id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-262266-m0fjt483	Peddu, Vikas	Metagenomic analysis reveals clinical SARS-CoV-2 infection and bacterial or viral superinfection and colonization	2020-05-07		.txt	text/plain	1847	110	53	METHODS: To evaluate metagenomic approaches in the context of the current SARS-CoV-2 epidemic, laboratory-confirmed positive and negative samples from Seattle, Washington were evaluated by metagenomic sequencing, with comparison to a 2019 reference genomic database created before the emergence of SARS-CoV-2. A subset of samples also showed superinfection or colonization with human parainfluenza virus 3 or Moraxella species, highlighting the need to test directly for SARS-CoV-2 as opposed to ruling out an infection using a viral respiratory panel. Eight unique patient samples consisting of six positive and two negative cases of suspected SARS-CoV-2 were sequenced using RNA extracted for a qRT-PCR diagnostic assay. Despite our reference database not containing any SARS-CoV-2 genomes, the six samples that were positive for SARS-CoV-2 by qRT-PCR had reads classified to Table 2) . Phylogenetic analysis revealed that the six SARS-CoV-2 sequences found cluster within two clades representing the Washington state and European outbreaks.	./cache/cord-262266-m0fjt483.txt	./txt/cord-262266-m0fjt483.txt