Short-Term Genome Stability of Serial Clostridium difficile Ribotype 027 Isolates in an Experimental Gut Model and Recurrent Human DiseaseReportar como inadecuado




Short-Term Genome Stability of Serial Clostridium difficile Ribotype 027 Isolates in an Experimental Gut Model and Recurrent Human Disease - Descarga este documento en PDF. Documentación en PDF para descargar gratis. Disponible también para leer online.

Background

Clostridium difficile whole genome sequencing has the potential to identify related isolates, even among otherwise indistinguishable strains, but interpretation depends on understanding genomic variation within isolates and individuals.

Methods

Serial isolates from two scenarios were whole genome sequenced. Firstly, 62 isolates from 29 timepoints from three in vitro gut models, inoculated with a NAP1-027 strain. Secondly, 122 isolates from 44 patients 2–8 samples-patient with mostly recurrent-on-going symptomatic NAP-1-027 C. difficile infection. Reference-based mapping was used to identify single nucleotide variants SNVs.

Results

Across three gut model inductions, two with antibiotic treatment, total 137 days, only two new SNVs became established. Pre-existing minority SNVs became dominant in two models. Several SNVs were detected, only present in the minority of colonies at one-two timepoints. The median inter-quartile range range time between patients’ first and last samples was 60 29.5–118.5 0–561 days. Within-patient C. difficile evolution was 0.45 SNVs-called genome-year 95%CI 0.00–1.28 and within-host diversity was 0.28 SNVs-called genome 0.05–0.53. 26-28 gut model and patient SNVs were non-synonymous, affecting a range of gene targets.

Conclusions

The consistency of whole genome sequencing data from gut model C. difficile isolates, and the high stability of genomic sequences in isolates from patients, supports the use of whole genome sequencing in detailed transmission investigations.



Autor: David W. Eyre , A. Sarah Walker, Jane Freeman, Simon D. Baines, Warren N. Fawley, Caroline H. Chilton, David Griffiths, Alison Va

Fuente: http://plos.srce.hr/



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