Building AMR monitoring capacity through expanding NGS capabilities

PAR-18-604 Vet-LIRN网络能力建设项目 密歇根州立大学 项目名称：通过扩大NGS能力建设AMR监测能力 项目总结/摘要 该提案的总体目标是加强密歇根州立大学兽医学院 诊断实验室（VDL）监测抗生素耐药性的能力和能力 (AMR)在被认为对动物和公共卫生具有高度后果的病原体中。的 VDL是一家提供全方位服务的兽医诊断实验室，配备人员和设备， FDA、CVM和联邦、州或地方的病理学、微生物、分子检测 社. VDL的150名教职员工每年对来自世界各地的样本进行100多万次测试。 所有50个州和超过25个国家。 VDL正在扩大其下一代分子检测能力， 影响密歇根州家养动物和野生动物的疾病。几年来，VDL 保持与兽医实验室调查和反应的持续合作 网络，FDA（Vet-LIRN）支持细菌分离株的WGS，作为国家倡议的一部分， 对抗抗生素耐药性细菌（CARB）。 鉴于密歇根州立大学VDL的伴侣动物病例从中西部和整个 在美国，该实验室是唯一准备支持地方，地区和国家AMR 监视活动。MSU VDL发现了大量的耐药性 铜绿假单胞菌和粪肠球菌和屎肠球菌作为我们 常规病例，所有这些都被认为是这些动物中耐药感染的主要原因。 这些感染具有重要的动物和公共卫生影响，因为感染的频率很高。 治疗失败和潜在的人畜共患病传播。使用VDL 最近在设备（NextSeq 1000）和 工作人员，VDL准备对多达400个细菌分离株（大约200个）进行WGS 假单胞菌和肠球菌200株）。增加额外设备（Qubit和OT-2 NGS工作站）将实现更快、更高的吞吐量和更具成本效益 测序产生的数据将有助于追踪这些细菌中的抗生素耐药基因 并监测新的抗性特征。比较序列数据与表型抗性 数据和临床数据（当可用时）可用于预测治疗结果。

PAR-18-604 Vet-LIRN Network Capacity-Building Project Michigan State University Project Title: Building AMR monitoring capacity through expanding NGS capabilities Project Summary/Abstract The overall objective of this proposal is to enhance the Michigan State University Veterinary Diagnostic Laboratory (VDL)’s capability and capacity for surveillance of antimicrobial resistance (AMR) in pathogens deemed to be of high consequence for both animal and public health. The VDL is a full-service veterinary diagnostic laboratory staffed and equipped to provide complete pathological, microbiological, molecular testing for FDA, CVM, and federal, state, or local agencies. The 150 VDL faculty and staff run more than one million tests a year on samples from all 50 states and more than 25 countries. The VDL is in the process of expanding its next generation molecular testing capabilities for diseases affecting domestic and wildlife species of Michigan. For several years, the VDL has maintained ongoing collaborations the Veterinary Laboratory Investigation and Response Network, FDA (Vet-LIRN) to support WGS of bacterial isolates as part of the national initiative to Combating Antibiotic Resistant Bacteria (CARB). Given the MSU VDL’s high caseload of companion animal cases from Midwest and across the United States, the laboratory is uniquely poised to support local, regional, and national AMR surveillance activities. The MSU VDL sees a significant number of antibiotic-resistant Pseudomonas aeruginosa and Enterococcus faecalis and Enterococcus faecium as part of our routine caseload, all considered to be leading causes of resistant infections in these animals. These infections have important animal and public health impacts, given the frequency of treatment failure and the potential for zoonotic transmission in these cases. Using the VDL’s recently expanded next-generation capabilities both in terms of equipment (NextSeq 1000) and staff, the VDL is prepared to perform WGS on up to 400 bacterial isolates (roughly 200 pseudomonas and 200 enterococcus). The addition of additional equipment (QuBit and OT-2 NGS Workstation) will allow for more rapid, higher-throughput and more cost-effective sequencing. The data generated will help track the antibiotic resistant genes in these bacteria and monitor for new resistant traits. Comparing the sequence data to phenotypic resistance data and clinical data (when available) can be used to predict treatment outcomes.