In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing
Citations
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Cites methods from "In Silico Detection and Typing of P..."
...Plasmid C3026 is circular and 213924 base pairs long, suggesting that contigs identified by PlasmidFinder in this study represent only a fragment of a longer IncF plasmid....
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...Assembled contigs were submitted to the Center for Genomic Epidemiology’s PlasmidFinder (Carattoli et al., 2014) to determine existing plasmid replicon types....
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...14 and 16 kb) from the assembled genome by PlasmidFinder (Carattoli et al., 2014) as carrying the initiation of replication (Rep) protein for IncFIC (FII) and IncFIA plasmids, respectively....
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...Two contigs were identified (ca. 14 and 16 kb) from the assembled genome by PlasmidFinder (Carattoli et al., 2014) as carrying the initiation of replication (Rep) protein for IncFIC (FII) and IncFIA plasmids, respectively....
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8 citations
8 citations
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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