Journal article icon

Journal article

Control of artefactual variation in reported inter-sample relatedness during clinical use of a Mycobacterium tuberculosis sequencing pipeline

Abstract:

Contact tracing requires reliable identification of closely related bacterial isolates. When we noticed the reporting of artefactual variation between M. tuberculosis isolates during routine next generation sequencing of Mycobacterium spp, we investigated its basis in 2,018 consecutive M. tuberculosis isolates. In the routine process used, clinical samples were decontaminated and inoculated into broth cultures; from positive broth cultures DNA was extracted, sequenced, reads mapped, and conse...

Expand abstract
Publication status:
Published
Peer review status:
Peer reviewed

Actions


Access Document


Files:
Publisher copy:
10.1128/JCM.00104-18

Authors


More by this author
Institution:
University of Oxford
Division:
Medical Sciences Division
Role:
Author
More by this author
Institution:
University of Oxford
Division:
Medical Sciences Division
Department:
NDM; NDM Experimental Medicine
Role:
Author
More by this author
Institution:
University of Oxford
Division:
Medical Sciences Division
Department:
NDM; NDM Experimental Medicine
Role:
Author
More from this funder
Name:
National Institute for Health Research
Grant:
NF-SI-0513-10110
More from this funder
Name:
NIHR Oxford Biomedical Research Centre
Grant:
NF-SI-0513-10110
More from this funder
Name:
Wellcome Trust
Grant:
098615 Milestone
More from this funder
Name:
Health Innovation Challenge Fund
Grant:
WT098615/Z/12/Z
Publisher:
American Society for Microbiology
Journal:
Journal of Clinical Microbiology More from this journal
Volume:
56
Issue:
8
Pages:
e00104-18
Publication date:
2018-06-06
Acceptance date:
2018-05-22
DOI:
EISSN:
1098-660X
ISSN:
0095-1137
Pubs id:
pubs:853661
UUID:
uuid:b7b4ec27-1bd0-494b-bf19-d6778d023e74
Local pid:
pubs:853661
Source identifiers:
853661
Deposit date:
2018-05-23

Terms of use


Views and Downloads






If you are the owner of this record, you can report an update to it here: Report update to this record

TO TOP