Vet-LIRN antimicrobial resistance surveillance through collection of AMR data and whole genome sequencing of isolates from Canadian provinces

Vet-LIRN 通过收集 AMR 数据和加拿大各省分离株的全基因组测序进行抗生素耐药性监测

• 批准号: 10471710
• 负责人: Durda Slavic
• 金额: $ 1.78万
• 依托单位: UNIVERSITY OF GUELPH
• 依托单位国家: 美国
• 财政年份: 2020
• 资助国家: 美国
• 起止时间: 2020-09-20 至 2025-08-31
• 项目状态: 未结题
• 来源: https://reporter.nih.gov/project-details/10471710
• 关键词: Vet; LIRN; antimicrobial; resistance; surveillance

Project Summary/Abstract As a part of the FDA Veterinary Laboratory Information Response Network (Vet-LIRN) initiative ‘to support enhanced human and animal food safety’ Animal Health Laboratory (AHL) acquired MiSeq Illumina and was tasked to established a Canadian veterinary diagnostics laboratory unit (5 source labs and 1 WGS regional lab) to support and expand Vet-LIRN's Antimicrobial Resistance-Whole Genome Sequencing (AMR-WGS) program. This unit was established in 2018 and the program ran throughout 2019 with bacterial isolates (604), metadata and antimicrobial susceptibility results collection and whole genome sequencing (WGS) of selected isolates (270). The isolate collection slowed down in the second quarter of 2020 because of COVID-19, and also one laboratory dropped out of the program due to a staffing shortage. As a result, our objectives for this multiyear project are: 1. To recruit another source laboratory for isolate, metadata and antimicrobial susceptibility results collection for 2021. 2. To continue established collaboration with other source laboratories by providing them with supplies and covering quarterly shipping expenses for isolates and data collection. 3. To continue with isolates collection at AHL. 4. To increase surge capacity and capability of AHL in order to aid Vet-LIRN AMR surveillance efforts and clinical disease investigations using harmonized methodology by: a. Using Illumina MiSeq to do WGS of bacterial isolates following protocols provided by Vet-LIRN. b. Participating in proficiency testing provided by GenomeTrakr. c. Submitting sequence information to NCBI to make them publicly available.

项目总结/摘要 作为FDA兽医实验室信息响应网络（Vet-LIRN）计划的一部分 “支持增强人类和动物食品安全”收购动物健康实验室（阿勒） MiSeq Illumina的任务是建立加拿大兽医诊断实验室单位 （5个源实验室和1个WGS区域实验室），以支持和扩展Vet-LIRN的抗菌药物 耐药全基因组测序（AMR-WGS）程序。该股成立于 2018年，该计划在2019年全年运行，细菌分离株（604），元数据和 抗菌药物敏感性结果收集和全基因组测序（WGS）的选择 分离物（270）。2020年第二季度分离株采集放缓，原因是 COVID-19，还有一个实验室由于人手短缺而退出了该计划。作为 因此，我们这个多年期项目的目标是： 1.为分离株、元数据和抗菌药物敏感性招募另一个源实验室 2021年成果征集。 2.继续与其他来源实验室建立合作， 供应和支付隔离和数据收集的季度运输费用。 3.继续在阿勒采集分离株。 4.提高阿勒的浪涌能力和能力，以帮助Vet-LIRN AMR 使用统一方法的监测工作和临床疾病调查 签署人： a.使用Illumina MiSeq按照方案进行细菌分离株的WGS 由Vet-LIRN提供。 B.参与GenomeTrakr提供的能力验证。 C.向NCBI提交序列信息，使其公开可用。