Selected article for: "genome sequencing and host virus"
Author: Hayden C. Metsky; Katherine J. Siddle; Adrianne Gladden-Young; James Qu; David K. Yang; Patrick Brehio; Andrew Goldfarb; Anne Piantadosi; Shirlee Wohl; Amber Carter; Aaron E. Lin; Kayla G. Barnes; Damien C. Tully; Björn Corleis; Scott Hennigan; Giselle Barbosa-Lima; Yasmine R. Vieira; Lauren M. Paul; Amanda L. Tan; Kimberly F. Garcia; Leda A. Parham; Ikponmwonsa Odia; Philomena Eromon; Onikepe A. Folarin; Augustine Goba; Etienne Simon-Lorière; Lisa Hensley; Angel Balmaseda; Eva Harris; Douglas Kwon; Todd M. Allen; Jonathan A. Runstadler; Sandra Smole; Fernando A. Bozza; Thiago M. L. Souza; Sharon Isern; Scott F. Michael; Ivette Lorenzana; Lee Gehrke; Irene Bosch; Gregory Ebel; Donald Grant; Christian Happi; Daniel J. Park; Andreas Gnirke; Pardis C. Sabeti; Christian B. Matranga
Title: Capturing diverse microbial sequence with comprehensive and scalable probe design
  • Document date: 2018_3_12
    • ID: a9lkhayg_1
    Snippet: Sequencing of patient samples has revolutionized the detection and characterization of important human viral pathogens 1 and has enabled crucial insights into their evolution and epidemiology [2] [3] [4] [5] [6] . Unbiased metagenomic sequencing is particularly useful for identifying and obtaining genome sequences of emerging or diverse species because it allows accurate detection of species and variants whether they are known or novel 1 . Howeve.....
    Document: Sequencing of patient samples has revolutionized the detection and characterization of important human viral pathogens 1 and has enabled crucial insights into their evolution and epidemiology [2] [3] [4] [5] [6] . Unbiased metagenomic sequencing is particularly useful for identifying and obtaining genome sequences of emerging or diverse species because it allows accurate detection of species and variants whether they are known or novel 1 . However, in practice its utility is often limited because of extremely low viral titers, e.g., as seen in the recent Zika virus outbreak [7] [8] [9] , or high levels of host material 10 . The low ratio of viral to host material results in few viral-derived sequencing reads, which can make genome assembly, if even attainable, prohibitively expensive. To fully realize the potential of metagenomic sequencing, we need new tools that improve its sensitivity while preserving its comprehensive, unbiased scope.

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