Author: A. Bal; M. Pichon; C. Picard; JS. Casalegno; M. Valette; I. Schuffenecker; L. Billard; S. Vallet; G. Vilchez; V. Cheynet; G. Oriol; S. Assant; Y. Gillet; B. Lina; K. Brengel-Pesce; F. Morfin; L. Josset
Title: Quality control implementation for universal characterization of DNA and RNA viruses in clinical respiratory samples using single metagenomic next-generation sequencing workflow Document date: 2018_7_11
ID: d86o6j2s_1
Snippet: Although the potential of mNGS technology is very promising, further evaluation studies are 71 urgently needed for its routine clinical use within a reasonable timeframe. The approach 72 described herein is crucial to bring standardization and to ensure the quality of the generated 73 sequences in clinical setting. We provide an easy-to-use single protocol successfully 74 Since the development of Next Generation-Sequencing (NGS) technologies in 2.....
Document: Although the potential of mNGS technology is very promising, further evaluation studies are 71 urgently needed for its routine clinical use within a reasonable timeframe. The approach 72 described herein is crucial to bring standardization and to ensure the quality of the generated 73 sequences in clinical setting. We provide an easy-to-use single protocol successfully 74 Since the development of Next Generation-Sequencing (NGS) technologies in 2005, 78 the use of metagenomic approaches has grown considerably. It is now considered as an 79 efficient unbiased tool in clinical virology [1, 2] , in particular for the characterization of viral 80 acute respiratory infections (ARIs). Several advantages of metagenomic NGS (mNGS) 81 compared to conventional real-time Polymerase Chain Reaction (PCR) assays have been 82 highlighted. Firstly, the full viral genetic information is immediately available allowing the 83 investigation of respiratory outbreaks, viral epidemiological surveillance, or identification of 84 specific mutations leading to antiviral resistance or higher virulence [3] [4] [5] . Secondly, a 85 significant improvement in viral ARIs diagnosis has been reported [4,6-9]; as the process is 86 sequence independent, mNGS is able to identify highly divergent viral genomes, rare 87 respiratory pathogens, and to discover respiratory viruses missed by targeted PCR [1, 4, 7] . all of these have to be controlled to ensure the quality of the generated sequences [6, [14] [15] [16] . 96 Furthermore, specimen to specimen, environmental, and reagent contaminations are also a 97 major concern in metagenomic setting and must be accurately evaluated [6, [17] [18] [19] . 98
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