Institute of Infection, Veterinary & Ecological Sciences, University of Liverpool, Liverpool, UK.
Earlham Institute, Norwich Research Park, Norwich, UK.
Genome Biol. 2021 Dec 21;22(1):349. doi: 10.1186/s13059-021-02536-3.
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.
我们开发了一种高效且廉价的流水线，用于简化大规模细菌分离株的采集和基因组测序。该方法的评估涉及一个全球性的研究合作，专注于模式生物沙门氏菌，即 10KSG 联盟。在优化了一个物流流水线之后，该流水线涉及以常温下的热解产物的形式运输分离株，该项目从低收入和中等收入国家收集了 10419 个不同的分离株。使用 LITE 流水线进行文库构建对这些基因组进行测序，每个基因组的总试剂成本不到 10 美元。我们的方法可以应用于其他大型细菌集合，以支持全球合作。
