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Transmission dynami...
Transmission dynamics study of tuberculosis isolates with whole genome sequencing in southern Sweden
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- Alaridah, Nader (author)
- Lund University,Lunds universitet,Medicinsk mikrobiologi,Forskargrupper vid Lunds universitet,Medical Microbiology,Lund University Research Groups
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- Tång Hallbäck, Erika, 1973 (author)
- Gothenburg University,Göteborgs universitet,University of Gothenburg,Institutionen för biomedicin, avdelningen för infektionssjukdomar,Institute of Biomedicine, Department of Infectious Medicine
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- Tångrot, Jeanette (author)
- Umeå University,Umeå universitet,Institutionen för molekylärbiologi (Medicinska fakulteten),National Bioinformatics Infrastructure Sweden (NBIS), SciLifeLab, Computational Life Science Cluster, Umeå University, Umeå, Sweden
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- Winqvist, Niclas (author)
- Lund University,Lunds universitet,Klinisk infektionsmedicin,Forskargrupper vid Lunds universitet,Clinical infection medicine,Lund University Research Groups,Skåne Regional Office for Infectious Disease Control and Prevention
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- Sturegård, Erik (author)
- Lund University,Lunds universitet,Klinisk mikrobiologi, Malmö,Forskargrupper vid Lunds universitet,Klinisk infektionsmedicin,Clinical Microbiology, Malmö,Lund University Research Groups,Clinical infection medicine
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- Floren-Johanssons, Kerstin (author)
- University of Gothenburg
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- Jönsson, Bodil, 1959 (author)
- Gothenburg University,Göteborgs universitet,University of Gothenburg,Institutionen för biomedicin, avdelningen för infektionssjukdomar,Institute of Biomedicine, Department of Infectious Medicine
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- Tenland, Erik (author)
- Lund University,Lunds universitet,Medicinsk mikrobiologi,Forskargrupper vid Lunds universitet,Medical Microbiology,Lund University Research Groups
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- Welinder-Olsson, Christina, 1959 (author)
- Gothenburg University,Göteborgs universitet,University of Gothenburg,Institutionen för biomedicin, avdelningen för infektionssjukdomar,Institute of Biomedicine, Department of Infectious Medicine
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- Medstrand, Patrik (author)
- Lund University,Lunds universitet,Klinisk virologi, Malmö,Forskargrupper vid Lunds universitet,Clinical Virology, Malmö,Lund University Research Groups
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- Kaijser, Bertil, 1942 (author)
- Gothenburg University,Göteborgs universitet,University of Gothenburg,Institutionen för biomedicin, avdelningen för infektionssjukdomar,Institute of Biomedicine, Department of Infectious Medicine
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- Godaly, Gabriela (author)
- Lund University,Lunds universitet,Medicinsk mikrobiologi,Forskargrupper vid Lunds universitet,Medical Microbiology,Lund University Research Groups
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(creator_code:org_t)
- 2019-03-20
- 2019
- English.
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In: Scientific Reports. - : Nature Publishing Group. - 2045-2322. ; 9
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Abstract
Subject headings
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- Epidemiological contact tracing complemented with genotyping of clinical Mycobacterium tuberculosis isolates is important for understanding disease transmission. In Sweden, tuberculosis (TB) is mostly reported in migrant and homeless where epidemiologic contact tracing could pose a problem. This study compared epidemiologic linking with genotyping in a low burden country. Mycobacterium tuberculosis isolates (n = 93) collected at Scania University Hospital in Southern Sweden were analysed with the standard genotyping method mycobacterial interspersed repetitive units-variable number tandem repeats (MIRU-VNTR) and the results were compared with whole genome sequencing (WGS). Using a maximum of twelve single nucleotide polymorphisms (SNPs) as the upper threshold of genomic relatedness noted among hosts, we identified 18 clusters with WGS comprising 52 patients with overall pairwise genetic maximum distances ranging from zero to nine SNPs. MIRU-VNTR and WGS clustered the same isolates, although the distribution differed depending on MIRU-VNTR limitations. Both genotyping techniques identified clusters where epidemiologic linking was insufficient, although WGS had higher correlation with epidemiologic data. To summarize, WGS provided better resolution of transmission than MIRU-VNTR in a setting with low TB incidence. WGS predicted epidemiologic links better which could consolidate and correct the epidemiologically linked cases, avoiding thus false clustering.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Medicinsk genetik (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Medical Genetics (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Hälsovetenskap -- Folkhälsovetenskap, global hälsa, socialmedicin och epidemiologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Health Sciences -- Public Health, Global Health, Social Medicine and Epidemiology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Infektionsmedicin (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Infectious Medicine (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Klinisk laboratoriemedicin (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Clinical Laboratory Medicine (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Lungmedicin och allergi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Respiratory Medicine and Allergy (hsv//eng)
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Alaridah, Nader
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Tång Hallbäck, E ...
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Tångrot, Jeanett ...
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Winqvist, Niclas
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Sturegård, Erik
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Floren-Johansson ...
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Jönsson, Bodil, ...
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Tenland, Erik
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Welinder-Olsson, ...
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Medstrand, Patri ...
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Kaijser, Bertil, ...
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Godaly, Gabriela
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Umeå University
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Lund University
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University of Gothenburg