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Perez-Sepulveda, Blanca M, Heavens, Darren, Pulford, Caisey V, Predeus, Alexander V, Low, Ross, Webster, Hermione, Dykes, Gregory F, Schudoma, Christian, Rowe, Will, Lipscombe, James, Watkins, Chris, Kumwenda, Benjamin, Shearer, Neil, Costigan, Karl, Baker, Kate S, Feasey, Nicholas 
ORCID: https://orcid.org/0000-0003-4041-1405, Hinton, Jay C D and Hall, Neil
(2021)
'An accessible, efficient and global approach for the large-scale sequencing of bacterial genomes.'. Genome Biology, Vol 22, Issue 1, e349.
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PMC8690886.pdf - Published Version Available under License Creative Commons Attribution. Download (1MB) | Preview |
Abstract
We have developed an efficient and inexpensive pipeline for streamlining large-scale collection and genome sequencing of bacterial isolates. Evaluation of this method involved a worldwide research collaboration focused on the model organism Salmonella enterica, the 10KSG consortium. Following the optimization of a logistics pipeline that involved shipping isolates as thermolysates in ambient conditions, the project assembled a diverse collection of 10,419 isolates from low- and middle-income countries. The genomes were sequenced using the LITE pipeline for library construction, with a total reagent cost of less than USD$10 per genome. Our method can be applied to other large bacterial collections to underpin global collaborations.
| Item Type: | Article |
|---|---|
| Subjects: | QU Biochemistry > Genetics > QU 460 Genomics. Proteomics QU Biochemistry > Genetics > QU 550 Genetic techniques. PCR. Chromosome mapping QW Microbiology and Immunology > QW 50 Bacteria (General). Bacteriology. Archaea |
| Faculty: Department: | Clinical Sciences & International Health > Clinical Sciences Department |
| Digital Object Identifer (DOI): | https://doi.org/10.1186/s13059-021-02536-3 |
| SWORD Depositor: | JISC Pubrouter |
| Depositing User: | JISC Pubrouter |
| Date Deposited: | 22 Mar 2022 14:38 |
| Last Modified: | 14 Jun 2023 13:18 |
| URI: | https://archive.lstmed.ac.uk/id/eprint/19857 |
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