ArticlePloS one2012
A degenerate primer MOB typing (DPMT) method to classify gamma-proteobacterial plasmids in clinical and environmental settings.
Article in PloS one, 2012. 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.
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Who cites it
50 citing papers in PubMed, 1 synthesis or guideline pooled it, 98 citations in OpenAlex.
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- MOBFinder: a tool for mobilization typing of plasmid metagenomic fragments based on a language model.GigaScience · 2024Article
- Systematic analysis of plasmids of theMicrobial genomics · 2023Article
- Lociq provides a loci-seeking approach for enhanced plasmid subtyping and structural characterization.Communications biology · 2023Article
- A global survey ofMicrobial genomics · 2023Article
- Quantification of the mobility potential of antibiotic resistance genes through multiplexed ddPCR linkage analysis.FEMS microbiology ecology · 2023Article
- Plasmid content of carbapenem resistantFrontiers in cellular and infection microbiology · 2023Article
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- Prevalence and genetic diversity ofFrontiers in microbiology · 2022Article
- Approaches for characterizing and tracking hospital-associated multidrug-resistant bacteria.Cellular and molecular life sciences : CMLS · 2021Review
- Outbreak of multi-drug-resistant (MDR) Shigella flexneri in northern Australia due to an endemic regional clone acquiring an IncFII plasmid.European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology · 2021Article
- Whole Genome Analysis of EnvironmentalGenes · 2021Article
- Antibiotic resistance: Time of synthesis in a post-genomic age.Computational and structural biotechnology journal · 2021Review
- Molecular Characteristics of Extraintestinal PathogenicMicroorganisms · 2020Article
- Universal whole-sequence-based plasmid typing and its utility to prediction of host range and epidemiological surveillance.Microbial genomics · 2020Article
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transmissible plasmids are responsible for the spread of genetic determinants, such as antibiotic resistance or virulence traits, causing a large ecological and epidemiological impact. Transmissible plasmids, either conjugative or mobilizable, have in common the presence of a relaxase gene. Relaxases were previously classified in six protein families according to their phylogeny. Degenerate primers hybridizing to coding sequences of conserved amino acid motifs were designed to amplify related relaxase genes from γ-Proteobacterial plasmids. Specificity and sensitivity of a selected set of 19 primer pairs were first tested using a collection of 33 reference relaxases, representing the diversity of γ-Proteobacterial plasmids. The validated set was then applied to the analysis of two plasmid collections obtained from clinical isolates. The relaxase screening method, which we call "Degenerate Primer MOB Typing" or DPMT, detected not only most known Inc/Rep groups, but also a plethora of plasmids not previously assigned to any Inc group or Rep-type.
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