In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing
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Summary
Two easy-to-use Web tools for in silico detection and characterization of whole-genome sequence (WGS) and whole-plasmid sequence data from members of the family Enterobacteriaceae are designed and developed.
- Type
- article
- Published
- 2014-04-28
- Cited by
- 4,190
- References
- 34
- Access
- Open access
- OpenAlex
- https://openalex.org/W2143325926
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:220468416
Keywords
Replicon, Plasmid, Biology, Multilocus sequence typing, Genetics
References
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- Identification and classification of bacterial plasmids.
- Expansion of the IncX plasmid family for improved identification and typing of novel plasmids in drug-resistant Enterobacteriaceae.
- Mobilizable narrow host range plasmids as natural suicide vectors enabling horizontal gene transfer among distantly related bacterial species.
- Characterization of an IncFII Plasmid Encoding NDM-1 from Escherichia coli ST131
- Variation in Salmonella enterica Serovar Typhi IncHI1 Plasmids during the Global Spread of Resistant Typhoid Fever
- CDD: a Conserved Domain Database for the functional annotation of proteins
- A Degenerate Primer MOB Typing (DPMT) Method to Classify Gamma-Proteobacterial Plasmids in Clinical and Environmental Settings
- BIGSdb: Scalable analysis of bacterial genome variation at the population level
- Antimicrobial resistance islands: resistance gene clusters in Salmonella chromosome and plasmids.
- The complete nucleotide sequence of the resistance plasmid R478: defining the backbone components of incompatibility group H conjugative plasmids through comparative genomics.
- Compatibility Groups among fi− R Factors
- Identification of plasmids by PCR-based replicon typing.
- Complete Sequence of the IncT-Type Plasmid pT-OXA-181 Carrying the blaOXA-181 Carbapenemase Gene from Citrobacter freundii
- Klebsiella pneumoniae ST258 Producing KPC-3 Identified in Italy Carries Novel Plasmids and OmpK36/OmpK35 Porin Variants
- Complete Sequence and Molecular Epidemiology of IncK Epidemic Plasmid Encoding blaCTX-M-14
- Complete Nucleotide Sequences of Plasmids pEK204, pEK499, and pEK516, Encoding CTX-M Enzymes in Three Major Escherichia coli Lineages from the United Kingdom, All Belonging to the International O25:H4-ST131 Clone
- Analysis of the Resistome of a Multidrug-Resistant NDM-1-Producing Escherichia coli Strain by High-Throughput Genome Sequencing
- Characterization of IncN plasmids carrying bla CTX-M-1 and qnr genes in Escherichia coli and Salmonella from animals, the environment and humans.
Cited by
- Draft Genome Sequence of a Clinical Isolate of Serratia marcescens, Strain AH0650_Sm1
- Whole-Genome Sequence of Enteractinococcus helveticum sp. nov. Strain UASWS1574 Isolated from Industrial Used Waters
- Frequent acquisition of low-virulence strains of ESBL-producing Escherichia coli in travellers.
- Draft genome sequence of an O25:H4-ST131 Escherichia coli harbouring blaNDM-1 on an IncHI3 plasmid: A first report.
- Genome Dynamics of Escherichia coli during Antibiotic Treatment: Transfer, Loss, and Persistence of Genetic Elements In situ of the Infant Gut
- A Primer on Infectious Disease Bacterial Genomics
- Genomic Analysis of Third Generation Cephalosporin Resistant Escherichia coli from Dairy Cow Manure
- Complete Genome Sequence of a blaCTX-M-1-Harboring Escherichia coli Isolate Recovered from Cattle in Germany
- Emergence of an Extensively Drug-Resistant Salmonella enterica Serovar Typhi Clone Harboring a Promiscuous Plasmid Encoding Resistance to Fluoroquinolones and Third-Generation Cephalosporins
- Predictors of the extended-spectrum-beta lactamases producing Enterobacteriaceae neonatal sepsis at a tertiary hospital, Tanzania
- Closed Genome and Comparative Phylogenetic Analysis of the Clinical Multidrug Resistant Shigella sonnei Strain 866
- ARGDIT: a validation and integration toolkit for Antimicrobial Resistance Gene Databases
- Transcriptional Landscape of a blaKPC-2 Plasmid and Response to Imipenem Exposure in Escherichia coli TOP10
- Complete Genome Sequence of a Salmonella enterica subsp. enterica Serovar Fresno Isolate Recovered from a Bovine Lymph Node
- Whole-genome sequencing of the rare Salmonella enterica serovar Anfo isolated from food handlers.
- Microevolution of antimicrobial resistance and biofilm formation of Salmonella Typhimurium during persistence on pig farms
- Complete Genome and Plasmids Sequences of a Clinical Proteus mirabilis Isolate Producing Plasmid Mediated NDM-1 From Italy
- Genomic insights into evolution of pathogenicity and resistance of multidrug‐resistant Raoultella ornithinolytica WM1
- The Role of Antibiotic Resistance Genes in the Fitness Cost of Multiresistance Plasmids
- Plasmid Diversity and Adaptation Analyzed by Massive Sequencing of Escherichia coli Plasmids
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