ArticlePloS one2009
A real-time PCR array for hierarchical identification of Francisella isolates.
Article in PloS one, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed, 85 citations in OpenAlex.
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- Detection of Francisellaceae and the differentiation of main European F. tularensis ssp. holarctica strains (Clades) by new designed qPCR assays.BMC microbiology · 2025Article
- Virulence and genome analysis of three historicalFrontiers in cellular and infection microbiology · 2025Article
- Ulceroglandular form of tularemia after squirrel bite: a case report.Journal of medical case reports · 2022Article
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- Genotyping ofMicroorganisms · 2020Article
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- Tularemia Goes West: Epidemiology of an Emerging Infection in Austria.Microorganisms · 2020Review
- Review
- Differentiation of Francisella tularensis Subspecies and Subtypes.Journal of clinical microbiology · 2020Article
- Ecology ofAnnual review of entomology · 2020Review
- Molecular identification of the source of an uncommon tularaemia outbreak, Germany, autumn 2016.Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin · 2019Article
- Phylogeographic Distribution of Human and HareFrontiers in cellular and infection microbiology · 2019Article
- Genetic Diversity and Spatial Segregation ofFrontiers in cellular and infection microbiology · 2019Article
- Variant site strain typer (VaST): efficient strain typing using a minimal number of variant genomic sites.BMC bioinformatics · 2018Article
- Tularemia in Germany-A Re-emerging Zoonosis.Frontiers in cellular and infection microbiology · 2018Review
- Phylogenetic Lineages ofFrontiers in cellular and infection microbiology · 2018Review
- Environmental Surveillance of ZoonoticFrontiers in cellular and infection microbiology · 2018Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A robust, rapid and flexible real-time PCR assay for hierarchical genetic typing of clinical and environmental isolates of Francisella is presented. Typing markers were found by multiple genome and gene comparisons, from which 23 canonical single nucleotide polymorphisms (canSNPs) and 11 canonical insertion-deletion mutations (canINDELs) were selected to provide phylogenetic guidelines for classification from genus to isolate level. The specificity of the developed assay, which uses 68 wells of a 96-well real-time PCR format with a detection limit of 100 pg DNA, was assessed using 62 Francisella isolates of diverse genetic and geographical origins. It was then successfully used for typing 14 F. tularensis subsp. holarctica isolates obtained from tularemia patients in Sweden in 2008 and five more genetically diverse Francisella isolates of global origins. When applied to human ulcer specimens for direct pathogen detection the results were incomplete due to scarcity of DNA, but sufficient markers were identified to detect fine-resolution differences among F. tularensis subsp. holarctica isolates causing infection in the patients. In contrast to other real-time PCR assays for Francisella, which are typically designed for specific detection of a species, subspecies, or strain, this type of assay can be easily tailored to provide appropriate phylogenetic and/or geographical resolution to meet the objectives of the analysis.
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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.