ArticleScientific reports2019
Rapid Detection of Genetic Engineering, Structural Variation, and Antimicrobial Resistance Markers in Bacterial Biothreat Pathogens by Nanopore Sequencing.
Article in Scientific reports, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Antimicrobial resistance profiling and phenotypic characterization of archived clinicalMicrobiology spectrum · 2026Article
- Genetic Diversity and Spatial Distribution ofMicroorganisms · 2026Article
- Protective outcomes of high-affinity monoclonal antibodies against drug-resistant plague strains.Frontiers in immunology · 2026Article
- Molecular insights into antimicrobial resistance in human bacterial pathogens: mechanisms, resistance genes, and translational diagnostic applications.Frontiers in microbiology · 2026Review
- The need for adaptability in detection, characterization, and attribution of biosecurity threats.Nature communications · 2024Review
- Genetic basis of clarithromycin resistance inMicrobiology spectrum · 2024Article
- Synsor: a tool for alignment-free detection of engineered DNA sequences.Frontiers in bioengineering and biotechnology · 2024Article
- Study on the detection of anthrax by ICP-MS based on gold nanoparticle labeling.Technology and health care : official journal of the European Society for Engineering and Medicine · 2023Article
- Molecular Typing of UkrainianMicroorganisms · 2022Article
- Nanopore sequencing of cerebrospinal fluid of three patients with cryptococcal meningitis.European journal of medical research · 2022Article
- Evaluation of multiplex nanopore sequencing forFrontiers in microbiology · 2022Article
- Case report: a genomics-guided reclassification of a blood culture isolate misassigned by MALDI-TOF asAccess microbiology · 2022Article
- Beating the Bio-Terror Threat with Rapid Antimicrobial Susceptibility Testing.Microorganisms · 2021Review
- Reporter-Phage-Based Detection and Antibiotic Susceptibility Testing ofMicroorganisms · 2021Article
- Article
- Nanopore Sequencing Is a Credible Alternative to Recover Complete Genomes of Geminiviruses.Microorganisms · 2021Article
- Long-Reads-Based Metagenomics in Clinical Diagnosis With a Special Focus on Fungal Infections.Frontiers in microbiology · 2021Review
- Experimental approaches to tracking mobile genetic elements in microbial communities.FEMS microbiology reviews · 2020Review
- A Survey of Antimicrobial Resistance Determinants in Category A Select Agents, Exempt Strains, and Near-Neighbor Species.International journal of molecular sciences · 2020Article
- Rapid Nanopore Whole-Genome Sequencing for Anthrax Emergency Preparedness.Emerging infectious diseases · 2020Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Widespread release of Bacillus anthracis (anthrax) or Yersinia pestis (plague) would prompt a public health emergency. During an exposure event, high-quality whole genome sequencing (WGS) can identify genetic engineering, including the introduction of antimicrobial resistance (AMR) genes. Here, we developed rapid WGS laboratory and bioinformatics workflows using a long-read nanopore sequencer (MinION) for Y. pestis (6.5 h) and B. anthracis (8.5 h) and sequenced strains with different AMR profiles. Both salt-precipitation and silica-membrane extracted DNA were suitable for MinION WGS using both rapid and field library preparation methods. In replicate experiments, nanopore quality metrics were defined for genome assembly and mutation analysis. AMR markers were correctly detected and >99% coverage of chromosomes and plasmids was achieved using 100,000 raw sequencing reads. While chromosomes and large and small plasmids were accurately assembled, including novel multimeric forms of the Y. pestis virulence plasmid, pPCP1, MinION reads were error-prone, particularly in homopolymer regions. MinION sequencing holds promise as a practical, front-line strategy for on-site pathogen characterization to speed the public health response during a biothreat emergency.
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