Standard finishing categories for high-throughput sequencing of viral genomes

J. T. Ladner, J. H. Kuhn, G. Palacios

Research output: Contribution to journalArticlepeer-review

4 Scopus citations

Abstract

Viral genome sequencing has become the cornerstone of almost all aspects of virology. In particular, high-throughput, next-generation viral genome sequencing has become an integral part of molecular epidemiological investigations into outbreaks of viral disease, such as the recent outbreaks of Middle Eastern respiratory syndrome, Ebola virus disease and Zika virus infection. Multiple institutes have acquired the expertise and necessary infrastructure to perform such investigations, as evidenced by the accumulation of thousands of novel viral sequences over progressively shorter time periods. The authors recently proposed a nomenclature comprised of five high-throughput sequencing standard categories to describe the quality of determined viral genome sequences. These five categories (standard draft, high quality, coding complete, complete and finished) cover all levels of viral genome finishing and can be applied to sequences determined by any technology platform or assembly technique.

Original languageEnglish (US)
Pages (from-to)43-52
Number of pages10
JournalOIE Revue Scientifique et Technique
Volume35
Issue number1
DOIs
StatePublished - Apr 2016
Externally publishedYes

Keywords

  • Data curation
  • Genome assembly
  • High-throughput sequencing
  • Medical countermeasure development
  • Molecular epidemiology
  • Population genomics
  • Virus

ASJC Scopus subject areas

  • Animal Science and Zoology

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