Long-Read Sequencing – A Powerful Tool in Viral Transcriptome Research

Zsolt Boldogkői, Norbert Moldován, Zsolt Balázs, Michael Snyder, Dóra Tombácz

Research output: Contribution to journalReview article

6 Citations (Scopus)

Abstract

Long-read sequencing (LRS) has become increasingly popular due to its strengths in de novo assembly and in resolving complex DNA regions as well as in determining full-length RNA molecules. Two important LRS technologies have been developed during the past few years, including single-molecule, real-time sequencing by Pacific Biosciences, and nanopore sequencing by Oxford Nanopore Technologies. Although current LRS methods produce lower coverage, and are more error prone than short-read sequencing, these methods continue to be superior in identifying transcript isoforms including multispliced RNAs and transcript-length variants as well as overlapping transcripts and alternative polycistronic RNA molecules. Viruses have small, compact genomes and therefore these organisms are ideal subjects for transcriptome analysis with the relatively low-throughput LRS techniques. Recent LRS studies have multiplied the number of previously known transcripts and have revealed complex networks of transcriptional overlaps in the examined viruses.

Original languageEnglish
Pages (from-to)578-592
Number of pages15
JournalTrends in Microbiology
Volume27
Issue number7
DOIs
Publication statusPublished - Jul 2019

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Keywords

  • DNA replication
  • Pacific Biosciences
  • RNA-Seq
  • nanopore sequencing
  • noncoding RNA
  • replication origin
  • splicing

ASJC Scopus subject areas

  • Microbiology
  • Microbiology (medical)
  • Infectious Diseases
  • Virology

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