NASCarD (Nanopore Adaptive Sampling with Carrier DNA): A Rapid, PCR-Free Method for SARS-CoV-2 Whole-Genome Sequencing in Clinical Samples.

NASCarD (Nanopore Adaptive Sampling with Carrier DNA): A Rapid, PCR-Free Method for SARS-CoV-2 Whole-Genome Sequencing in Clinical Samples.

Publication date: Jan 09, 2024

Whole-genome sequencing (WGS) represents the main technology for SARS-CoV-2 lineage characterization in diagnostic laboratories worldwide. The rapid, near-full-length sequencing of the viral genome is commonly enabled by high-throughput sequencing of PCR amplicons derived from cDNA molecules. Here, we present a new approach called NASCarD (Nanopore Adaptive Sampling with Carrier DNA), which allows a low amount of nucleic acids to be sequenced while selectively enriching for sequences of interest, hence limiting the production of non-target sequences. Using COVID-19 positive samples available during the omicron wave, we demonstrate how the method may lead to >99% genome completeness of the SARS-CoV-2 genome sequences within 7 h of sequencing at a competitive cost. The new approach may have applications beyond SARS-CoV-2 sequencing for other DNA or RNA pathogens in clinical samples.

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Concepts Keywords
Dna beta coronaviruses
Free genomics
Nanopore nanopore sequencing
Nascard next-generation sequencing
Viral SARS-CoV-2
whole-genome sequencing

Semantics

Type Source Name
disease IDO production
disease MESH COVID-19
disease MESH Infectious Diseases
disease VO protocol
disease VO Viruses
disease VO efficient
disease VO effective
drug DRUGBANK Coenzyme M
disease IDO host
disease VO efficiency
disease IDO quality
disease IDO process
disease IDO pathogen
disease IDO facility
disease VO time
disease VO USA
disease VO volume
drug DRUGBANK Water
disease VO device
disease IDO cell
drug DRUGBANK Alpha-1-proteinase inhibitor
disease IDO country
drug DRUGBANK Pentaerythritol tetranitrate
drug DRUGBANK Ademetionine
drug DRUGBANK Tropicamide
drug DRUGBANK Trestolone
drug DRUGBANK Nystatin
drug DRUGBANK (S)-Des-Me-Ampa
disease MESH pneumonia
disease IDO assay
disease VO report
disease IDO bacteria
drug DRUGBANK Guanosine
disease MESH influenza
drug DRUGBANK Dimercaprol

Original Article

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