A modified RNA-Seq approach for whole genome sequencing of RNA viruses from faecal and blood samples.

ABSTRACT: To date, very large scale sequencing of many clinically important RNA viruses has been complicated by their high population molecular variation, which creates challenges for polymerase chain reaction and sequencing primer design. Many RNA viruses are also difficult or currently not possible to culture, severely limiting the amount and purity of available starting material. Here, we describe a simple, novel, high-throughput approach to Norovirus and Hepatitis C virus whole genome sequence determination based on RNA shotgun sequencing (also known as RNA-Seq). We demonstrate the effectiveness of this method by sequencing three Norovirus samples from faeces and two Hepatitis C virus samples from blood, on an Illumina MiSeq benchtop sequencer. More than 97% of reference genomes were recovered.

SUBMITTER: Batty EM 

PROVIDER: S-EPMC3677912 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature