Genomic Characterization and Surveillance of Microbial Threats in West Africa

西非微生物威胁的基因组特征和监测

• 批准号: 10622649
• 负责人: Christian T. Happi
• 金额: $ 21.92万
• 依托单位: REDEEMER'S UNIVERSITY
• 依托单位国家: 美国
• 财政年份: 2013
• 资助国家: 美国
• 起止时间: 2013-09-23 至 2023-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10622649
• 关键词: Affect; Africa; African; Area; Bioinformatics; Clinical; Communicable Diseases; Computer Analysis; Data; Diagnostic; Disease; Disease Outbreaks; Ebola; Ebola virus; Epidemic; Genomics; Goals; Health system; Immunoassay; Immunologics; Infectious Diseases Research; Institutes; Lassa Fever; Light; Malaria; Metagenomics; Molecular; Morbidity - disease rate; Nature; Nigeria; Operations Research; Patients; Population; Prevalence; Public Health; Research; Resources; Sampling; Scientist; Senegal; Sierra Leone; Site; Surveys; Techniques; Technology; Training; Universities; Viral; accurate diagnostics; clinical care; clinical center; combat; cost effective; empowered; genomic tools; improved; innovation; instrument; microbial; microbial disease; mortality; next generation sequencing; pathogen; pathogenic virus; tool

Project Summary – Overall Recent viral outbreaks in West Africa, specifically the 2013-16 Ebola Virus Outbreak, shed light on the many limitations of current surveillance and diagnostics in the region's public health systems. Tools for rapid, accurate diagnostics and genomic analysis of patient samples were often not readily available in the areas that were most severely affected by the disease, making it more difficult to reduce morbidity and mortality during the epidemic. There is a need for Africans to get more engaged in locally using the wide array of genomic techniques and data in order to improve patient treatment. . This proposal aims to characterize and survey microbial threats across West Africa, such as Ebola, Lassa fever, and malaria, by building on a long-term collaborative effort among established academic, research and clinical centers in Nigeria (RUN, ISTH), Senegal (UCAD), and Sierra Leone (KGH), along with additional partners in the US at the Broad Institute and Tulane University. The proposed collaborative center will (1) utilize next generation sequencing and microbial metagenomics technologies to identify and characterize the nature and extent of circulating viral pathogens at the study sites; (2) develop robust and cost- effective field diagnostics, using both molecular and immunoassays to swiftly and accurately capture the prevalence of these pathogens in the population, and (3) use this genomic and immunological data, along with studies on the clinical manifestations of these diseases, to characterize the pathogen-host interaction and enhance clinical care. In addition the proposed project will substantially increase the building capacity for African scientists in the field of genomics, both by improving the technical resources at the project sites and through intensive training in genomics and bioinformatics at both the African and US sites. Specifically, using Illumina MiSeq instruments currently on site in Nigeria and Senegal (and coming soon to Sierra Leone), we will further expand capacity for next generation sequencing and computational analysis.. These activities serve our overall strategic goals of moving more research operations to African sites and empowering African scientists to perform cutting-edge genomic infectious disease research and discovery fully within the continent.

项目总结 – 总体 西非最近的病毒爆发，特别是 2013-16 年埃博拉病毒爆发，揭示了这一点 当前该地区公共卫生监测和诊断的许多局限性 系统。用于对患者样本进行快速、准确诊断和基因组分析的工具 在受疾病影响最严重的地区往往不容易获得，因此 疫情期间降低发病率和死亡率更加困难。非洲人需要 使用广泛的基因组技术和数据更多地参与本地工作，以便 改善患者治疗。 。该提案旨在描述和调查微生物威胁 整个西非，如埃博拉、拉沙热和疟疾， 尼日利亚已建立的学术、研究和临床中心之间的合作努力（RUN、 ISTH）、塞内加尔（UCAD）和塞拉利昂（KGH）以及美国的其他合作伙伴 布罗德研究所和杜兰大学。拟议的协作中心将 (1) 利用下一步 世代测序和微生物宏基因组技术来识别和表征 研究地点循环病毒病原体的性质和范围； (2) 开发稳健且成本低廉的 有效的现场诊断，使用分子和免疫分析快速准确地进行 捕获这些病原体在人群中的流行情况，以及（3）使用该基因组和 免疫学数据以及对这些疾病的临床表现的研究 描述病原体与宿主相互作用的特征并加强临床护理。另外建议的 项目将大大提高非洲科学家在该领域的能力建设 基因组学，通过改善项目现场的技术资源和通过强化 在非洲和美国地点进行基因组学和生物信息学培训。具体来说，使用 Illumina MiSeq 仪器目前位于尼日利亚和塞内加尔现场（并且很快将到达塞拉利昂） Leone），我们将进一步扩大下一代测序和计算能力 分析..这些活动服务于我们推动更多研究业务的总体战略目标 到非洲地点并授权非洲科学家进行尖端基因组感染 疾病研究和发现完全在非洲大陆内进行。

