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Journal article

Hash-based core genome multilocus sequencing typing for Clostridium difficile

Abstract:

Pathogen whole-genome sequencing has huge potential as a tool to better understand infection transmission. However, rapidly identifying closely related genomes among a background of thousands of other genomes is challenging. Here, we describe a refinement 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 (hash-cgMLST). This avoids the resource-intensive need for a single centralized database...

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Publication status:
Published
Peer review status:
Peer reviewed

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Files:
Publisher copy:
10.1128/JCM.01037-19

Authors


More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
NDM Experimental Medicine
Role:
Author
ORCID:
0000-0001-5095-6367
More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
NDM Experimental Medicine
Role:
Author
ORCID:
0000-0003-3477-8307
More by this author
Institution:
University of Oxford
Division:
MSD
Department:
RDM
Sub department:
RDM Clinical Laboratory Sciences
Role:
Author
ORCID:
0000-0002-0590-2850
More by this author
Institution:
University of Oxford
Division:
MSD
Department:
NDM
Sub department:
NDM Experimental Medicine
Role:
Author
ORCID:
0000-0002-0412-8509
Publisher:
American Society for Microbiology
Journal:
Journal of Clinical Microbiology More from this journal
Volume:
58
Issue:
1
Article number:
e01037-19
Publication date:
2019-12-23
Acceptance date:
2019-10-24
DOI:
EISSN:
1098-660X
ISSN:
0095-1137
Language:
English
Keywords:
Pubs id:
pubs:1068791
UUID:
uuid:216bb92c-b63d-4d2f-971e-fe6845a5fdbb
Local pid:
pubs:1068791
Source identifiers:
1068791
Deposit date:
2019-10-31

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