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Typing Clostridium difficile strains based on tandem repeat sequences
N Henning Zaiß, Maja Rupnik, Ed J Kuijper, Celine Harmanus, Dolf Michielsen, Koen Janssens, Ulrich Nübel, 2009, izvirni znanstveni članek

Opis: Background: Genotyping of epidemic Clostridium difficile strains is necessary to track their emergence and spread. Portability of genotyping data is desirable to facilitate inter-laboratory comparisons and epidemiological studies. Results: This report presents results from a systematic screen for variation in repetitive DNA in the genome of C. difficile. We describe two tandem repeat loci, designated 'TR6' and 'TR10', which display extensive sequence variation that may be useful for sequence-based strain typing. Based on an investigation of 154 C. difficile isolates comprising 75 ribotypes, tandem repeat sequencing demonstrated excellent concordance with widely used PCR ribotyping and equal discriminatory power. Moreover, tandem repeat sequences enabled the reconstruction of the isolates' largely clonal population structure and evolutionary history. Conclusion: We conclude that sequence analysis of the two repetitive loci introduced here may be highly useful for routine typing of C. difficile. Tandem repeat sequence typing resolves phylogenetic diversity to a level equivalent to PCR ribotypes. DNA sequences may be stored in databases accessible over the internet, obviating the need for the exchange of reference strains.
Ključne besede: Clostridium difficile, microbiology, strain typing
Objavljeno: 29.06.2017; Ogledov: 734; Prenosov: 323
.pdf Celotno besedilo (792,24 KB)
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Diversity of spa types among MRSA isolates from Maribor University hospital
Božena Kotnik-Kevorkijan, Marija Klasinc, Slavica Lorenčič Robnik, Živa Petrovič, Maja Rupnik, 2009, izvirni znanstveni članek

Opis: Background: Typing of pathogens is an important part in control and preventionof health care-associated infections. For methilcillin-resistant S. aureus (MRSA) a new sequence-based and easily internationally comparable typing method, spa typing, was recently described. We have used this method to analyze the MRSA types present in our hospital and to compare them with types reported elsewhere. Methods: 63 MRSA strains isolated from patients in Maribor University Hospital (MUH) during the year 2006 were spa typed. Typing data were compared to the patient hospitalization data to detect possible spatial and temporal clusters. Results: Sixty-three MRSA strains were distributed into 12 spa types. Seven spa types were represented only by a single isolate. The three most prevalent types (t001, t288, t003) included 80 % of all strains. The most prevalent type, t001, was present in many differentwards and during entire year. This type is also one of the mostly isolated types worldwide. High prevalence of other two types seems to be associated with small scale transmission events. Conclusions: Most of the spa types present in MUH are well known and widespread also elsewhere in Slovenia, in other EU countries and worldwide. Typing has helped us to follow the introduction of different MRSA types to the hospital environment and to detect occasional transmissions.
Ključne besede: MRSA, typing, spa types, health care-associated infections
Objavljeno: 10.07.2015; Ogledov: 809; Prenosov: 71
.pdf Celotno besedilo (156,26 KB)
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