Perez-Sepulveda, Blanca M, Heavens, Darren, Pulford, Caisey V, Predeus, Alexander V 
ORCID: 0000-0002-2750-1599, Low, Ross, Webster, Hermione, Dykes, Gregory F, Schudoma, Christian, Rowe, Will, Lipscombe, James et al (show 8 more authors)
(2021)
An accessible, efficient and global approach for the large-scale sequencing of bacterial genomes.
GENOME BIOLOGY, 22 (1).
349-.
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Perez-Sepulveda - 10KSG Methods - 2021.pdf - Published version 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 |
|---|---|
| Uncontrolled Keywords: | Thermolysates, Salmonella, Whole-genome sequencing, iNTS |
| Divisions: | Faculty of Health and Life Sciences Faculty of Health and Life Sciences > Institute of Infection, Veterinary and Ecological Sciences |
| Depositing User: | Symplectic Admin |
| Date Deposited: | 10 Jan 2022 15:11 |
| Last Modified: | 18 Jan 2023 21:17 |
| DOI: | 10.1186/s13059-021-02536-3 |
| Open Access URL: | https://genomebiology.biomedcentral.com/articles/1... |
| Related URLs: | |
| URI: | https://livrepository.liverpool.ac.uk/id/eprint/3146166 |
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