Real-Time High Resolution Method for Genomic Surveillance of ESKAPE pathogens

ESKAPE 病原体基因组监测的实时高分辨率方法

• 批准号: 10440946
• 负责人: SE-RAN JUN
• 金额: $ 22.8万
• 依托单位: UNIV OF ARKANSAS FOR MED SCIS
• 依托单位国家: 美国
• 财政年份: 2022
• 资助国家: 美国
• 起止时间: 2022-05-10 至 2024-04-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10440946
• 关键词: Acinetobacter baumannii; Adoption; Antibiotic Resistance; Antibiotics; Bacterial Antibiotic Resistance; Biological Assay; Clinical; Clinical Medicine; DNA; DNA Methylation; DNA Sequence; Data; Data Reporting; Data Storage and Retrieval; Databases; ESKAPE pathogens; Early Diagnosis; Elderly; Enterobacter; Enterococcus faecium; Epidemiology; Evaluation Reports; Event; Gene Mutation; Genetic Markers; Genome; Genomics; Genotype; Goals; Hospitals; Hour; Human Resources; Hybrids; Immunocompromised Host; Infection; Infection Control; Intervention; Klebsiella pneumoniae; Maps; Medical; Methods; Morbidity - disease rate; Nosocomial Infections; Outcome; Patient Care; Predisposition; Prevention; Process; Pseudomonas aeruginosa; Public Health; Resistance; Resistance profile; Resistance to infection; Resolution; Route; Sampling; Signal Transduction; Source; Staphylococcus aureus; Stream; Surveillance Methods; System; Testing; Time; Translating; Trees; Virulent; Work; antibiotic resistant infections; antimicrobial resistant pathogen; base; comparative; cost; data pipeline; data streams; drug resistant pathogen; drug standard; genome analysis; genomic epidemiology; mortality; nanopore; novel; pathogen; pathogen genomics; pathogenic bacteria; prevent; reference genome; resistance gene; sequencing platform; tool; transmission process

PROJECT SUMMARY/ABSTRACT Antibiotic resistance is one of the most prominent public health threats. The burden of antibiotic resistance is drastically increasing. Infections caused by antibiotic resistant bacteria are a significant cause of morbidity and mortality especially in immunocompromised patients and elderly. Timely prevention and treatment of infections caused by antibiotic resistant pathogens are gaining urgency. Genomic surveillance of antibiotic resistant pathogens has emerged as an epidemiology tool to identify sources and track transmission routes of infections caused by antibiotic resistant pathogens for infection control and to evaluate antibiotic resistance for antibiotic stewardship. We believe that the adoption of routine use of such a genomic pathogen surveillance system in hospitals would be revolutionary in clinical medicine and help make hospitals safer places. However, the current genome-based surveillance methods do not have fast enough turnaround time and discriminatory power to serve as the effective and responsible translational methods of antibiotic resistant pathogens. To fill this gap, we will develop a surveillance system with the two real-time genomic applications for infection control and antibiotic stewardship focusing on ESKAPE, highly virulent and antibiotic resistant bacterial pathogens, Enterococcus faecium, Staphylococcus aureus, Klebsiella pneumoniae, Acinetobacter baumannii, Pseudomonas aeruginosa, and Enterobacter species. The proposed study will be the first attempt allowing for real-time genomic surveillance which could be fully implemented and regularly used at hospitals. The proposed applications will allow early detection of transmission events and targeted interventions to prevent transmissions of antibiotic resistance infections and help in treatment of difficult infections supplementing antibiotic stewardship efforts, and cost reductions.

项目摘要/摘要 抗生素耐药性是最突出的公共卫生威胁之一。抗生素耐药性的负担是 急剧增加。由抗生素耐药细菌引起的感染是发病率和 死亡率，特别是免疫功能低下的患者和老年人。及时预防和治疗感染 由抗生素耐药病原体引起的疫情正变得越来越紧迫。 对抗生素耐药病原体的基因组监测已经成为一种确定病源的流行病学工具 和追踪由抗药性病原体引起的感染的传播途径，以控制感染和 评估抗生素耐药性以进行抗生素管理。我们认为，采用这种常规使用的 医院的基因组病原体监测系统将是临床医学的革命性进展，并有助于 医院是更安全的地方。然而，目前基于基因组的监测方法还不够快 周转时间和辨别力作为有效和负责任的翻译方法 抗药性病原体。 为了填补这一空白，我们将开发一个具有两个感染实时基因组应用程序的监测系统 重点关注ESKAPE、高毒力和抗药性细菌的控制和抗生素管理 病原菌、粪肠球菌、金黄色葡萄球菌、肺炎克雷伯菌、鲍曼不动杆菌、 铜绿假单胞菌和肠杆菌属。这项拟议的研究将是第一次尝试 可在医院全面实施和定期使用的实时基因组监测。建议数 应用程序将允许及早检测传播事件和有针对性的干预措施，以防止传播 抗生素耐药感染和帮助治疗难治性感染补充抗生素管理 努力，降低成本。