[PDF] Top 20 A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis
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A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis
... the scheme, a total of 146 E. faecalis isolates (Table S1) were selected from the strain collection of the German National Reference Centre (NRC) for Staphylococci and ...cgMLST scheme, a subset of ... See full document
12
Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Genome Wide Typing of Clostridium difficile
... reference sequence among all strains included; any addition of strains would result in novel SNV results, which could lead to conflicting results, as SNV typing does not rely on a fixed nomenclature but is ... See full document
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Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Whole Genome Sequence Based Typing of Listeria monocytogenes
... MLST and cgMLST both use alleles and not nucleotide poly- morphisms as units of comparison. Irrespective of the number of nucleotide polymorphisms involved, each allelic change is num- bered as a single event; i.e., an ... See full document
8
Phylogenetic Analysis of Mycobacterium tuberculosis Strains in Wales by Use of Core Genome Multilocus Sequence Typing To Analyze Whole Genome Sequencing Data
... whole- genome sequencing (WGS) has been a barrier to its widespread use in tuberculosis ...for core ge- nome multilocus sequence typing (cgMLST) analysis of whole-genome ... See full document
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Defining a Core Genome Multilocus Sequence Typing Scheme for the Global Epidemiology of Vibrio parahaemolyticus
... cgMLST scheme that allows for fast typing of ...cgMLST scheme was tested with a diverse set of strains belonging to the same or unrelated outbreaks and was able to differentiate them accordingly, ... See full document
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Core Genome Multilocus Sequence Typing and Single Nucleotide Polymorphism Analysis in the Epidemiology of Brucella melitensis Infections
... a typing approach that offers maximum resolution is particularly important for tracing the spread of a disease during an ...the typing methods, as polymorphisms can be discovered in both coding and ... See full document
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Core Genome Multilocus Sequence Typing: a Standardized Approach for Molecular Typing of Mycoplasma gallisepticum
... sensitivity) scheme kit ...SPAdes Genome Assembler (33) implemented within PATRIC from the pathosystems resource integration center (34) was used for assembly of 56 WGS reads, and the Velvet de novo ... See full document
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Epidemiological Typing of Serratia marcescens Isolates by Whole Genome Multilocus Sequence Typing
... Next-generation sequencing (NGS) is becoming very popular in clinical microbiology (20, 21), but wgMLST for S. marcescens has not yet been described. WGS has been used to study S. marcescens virulence after wound ... See full document
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Hash Based Core Genome Multilocus Sequence Typing for Clostridium difficile
... ence genome offers high precision (1), but despite efforts to optimize computational approaches (2) it is relatively ...whole genome as 500 hash strings selected on the basis of sorted hash strings) can ... See full document
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Multilocus Sequence Typing Scheme for Enterococcus faecalis Reveals Hospital Adapted Genetic Complexes in a Background of High Rates of Recombination
... and sequence type ...different sequence, in accordance with the E. faecalis MLST database ...or sequence type (ST) was assigned in the order gdh, gyd, pstS, gki, aroE, xpt, and yqiL to a total ... See full document
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Genomic analysis of multidrug-resistant clinical Enterococcus faecalis isolates for antimicrobial resistance genes and virulence factors from the western region of Saudi Arabia
... whole genome sequencing were filtered according to the read ...and sequence reads were mapped to clinical isolate E. faecalis reference genome ...the core genomes and were used to ... See full document
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Rapid Whole Genome Sequencing for Detection and Characterization of Microorganisms Directly from Clinical Samples
... the sequence data was ...identification, multilocus sequence typing, and phylogenetic relationships for Escherichia coli and Enterococcus faecalis isolates when the results of ... See full document
9
Core Genome Multilocus Sequence Typing Scheme for High Resolution Typing of Enterococcus faecium
... century, multilocus sequence typing (MLST) has been used to study the molecular epidemiology of ...a core genome MLST (cgMLST) scheme for ...transfers genome-wide single ... See full document
10
Core Genome Multilocus Sequence Typing Scheme for Stable, Comparative Analyses of Campylobacter jejuni and C coli Human Disease Isolates
... a core genome ...the core genome those genes that are present in all isolates, is problematic, first, because all isolates are potential mutants, resulting in a progressive reduction in ... See full document
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A Trilocus Sequence Typing Scheme for Hospital Epidemiology and Subspecies Differentiation of an Important Nosocomial Pathogen, Enterococcus faecalis
... of multilocus sequence typing, pulsed-field gel electro- phoresis, and antimicrobial susceptibility typing for characterization of Sal- monella enterica serotype Newport ...terococcus ... See full document
7
Development of a Multilocus Sequence Typing Scheme for the Opportunistic Pathogen Pseudomonas aeruginosa
... PAO1 genome database ...insertion sequence elements), and suitability for nested primer design and se- quence diversity (ideally, the possession of conserved domains flanking a variable central ...MLST ... See full document
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Evaluation of a Stenotrophomonas maltophilia bacteremia cluster in hematopoietic stem cell transplantation recipients using whole genome sequencing
... Methods: For epidemiological investigation we retrospectively identified the colonization status of patients admitted to the ward during this time period and performed environmental monitoring of shower heads, shower ... See full document
5
Multilocus Sequence Typing of Total Genome Sequenced Bacteria
... short sequence reads are, in a first step, assembled to draft genomes as described in Materials and ...preassembled genome. The minimum requirement for a partial genome is that it contain all the ... See full document
7
Multilocus Sequence Typing of Mycoplasma hyorhinis Strains Identified by a Real Time TaqMan PCR Assay
... M ycoplasmas are commonly described as the simplest and smallest self-replicating bacteria because of their total lack of a cell wall, the paucity of their metabolic pathways, and the small size of their genome ... See full document
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Genomic Signature of Multidrug Resistant Salmonella enterica Serovar Typhi Isolates Related to a Massive Outbreak in Zambia between 2010 and 2012
... ibility group Q1 (IncQ1) plasmid replicon, the class 1 integron, and the mer operon. The genomic analysis revealed 415 SNP dif- ferences overall and 35 deletions among 33 of the isolates subjected to whole-genome ... See full document
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