ArticleFrontiers in microbiology2023
Impact of nanopore-based metagenome sequencing on tick-borne virus detection.
Article in Frontiers in microbiology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers, 1 of them a synthesis that pooled it.
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Who cites it
16 citing papers in PubMed, 1 synthesis or guideline pooled it, 14 citations in OpenAlex.
- African tick-borne viruses: A systematic review of diversity, epidemiology, clinical impact, and one health strategies.Veterinary research communications · 2026Pooled it
- Neotropical bats as sentinels for emerging zoonoses in Central America: A case study identifying Trypanosoma cruzi in bats from Belize using metagenomic next-generation sequencing.PLoS neglected tropical diseases · 2026Article
- Article
- High throughput sequencing in the diagnosis and surveillance of tick-borne diseases: A narrative review.One health (Amsterdam, Netherlands) · 2026Review
- Application of nanopore adaptive sampling for metagenomic detection of tick-borne RNA viruses.Scientific reports · 2026Article
- Metagenomic profiling unveils the viral diversity in field-collected Aedes larvae from Central India employing nanopore sequencing.Scientific reports · 2026Article
- Current status and prospects of nanopore sequencing technology in the detection of pathogenic microorganisms.Frontiers in microbiology · 2026Review
- Challenges in combating tick-borne disease transmissions in India: Emphasizing the importance of a one-health approach.One health (Amsterdam, Netherlands) · 2025Review
- UnmaskingInternational journal for parasitology. Parasites and wildlife · 2025Review
- Striking tick-borne virus diversity and potential reservoirs documented during One-Health-based cross-sectional screening in Anatolia.Parasites & vectors · 2025Article
- Distribution ofParasite epidemiology and control · 2025Review
- Nanopore sequencing in veterinary medicine: from concepts to clinical applications.Frontiers in cellular and infection microbiology · 2025Review
- Detection and Molecular Characterization of Kobuviruses: An Agent of Canine Viral Diarrhea.Current microbiology · 2024Article
- Natural History Studies, a Natural Next Step to Study Emerging Transfusion-Transmitted Infections.Transfusion medicine reviews · 2024Article
- The expanding range of emerging tick-borne viruses in Eastern Europe and the Black Sea Region.Scientific reports · 2023Article
- Endogenous Viral Elements in Ixodid Tick Genomes.Viruses · 2023Article
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Authors and funding
15 authors at 12 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Introduction: We evaluated metagenomic nanopore sequencing (NS) in field-collected ticks and compared findings from amplification-based assays. Methods: Forty tick pools collected in Anatolia, Turkey and screened by broad-range or nested polymerase chain reaction (PCR) for Crimean-Congo Hemorrhagic Fever Virus (CCHFV) and Jingmen tick virus (JMTV) were subjected to NS using a standard, cDNA-based metagenome approach. Results: Eleven viruses from seven genera/species were identified. Miviruses Bole tick virus 3 and Xinjiang mivirus 1 were detected in 82.5 and 2.5% of the pools, respectively. Tick phleboviruses were present in 60% of the pools, with four distinct viral variants. JMTV was identified in 60% of the pools, where only 22.5% were PCR-positive. CCHFV sequences characterized as Aigai virus were detected in 50%, where only 15% were detected by PCR. NS produced a statistically significant increase in detection of these viruses. No correlation of total virus, specific virus, or targeted segment read counts was observed between PCR-positive and PCR-negative samples. NS further enabled the initial description of Quaranjavirus sequences in ticks, where human and avian pathogenicity of particular isolates had been previously documented. Discussion: NS was observed to surpass broad-range and nested amplification in detection and to generate sufficient genome-wide data for investigating virus diversity. It can be employed for monitoring pathogens in tick vectors or human/animal clinical samples in hot-spot regions for examining zoonotic spillover.
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