Previously undetected super-spreading of Mycobacterium tuberculosis revealed by deep sequencing
| Autor: | Fiona McIntosh, William P. Hanage, Robyn S Lee, Marcel A. Behr, Jean-Francois Proulx |
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| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
QH301-705.5 Science 030106 microbiology Population Computational biology genomic epidemiology within-host diversity Genome General Biochemistry Genetics and Molecular Biology Deep sequencing law.invention Mycobacterium tuberculosis 03 medical and health sciences law Tuberculosis Biology (General) education education.field_of_study General Immunology and Microbiology biology General Neuroscience transmission Outbreak General Medicine biology.organism_classification 3. Good health 030104 developmental biology Transmission (mechanics) outbreaks Medicine Single molecule real time sequencing Reference genome |
| Zdroj: | eLife, Vol 9 (2020) |
| ISSN: | 2050-084X |
| DOI: | 10.7554/elife.53245 |
| Popis: | Tuberculosis disproportionately affects the Canadian Inuit. To address this, it is imperative we understand transmission dynamics in this population. We investigate whether ‘deep’ sequencing can provide additional resolution compared to standard sequencing, using a well-characterized outbreak from the Arctic (2011–2012, 50 cases). Samples were sequenced to ~500–1000x and reads were aligned to a novel local reference genome generated with PacBio SMRT sequencing. Consensus and heterogeneous variants were identified and compared across genomes. In contrast with previous genomic analyses using ~50x depth, deep sequencing allowed us to identify a novel super-spreader who likely transmitted to up to 17 other cases during the outbreak (35% of the remaining cases that year). It is increasingly evident that within-host diversity should be incorporated into transmission analyses; deep sequencing may facilitate more accurate detection of super-spreaders and transmission clusters. This has implications not only for TB, but all genomic studies of transmission - regardless of pathogen. |
| Databáze: | OpenAIRE |
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