ArticleScientific reports2022
Nanopore sequencing of a monkeypox virus strain isolated from a pustular lesion in the Central African Republic.
Article in Scientific reports, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed, 59 citations in OpenAlex.
- Viral Metagenomic Next-Generation Sequencing for One Health Discovery and Surveillance of (Re)Emerging Viruses: A Deep Review.International journal of molecular sciences · 2025Review
- An urgent need for diagnostic tools to address global mpox public health emergencies.Journal of clinical microbiology · 2025Review
- Comprehensive Genomic, Mutation, Phylogenetic, and Statistical Analysis of the Monkeypox Virus Across Multiple Countries.Indian journal of microbiology · 2025Article
- Monkeypox: Prevention Strategies and Challenges: Updated Review.Health science reports · 2025Article
- Fusarium Genome Sequencing and Assembly.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Article
- CRISPR-based strategies for sample-to-answer monkeypox detection: current status and emerging opportunities.Nanotechnology · 2024Review
- Direct metagenomic and amplicon-based Nanopore sequencing of French human monkeypox from clinical specimen.Microbiology resource announcements · 2024Article
- Biological Characteristics and Pathogenesis of Monkeypox Virus: An Overview.Advances in experimental medicine and biology · 2024Review
- Real-time genomics for One Health.Molecular systems biology · 2023Review
- Nanopore sequencing technology and its applications.MedComm · 2023Review
- Clinical Strategies and Therapeutics for Human Monkeypox Virus: A Revised Perspective on Recent Outbreaks.Viruses · 2023Review
- MpoxRadar: a worldwide MPXV genomic surveillance dashboard.Nucleic acids research · 2023Article
- Clinical and laboratory diagnosis of monkeypox (mpox): Current status and future directions.iScience · 2023Review
- Applications of long-read sequencing to Mendelian genetics.Genome medicine · 2023Review
- Unlocking the Power of Nanopores: Recent Advances in Biosensing Applications and Analog Front-End.Biosensors · 2023Review
- Article
- Overview of Diagnostic Methods, Disease Prevalence and Transmission of Mpox (Formerly Monkeypox) in Humans and Animal Reservoirs.Microorganisms · 2023Review
- Complete Genome Sequences of Monkeypox Virus from a French Clinical Sample and the Corresponding Isolated Strain, Obtained Using Nanopore Sequencing.Microbiology resource announcements · 2023Article
- Perspective on the application of genome sequencing for monkeypox virus surveillance.Virologica Sinica · 2023Article
Corrections and comments
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Authors and funding
12 authors at 5 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Monkeypox is an emerging and neglected zoonotic disease whose number of reported cases has been gradually increasing in Central Africa since 1980. This disease is caused by the monkeypox virus (MPXV), which belongs to the genus Orthopoxvirus in the family Poxviridae. Obtaining molecular data is particularly useful for establishing the relationships between the viral strains involved in outbreaks in countries affected by this disease. In this study, we evaluated the use of the MinION real-time sequencer as well as different polishing tools on MinION-sequenced genome for sequencing the MPXV genome originating from a pustular lesion in the context of an epidemic in a remote area of the Central African Republic. The reads corresponding to the MPXV genome were identified using two taxonomic classifiers, Kraken2 and Kaiju. Assembly of these reads led to a complete sequence of 196,956 bases, which is 6322 bases longer than the sequence previously obtained with Illumina sequencing from the same sample. The comparison of the two sequences showed mainly indels at the homopolymeric regions. However, the combined use of Canu with specific polishing tools such as Medaka and Homopolish was the best combination that reduced their numbers without adding mismatches. Although MinION sequencing is known to introduce a number of characteristic errors compared to Illumina sequencing, the new polishing tools allow a better-quality MinION-sequenced genome, thus to be used to help determine strain origin through phylogenetic analysis.
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