ArticleGenome research2008
Rapid comparative genomic analysis for clinical microbiology: the Francisella tularensis paradigm.
Article in Genome research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
21 citing papers in PubMed, 45 citations in OpenAlex.
- Non-vaccinal prophylaxis of tularemia.Frontiers in microbiology · 2024Review
- Tularemia treatment: experimental and clinical data.Frontiers in microbiology · 2023Review
- Strengthening the genomic surveillance ofFrontiers in microbiology · 2023Article
- A Survey of Antimicrobial Resistance Determinants in Category A Select Agents, Exempt Strains, and Near-Neighbor Species.International journal of molecular sciences · 2020Article
- Evolution of Antibiotic Resistance in Surrogates ofFrontiers in microbiology · 2020Article
- Characterization of a Francisella tularensis-Caenorhabditis elegans Pathosystem for the Evaluation of Therapeutic Compounds.Antimicrobial agents and chemotherapy · 2017Article
- Functional Characterization of the DNA Gyrases in Fluoroquinolone-Resistant Mutants of Francisella novicida.Antimicrobial agents and chemotherapy · 2017Article
- Long-range dispersal movedMicrobial genomics · 2016Article
- Article
- A new dye uptake assay to test the activity of antibiotics against intracellular Francisella tularensis.Frontiers in cellular and infection microbiology · 2014Article
- Draft genome sequence of Francisella tularensis subsp. holarctica BD11-00177.Standards in genomic sciences · 2013Article
- Treatment of tularemia in patient with chronic graft-versus-host disease.Emerging infectious diseases · 2013Article
- German Francisella tularensis isolates from European brown hares (Lepus europaeus) reveal genetic and phenotypic diversity.BMC microbiology · 2013Article
- Article
- Genome sequence of Francisella tularensis subspecies holarctica strain FSC200, isolated from a child with tularemia.Journal of bacteriology · 2012Article
- Evidence of circulation of an epidemic strain of Francisella tularensis in France by multispacer typing.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2011Article
- Accurate, rapid and high-throughput detection of strain-specific polymorphisms in Bacillus anthracis and Yersinia pestis by next-generation sequencing.Investigative genetics · 2010Article
- Rapid identification of genetic modifications in Bacillus anthracis using whole genome draft sequences generated by 454 pyrosequencing.PloS one · 2010Article
- High throughput sequencing and proteomics to identify immunogenic proteins of a new pathogen: the dirty genome approach.PloS one · 2009Article
- Genomic analysis of an emerging multiresistant Staphylococcus aureus strain rapidly spreading in cystic fibrosis patients revealed the presence of an antibiotic inducible bacteriophage.Biology direct · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
It is critical to avoid delays in detecting strain manipulations, such as the addition/deletion of a gene or modification of genes for increased virulence or antibiotic resistance, using genome analysis during an epidemic outbreak or a bioterrorist attack. Our objective was to evaluate the efficiency of genome analysis in such an emergency context by using contigs produced by pyrosequencing without time-consuming finishing processes and comparing them to available genomes for the same species. For this purpose, we analyzed a clinical isolate of Francisella tularensis subspecies holarctica (strain URFT1), a potential biological weapon, and compared the data obtained with available genomic sequences of other strains. The technique provided 1,800,530 bp of assembled sequences, resulting in 480 contigs. We found by comparative analysis with other strains that all the gaps but one in the genome sequence were caused by repeats. No new genes were found, but a deletion was detected that included three putative genes and part of a fourth gene. The set of 35 candidate LVS virulence attenuation genes was identified, as well as a DNA gyrase mutation associated with quinolone resistance. Selection for variable sequences in URFT1 allowed the design of a strain-specific, highly effective typing system that was applied to 74 strains and six clinical specimens. The analysis presented herein may be completed within approximately 6 wk, a duration compatible with that required by an urgent context. In the bioterrorism context, it allows the rapid detection of strain manipulation, including intentionally added virulence genes and genes that support antibiotic resistance.
Indexed as
Identifiers
What OpenQuestion holds
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.