Core genome multilocus sequence typing (cgMLST)
Hash Based Core Genome Multilocus Sequence Typing for Clostridium difficile
... to core genome multilocus sequence typing (cgMLST) in which alleles at each gene are reproducibly converted to a unique hash, or short string of letters ...replicate sequence ...
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Core Genome Multilocus Sequence Typing: a Standardized Approach for Molecular Typing of Mycoplasma gallisepticum
... on sequence analysis of 5 loci remains insufficient for accurate outbreak ...massive sequence data and the diverse properties of different genes within bacterial genomes results in a lack of standard ...
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Core Genome Multilocus Sequence Typing and Single Nucleotide Polymorphism Analysis in the Epidemiology of Brucella melitensis Infections
... molecular typing for outbreak tracing and genomic ...ence sequence analysis for Brucella melitensis, whereas gene-by-gene comparison through core-genome multilocus sequence ...
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Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Genome Wide Typing of Clostridium difficile
... and typing nomenclature are missing. Here we report a core genome multilocus sequence typing (cgMLST) approach developed for ...MLST sequence types with Bayesian inference ...
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A Core Genome Multilocus Sequence Typing Scheme for Enterococcus faecalis
... with genome sequences from the NCBI and SRA databases highlight the robustness of the selected target genes and thus the suitability of the scheme to investigate the relatedness of ...on core genome ...
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Defining and Evaluating a Core Genome Multilocus Sequence Typing Scheme for Whole Genome Sequence Based Typing of Listeria monocytogenes
... cgMLST of 33 isolates from the ACCO correctly identified the two different clones (ACCO I and ACCO II) that caused this out- break (Fig. 2). Within the ACCO I clone, nine isolates were ST403 and five were ST777, a single ...
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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 ...
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Core Genome Multilocus Sequence Typing Scheme for Stable, Comparative Analyses of Campylobacter jejuni and C coli Human Disease Isolates
... of sequence-based typing approaches, such as multilocus sequence typing (MLST), by substantially in- creasing the number of loci ...A core genome MLST (cgMLST) scheme de- ...
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Core Genome Multilocus Sequence Typing Scheme for High Resolution Typing of Enterococcus faecium
... To further evaluate the threshold of ⱕ 20 alleles difference for defining clonally related E. faecium isolates, the genetic relatedness of the 103 outbreak isolates with the 40 isolates used to build the cgMLST scheme ...
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Defining a Core Genome Multilocus Sequence Typing Scheme for the Global Epidemiology of Vibrio parahaemolyticus
... The suggested analysis starts with running a default cgMLST analysis with all of the V. parahaemolyticus genomes available in the database, and the new V. parahaemo- lyticus genomes being tested can be localized in the ...
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Determination of Accessory Gene Patterns Predicts the Same Relatedness among Strains of Streptococcus pneumoniae as Sequencing of Housekeeping Genes Does and Represents a Novel Approach in Molecular Epidemiology
... the core genome (multilocus sequence typing [MLST]), but these do not provide informa- tion on gene content that may affect the potential of isolates to cause invasive pneumococcal ...
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Whole Genome Multilocus Sequence Typing of Extended Spectrum Beta Lactamase Producing Enterobacteriaceae
... of core genome targets could be detected in the assembled genome was excluded from wgMLST ...of core genome targets present in the assembled ge- nomes was at least ...accessory ...
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The microbial ecology of Campylobacter jejuni in New Zealand within a spatial temporal framework : a thesis presented in partial fulfilment of requirements for the degree of Doctor of Philosophy in Veterinary Science at Massey University, Manawatu, New Zealand
... The multilocus sequence typing system uses an allelic profile based on loci that are part of the core genome and this has been used for source attribution [99] ...
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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 ...
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Multilocus Sequence Typing for Characterization of Staphylococcus pseudintermedius
... University, Genome Technology Core [Illumina technol- ogy] and the University of Florida Interdisciplinary Center for Biotechnology Research [Roche 454 technology]), with genomic DNA isolated from ...aureus ...
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A Trilocus Sequence Typing Scheme for Hospital Epidemiology and Subspecies Differentiation of an Important Nosocomial Pathogen, Enterococcus faecalis
... trilocus sequence typing (TLST) scheme based on intragenic regions of two antigenic genes, ace and salA (encoding a collagen/laminin adhesin and a cell wall-associated antigen, respec- tively), and a gene ...
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Development of a multilocus sequence typing scheme for the molecular typing of Mycoplasma pneumoniae
... Description of Mycoplasma pneumoniae strains used in this study, their sequence type ST and allelic profile, and their MLVA and P1 types.. Strains isolated from the same patient are indi[r] ...
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Multilocus Sequence Typing of Pathogenic Candida Species
... For C. dubliniensis, where so far only 50 isolates have been typed, the data indicated a purely clonal mode of reproduction (42). One notable feature of the first C. dubliniensis MLST study is the relative lack of SNP ...
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Multilocus Sequence Typing Scheme for Enterococcus faecium
... A multilocus sequence typing (MLST) scheme has been developed for Enterococcus ...62 sequence types were detected in vancomycin-sensitive ...
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Multilocus Sequence Typing System forCampylobacter jejuni
... Multilocus sequence typing (MLST) (20) has been success- ful in the characterization of several other bacteria (1, 8, 20, ...as multilocus enzyme electrophoresis (29), in that neutral genetic ...
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