Nanopore and Illumina sequencing reveal different viral populations from human gut samples.
Microb Genom
; 10(4)2024 Apr.
Article
en En
| MEDLINE
| ID: mdl-38683195
ABSTRACT
The advent of viral metagenomics, or viromics, has improved our knowledge and understanding of global viral diversity. High-throughput sequencing technologies enable explorations of the ecological roles, contributions to host metabolism, and the influence of viruses in various environments, including the human intestinal microbiome. However, bacterial metagenomic studies frequently have the advantage. The adoption of advanced technologies like long-read sequencing has the potential to be transformative in refining viromics and metagenomics. Here, we examined the effectiveness of long-read and hybrid sequencing by comparing Illumina short-read and Oxford Nanopore Technology (ONT) long-read sequencing technologies and different assembly strategies on recovering viral genomes from human faecal samples. Our findings showed that if a single sequencing technology is to be chosen for virome analysis, Illumina is preferable due to its superior ability to recover fully resolved viral genomes and minimise erroneous genomes. While ONT assemblies were effective in recovering viral diversity, the challenges related to input requirements and the necessity for amplification made it less ideal as a standalone solution. However, using a combined, hybrid approach enabled a more authentic representation of viral diversity to be obtained within samples.
Palabras clave
Texto completo:
1
Colección:
01-internacional
Banco de datos:
MEDLINE
Asunto principal:
Genoma Viral
/
Heces
/
Metagenómica
/
Secuenciación de Nucleótidos de Alto Rendimiento
/
Microbioma Gastrointestinal
Límite:
Humans
Idioma:
En
Revista:
Microb Genom
Año:
2024
Tipo del documento:
Article
País de afiliación:
Reino Unido