ArticleJournal of virological methods2021
MinION nanopore sequencing and assembly of a complete human papillomavirus genome.
Article in Journal of virological methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed.
- MinION Adapted tNGS Panel for Carnivore Pathogens Including SARS-CoV-2.Pathogens (Basel, Switzerland) · 2025Article
- Scalable long-read nanopore HPV16 amplicon-based whole-genome sequencing.Scientific reports · 2025Article
- Optimization of DNA extraction methods from pig farm wastewater for pathogen detection using metagenomic sequencing.Microbial genomics · 2025Article
- Review
- Rapid diagnosis of a fox's death case using nanopore sequencing reveals the infection with an Artic-like rabies virus.Virologica Sinica · 2024Article
- Long-read sequencing reveals the structural complexity of genomic integration of HPV DNA in cervical cancer cell lines.BMC genomics · 2024Article
- Genetic Characterization of Raspberry Bushy Dwarf Virus Isolated from Red Raspberry in Kazakhstan.Viruses · 2023Article
- Multiple HPV integration mode in the cell lines based on long-reads sequencing.Frontiers in microbiology · 2023Article
- Comparison ofFrontiers in microbiology · 2023Article
- Fully resolved assembly of Cryptosporidium parvum.GigaScience · 2022Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
backgroundThe MinION sequencer belongs to the third generation of sequencing technology that allows for the generation of ultra-long reads, representing a potentially more effective approach to characterize entire viral genome sequences than other time-consuming and low-throughput methodologies.
methodsWe report the use of the MinION nanopore sequencer to sequence the full-length genome of human papillomavirus (HPV)-ICB2 (7441 bp), which was previously characterized in our laboratory. Three independent MinION libraries were prepared and sequenced using either three consecutive 12 -h runs (Protocol A) or a single run of 48 h starting from a pool of three barcoded DNA libraries (Protocol B). A fully automated bioinformatics pipeline was developed for the reconstruction of the viral genome.
resultsProtocols A and B generated 9,354,933 and 3,255,879 reads, respectively. Read length N50 values ranged between 6976 and 7360 nucleotides over the four sequencing runs. Bioinformatics analysis showed that both protocols allowed for the reconstruction of the whole viral genome, with pairwise percentages of identity to HPV-ICB2 of 100 % for protocol A and 99.98 % for protocol B.
conclusionOur results show that the use of the MinION nanopore sequencer represents an effective strategy for whole-genome sequencing of HPVs with a minimal error rate.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the Socratic graph.