Detection of Plant Viruses Using Nanopore Sequencing Based Metagenomic Approach

Anja Pecman; Nataša Mehle; Denis Kutnjak

doi:10.1007/978-1-0716-3515-5_17

Detection of Plant Viruses Using Nanopore Sequencing Based Metagenomic Approach

Methods Mol Biol. 2024:2732:251-264. doi: 10.1007/978-1-0716-3515-5_17.

Authors

Anja Pecman¹, Nataša Mehle^{1

2}, Denis Kutnjak³

Affiliations

¹ Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, Slovenia.
² School for Viticulture and Enology, University of Nova Gorica, Vipava, Slovenia.
³ Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, Slovenia. denis.kutnjak@nib.si.

PMID: 38060130
DOI: 10.1007/978-1-0716-3515-5_17

Abstract

Nanopore sequencing has proven to be a useful tool for the generic detection of plant viruses, especially in laboratories working with small number of samples. In this chapter, we describe the steps prior to library preparation as well as the library preparation itself, which we found provides comparable results to Illumina sequencing.

Keywords: Detection; High-throughput sequencing; Metagenomics; Nanopore sequencing; Plant viruses.

MeSH terms

High-Throughput Nucleotide Sequencing / methods
Metagenome
Metagenomics / methods
Nanopore Sequencing*
Plant Viruses* / genetics