项目成果

Metagenomic sequencing characterizes a wide diversity of viruses in field mosquito samples in Nigeria.

• DOI: 10.1038/s41598-022-11797-2
• 发表时间: 2022-05-10
• 期刊: Scientific reports
• 影响因子: 4.6

Lassa virus in novel hosts: insights into the epidemiology of lassa virus infections in southern Nigeria.

• DOI: 10.1080/22221751.2023.2294859
• 发表时间: 2024-12
• 期刊: Emerging microbes & infections
• 影响因子: 13.2

Humoral and cellular immune responses to Lassa fever virus in Lassa fever survivors and their exposed contacts in Southern Nigeria.

LASSA热幸存者中对LASSA热病毒的体液和细胞免疫反应及其在尼日利亚南部暴露的接触。

• DOI: 10.1038/s41598-022-26045-w
• 发表时间: 2022-12-25
• 期刊: SCIENTIFIC REPORTS
• 影响因子: 4.6
• 作者: Ugwu, Chinedu;Olumade, Testimony;Nwakpakpa, Ebenezer;Onyia, Venatius;Odeh, Elizabeth;Duruiheoma, Rosemary Ogonna;Ojide, Chiedozie K.;Eke, Matthew Afam;Nwafor, Ifeanyi Emmanuel;Chika-Igwenyi, Nneka;Abu, Augustine M.;Azuogu, Benedict;Ajayi, Nnennaya;Ogah, Emeka;Ayodeji, Oluwafemi;Abejegah, Chukwuyem;Adedosu, Nelson;Oyejide, Nicholas;Abah, Sylvester;Omidele, Abiola;Ingbian, Winifred;Osoba, Emmanuel;Eromon, Philomena;Oluniyi, Paul;Ogunsanya, Olusola;Happi, Anise;Otuh, Patricia;Nadesalingam, Angalee;Carnell, George;Krause, Nina;Aguinam, Ernest;Kinsley, Rebecca;Storisteanu, Daniel Matthew L.;Tonks, Paul;Nelson, Diana;McAlister, Carley;Boisen, Matthew;Garry, Robert;Wright, Edward;Temperton, Nigel;Frost, Simon;Heeney, Jonathan Luke;Happi, Christian
• 通讯作者: Happi, Christian

Nationwide surveillance identifies yellow fever and chikungunya viruses transmitted by various species of Aedes mosquitoes in Nigeria.

全国范围内的监测发现尼日利亚各种伊蚊传播黄热病和基孔肯雅病毒。

• DOI: 10.1101/2024.01.15.575625
• 发表时间: 2024
• 期刊: bioRxiv : the preprint server for biology
• 作者: Nwangwu,UdokaC;Oguzie,JudithU;Nwachukwu,WilliamE;Onwude,CosmasO;Dogunro,FestusA;Diallo,Mawlouth;Ezihe,ChukwuebukaK;Agashi,NnekaO;Eloy,EmeldaI;Anokwu,StephenO;Anioke,ClementinaC;Ikechukwu,LindaC;Nwosu,ChukwuebukaM;Nwao
• 通讯作者: Nwao

Molecular surveillance of shiga toxigenic Escherichia coli in selected beef abattoirs in Osun State Nigeria.

• DOI: 10.1038/s41598-021-93347-w
• 发表时间: 2021-07-07
• 期刊: Scientific reports
• 影响因子: 4.6
• 作者: Ayoade F;Oguzie J;Eromon P;Omotosho OE;Ogunbiyi T;Olumade T;Akano K;Folarin O;Happi C
• 通讯作者: Happi C