ArticleJournal of clinical microbiology2017
High-Throughput Next-Generation Sequencing of Polioviruses.
Article in Journal of clinical microbiology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 50 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
50 citing papers in PubMed, 1 synthesis or guideline pooled it, 68 citations in OpenAlex.
- A systematic review of FTA cards® as a tool for viral RNA preservation in fieldwork: Are they safe and effective?Preventive veterinary medicine · 2019Pooled it
- The African Polio Laboratory Network: Advancing Regional Poliovirus Detection, Genomic Surveillance, and Eradication.Vaccines · 2026Article
- Illumina MiSeq and iSeq platforms yield comparable results for viral genomic sequencing.Journal of virological methods · 2025Article
- IBDV-SSA, a novel molecular approach for the recovery of infectious bursal disease virus whole genomes from FTA cards.Microbiology spectrum · 2025Article
- Genome Announcement of Four Parechovirus A3 Isolates from the United States of America.International journal of molecular sciences · 2025Article
- Sporadic detection of vaccine-derived poliovirus type 2 using next-generation sequencing in Canadian wastewater in August of 2022.Scientific reports · 2025Article
- Retrospective Genotyping of Enteroviruses Using a Diagnostic Nanopore Sequencing Workflow.Pathogens (Basel, Switzerland) · 2024Article
- Molecular epidemiology of enteroviruses from Guatemalan wastewater isolated from human lung fibroblasts.PloS one · 2024Article
- Laboratory diagnosis of nonpolio enteroviruses: A review of the current literature.Biosafety and health · 2023Review
- Nearly Complete Genome Sequences of Type 2 Sabin-Like Polioviruses from Northern Nigerian Poliovirus Surveillance, 2016 to 2018.Microbiology resource announcements · 2023Article
- Metagenomic sequencing, molecular characterization, and Bayesian phylogenetics of imported type 2 vaccine-derived poliovirus, Spain, 2021.Frontiers in cellular and infection microbiology · 2023Article
- Improvements in metagenomic virus detection by simple pretreatment methods.Journal of clinical virology plus · 2022Article
- Genome Sequences of 16 Enterovirus Isolates from Environmental Sewage in Guatemala, 2019 to 2021.Microbiology resource announcements · 2022Article
- Genetic characterization of upper respiratory tract virome from nonvaccinated Egyptian cow-calf operations.PloS one · 2022Article
- Whole-Genome Sequences of Enteroviruses D94 and D111 Isolated from Stool Specimens in Angola.Microbiology resource announcements · 2021Article
- Intertypic reassortment of mammalian orthoreovirus identified in wastewater in Japan.Scientific reports · 2021Article
- Detection of Human Sapoviruses in Sewage in China by Next Generation Sequencing.Food and environmental virology · 2021Article
- High-throughput Sequencing in Vaccine Research.Journal of veterinary research · 2021Article
- Multiple Respiratory Syncytial Virus Introductions Into a Neonatal Intensive Care Unit.Journal of the Pediatric Infectious Diseases Society · 2021Article
- The Early Evolution of Oral Poliovirus Vaccine Is Shaped by Strong Positive Selection and Tight Transmission Bottlenecks.Cell host & microbe · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
17 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The poliovirus (PV) is currently targeted for worldwide eradication and containment. Sanger-based sequencing of the viral protein 1 (VP1) capsid region is currently the standard method for PV surveillance. However, the whole-genome sequence is sometimes needed for higher resolution global surveillance. In this study, we optimized whole-genome sequencing protocols for poliovirus isolates and FTA cards using next-generation sequencing (NGS), aiming for high sequence coverage, efficiency, and throughput. We found that DNase treatment of poliovirus RNA followed by random reverse transcription (RT), amplification, and the use of the Nextera XT DNA library preparation kit produced significantly better results than other preparations. The average viral reads per total reads, a measurement of efficiency, was as high as 84.2% ± 15.6%. PV genomes covering >99 to 100% of the reference length were obtained and validated with Sanger sequencing. A total of 52 PV genomes were generated, multiplexing as many as 64 samples in a single Illumina MiSeq run. This high-throughput, sequence-independent NGS approach facilitated the detection of a diverse range of PVs, especially for those in vaccine-derived polioviruses (VDPV), circulating VDPV, or immunodeficiency-related VDPV. In contrast to results from previous studies on other viruses, our results showed that filtration and nuclease treatment did not discernibly increase the sequencing efficiency of PV isolates. However, DNase treatment after nucleic acid extraction to remove host DNA significantly improved the sequencing results. This NGS method has been successfully implemented to generate PV genomes for molecular epidemiology of the most recent PV isolates. Additionally, the ability to obtain full PV genomes from FTA cards will aid in facilitating global poliovirus surveillance.
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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 OpenQuestion graph.