In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing
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Cites methods from "In Silico Detection and Typing of P..."
...Plasmid MLST was performed using the service provided by the Centre for Genomic Epidemiology (CGE) [29]....
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...Plasmid replicon typing was confirmed using PlasmidFinder [29]....
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...Plasmid MLST utilising the I1 pMLST scheme [33] identifies only the ardA_2 allele as part of the I1 plasmid backbone present on each plasmid. es ite ei is late a r i t l e rs a art, S 32-108 (108,065 ) a S 37-118 ( ,115 ) r r i ti l t Z plasmids pO26-CRL125 - 115 ( i r ). l s i s - and pSTM37- 18 carry repZY from Z plasmids, det ctable by PlasmidFinder as a B/O/K/Z plasmid at 95% identity....
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...Plasmids pSTM32-108 and pSTM37-118 carry repZY from Z plasmids, detectable by PlasmidFinder as a B/O/K/Z plasmid at 95% identity....
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References
3,956 citations
"In Silico Detection and Typing of P..." refers methods in this paper
...To extract the relevant information from the large amount of data generated, a Web-based tool, ResFinder, for the identification of acquired or intrinsically present antimicrobial resistance genes in whole-genome data was recently developed (15)....
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2,934 citations
"In Silico Detection and Typing of P..." refers background in this paper
...In particular, the replicase proteins showing the pfam02387 or pfam01051 conserved domains were assigned to the FII and FIB groups, respectively (31)....
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2,163 citations
"In Silico Detection and Typing of P..." refers methods in this paper
...A collection of 24 previously characterized and fully FIG 1 Numbers of fully sequenced plasmids (y axis) classified into incompatibility groups occurring in the different bacterial species of the Enterobacteriaceae family....
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...Since 2005, a PCR-based replicon typing (PBRT) scheme has been available that targets in multiplex PCRs the replicons of the major plasmid families occurring in members of the family Enterobacteriaceae (2)....
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...Here, we present two free, easy-to-use Web tools, PlasmidFinder and pMLST, to analyze and classify plasmids from bacterial species of the family Enterobacteriaceae....
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...Here, we describe the design of two new easy-to-use Web tools useful for the rapid identification of plasmids in Enterobacteriaceae species that are of interest for epidemiological and clinical microbiology investigations of the plasmid-associated spread of antimicrobial resistance....
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...This method was initially developed to detect the replicons of plasmids belonging to the 18 major incompatibility (Inc) groups of Enterobacteriaceae species (3)....
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1,943 citations
1,620 citations
"In Silico Detection and Typing of P..." refers methods in this paper
...If raw sequence reads are uploaded, they are first assembled (after the sequencing platform is given by the user) as described previously (16)....
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