNA has been detected in oral and rectal swabs as The copyright holder for this preprint (which was not peer-reviewed) is the . https://doi.org/10.1101/2020.04.08.031963 doi: bioRxiv preprint diversity and ecology. Given these gaps and the human and economic impacts of ebolavirus 366 disease, there is an ongoing need for ebolavirus biosurveillance and further characterization of 367 BOMV. Availability of efficient viral RNA detection assays is critical for bio surveillance of 368 these reservoirs.