ORCID Profile
0000-0002-2303-5957
Current Organisation
University of Oxford
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Publisher: American Society for Microbiology
Date: 03-2010
DOI: 10.1128/JCM.01796-09
Abstract: A robust high-throughput multilocus sequence typing (MLST) scheme for Clostridium difficile was developed and validated using a erse collection of 50 reference isolates representing 45 different PCR ribotypes and 102 isolates from recent clinical s les. A total of 49 PCR ribotypes were represented overall. All isolates were typed by MLST and yielded 40 sequence types (STs). A web-accessible database was set up ( difficile/ ) to facilitate the dissemination and comparison of C. difficile MLST genotyping data among laboratories. MLST and PCR ribotyping were similar in discriminatory abilities, having indices of discrimination of 0.90 and 0.92, respectively. Some STs corresponded to a single PCR ribotype (32/40), other STs corresponded to multiple PCR ribotypes (8/40), and, conversely, the PCR ribotype was not always predictive of the ST. The total number of variable nucleotide sites in the concatenated MLST sequences was 103/3,501 (2.9%). Concatenated MLST sequences were used to construct a neighbor-joining tree which identified four phylogenetic groups of STs and one outlier (ST-11 PCR ribotype 078). These groups apparently correlate with clades identified previously by comparative genomics. The MLST scheme was sufficiently robust to allow direct genotyping of C. difficile in total stool DNA extracts without isolate culture. The direct (nonculture) MLST approach may prove useful as a rapid genotyping method, potentially benefiting in idual patients and informing hospital infection control.
Publisher: Oxford University Press (OUP)
Date: 11-12-2013
DOI: 10.1093/GBE/EVT204
Publisher: Public Library of Science (PLoS)
Date: 19-05-2011
Publisher: Elsevier BV
Date: 04-2017
Publisher: Massachusetts Medical Society
Date: 26-09-2013
Publisher: Cold Spring Harbor Laboratory
Date: 22-09-2020
DOI: 10.1101/2020.09.21.307223
Abstract: Clostridioides difficile infection (CDI) remains an urgent global One Health threat. The genetic heterogeneity seen across C. difficile underscores its wide ecological versatility and has driven the significant changes in CDI epidemiology seen in the last 20 years. We analysed an international collection of over 12,000 C. difficile genomes spanning the eight currently defined phylogenetic clades. Through whole-genome average nucleotide identity, pangenomic and Bayesian analyses, we identified major taxonomic incoherence with clear species boundaries for each of the recently described cryptic clades CI-III. The emergence of these three novel genomospecies predates clades C1-5 by millions of years, rewriting the global population structure of C. difficile specifically and taxonomy of the Peptostreptococcaceae in general. These genomospecies all show unique and highly ergent toxin gene architecture, advancing our understanding of the evolution of C. difficile and close relatives. Beyond the taxonomic ramifications, this work impacts the diagnosis of CDI worldwide.
Publisher: Public Library of Science (PLoS)
Date: 10-06-2013
Publisher: Oxford University Press (OUP)
Date: 29-11-2012
Publisher: Oxford University Press (OUP)
Date: 2007
DOI: 10.1111/J.1365-2672.2006.03049.X
Abstract: Multilocus sequence typing (MLST) was used to examine the ersity and population structure of C ylobacter jejuni isolates associated with sporadic cases of gastroenteritis in Australia, and to compare these isolates with those from elsewhere. A total of 153 C . jejuni isolates were genotyped. Forty sequence types (STs) were found, 19 of which were previously undescribed and 21 identified in other countries. The 19 newly described STs accounted for 43% of isolates, 16 of which were assigned to known clonal complexes. Eighty-eight percent of isolates were assigned to a total of 15 clonal complexes. Of these, four clonal complexes accounted for 60% of isolates. Three STs accounted for nearly 40% of all isolates and appeared to be endemic, while 21 STs were represented by more than one isolate. Seven infections were acquired during international travel, and the associated isolates all had different STs, three of which were exclusive to the travel-acquired cases. Comparison of serotypes among isolates from clonal complexes revealed further ersity. Eight serotypes were identified among isolates from more than one clonal complex, while isolates from six clonal complexes displayed serotypes not previously associated with those clonal complexes. Multilocus sequence typing is a useful tool for the discrimination of subtypes and examination of the population structure of C . jejuni associated with sporadic infections. This study highlights the genotypic ersity of C . jejuni in Australia, demonstrating that STs causing disease have both a global and a local distribution evident from the typing of domestically and internationally acquired C . jejuni isolates.
Publisher: Public Library of Science (PLoS)
Date: 16-08-2017
Publisher: Springer Science and Business Media LLC
Date: 2012
Publisher: European Centre for Disease Control and Prevention (ECDC)
Date: 12-03-2015
DOI: 10.2807/1560-7917.ES2015.20.10.21059
Abstract: We describe an Australia-wide Clostridium difficile outbreak in 2011 and 2012 involving the previously uncommon ribotype 244. In Western Australia, 14 of 25 cases were community-associated, 11 were detected in patients younger than?65 years, 14 presented to emergency/outpatient departments, and 14 to non-tertiary/community hospitals. Using whole genome sequencing, we confirm ribotype 244 is from the same C. difficile clade as the epidemic ribotype 027. Like ribotype 027, it produces toxins A, B, and binary toxin, however it is fluoroquinolone-susceptible and thousands of single nucleotide variants distinct from ribotype 027. Fifteen outbreak isolates from across Australia were sequenced. Despite their geographic separation, all were genetically highly related without evidence of geographic clustering, consistent with a point source, for ex le affecting the national food chain. Comparison with reference laboratory strains revealed the outbreak clone shared a common ancestor with isolates from the United States and United Kingdom (UK). A strain obtained in the UK was phylogenetically related to our outbreak. Follow-up of that case revealed the patient had recently returned from Australia. Our data demonstrate new C. difficile strains are an on-going threat, with potential for rapid spread. Active surveillance is needed to identify and control emerging lineages.
Publisher: American Society for Microbiology
Date: 23-03-2023
DOI: 10.1128/JCM.01578-22
Abstract: Universal access to drug susceptibility testing for newly diagnosed tuberculosis patients is recommended. Access to culture-based diagnostics remains limited, and targeted molecular assays are vulnerable to emerging resistance mutations.
Location: United Kingdom of Great Britain and Northern Ireland
No related grants have been discovered for Kate Dingle.