Pathogen Genomics, Phenotype and Immunity (PGPI) & Basic Sciences Programme

病原体基因组学、表型和免疫 (PGPI)

• 批准号: MC_UU_00027/1
• 负责人: Pontiano Kaleebu
• 金额: $ 363.8万
• 依托单位: London School of Hygiene & Tropical Medicine
• 依托单位国家: 英国
• 项目类别: Intramural
• 财政年份: 2018
• 资助国家: 英国
• 起止时间: 2018 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=MC_UU_00027%2F1
• 关键词: Pathogen; Genomics; Phenotype; Immunity; PGPI

This programme aims to conduct research that will lead to better understanding of pathogen genomics in order to characterise diseases and epidemics for better control and to investigate virological, immunological and genetic factors required for the development of effective interventions against HIV-1 and other infections. Advantage will be taken of a) well characterised cohorts and biobanks b) Unit track record in intervention trials c) investment in new technologies in genomics, immunological assays and bioinformatics and d) established collaborations. We propose to monitor the HIV epidemic by characterising the circulating HIV-1 subtypes especially in recent infections and use full length genome sequencing to understand better the increasing recombinant viruses using better bioinformatics tools. We will use molecular in combination with social-epidemiological and modelling approaches to provide novel avenues to monitor epidemic trends and transmission dynamics, and to contribute to targeted interventions through the identification of transmission clusters and hotspots. HIV drug resistance (HIVDR) is emerging as one of the most important challenges to ART roll out for both care and prevention, more so in resource limited areas characterized by the use of limited ARV regimens, stock outs, regimen change based on available supply and often limited use of viral load (VL) testing to monitor treatment outcomes. We will expand our drug resistance studies to contribute to improved interventions. HIV superinfection (SI) investigations will utilise a large collection of specimens from high risk populations to study host and viral factors associated with SI.

该计划旨在开展研究，以更好地了解病原体基因组学，以便描述疾病和流行病的特征，以便更好地控制，并研究制定针对 HIV-1 和其他感染的有效干预措施所需的病毒学、免疫学和遗传因素。将利用 a) 特征明确的队列和生物库 b) 干预试验中的单位跟踪记录 c) 对基因组学、免疫学测定和生物信息学新技术的投资以及 d) 已建立的合作。我们建议通过表征流行的 HIV-1 亚型（特别是最近感染的病毒）来监测 HIV 流行，并使用全长基因组测序，利用更好的生物信息学工具更好地了解不断增加的重组病毒。我们将利用分子学与社会流行病学和建模方法相结合，提供监测流行趋势和传播动态的新途径，并通过识别传播集群和热点来促进有针对性的干预措施。 HIV 耐药性 (HIVDR) 正在成为护理和预防方面推广 ART 的最重要挑战之一，在资源有限的地区更是如此，这些地区的特点是使用有限的 ARV 治疗方案、缺货、根据可用供应改变治疗方案以及通常有限地使用病毒载量 (VL) 检测来监测治疗结果。我们将扩大耐药性研究，以促进改善干预措施。 HIV 重复感染 (SI) 调查将利用来自高危人群的大量标本来研究与 SI 相关的宿主和病毒因素。

项目成果

Characterization of Near Full-Length Transmitted/Founder HIV-1 Subtype D and A/D Recombinant Genomes in a Heterosexual Ugandan Population (2006-2011).

• DOI: 10.3390/v14020334
• 发表时间: 2022-02-07
• 期刊: Viruses
• 作者: Balinda SN;Kapaata A;Xu R;Salazar MG;Mezzell AT;Qin Q;Herard K;Dilernia D;Kamali A;Ruzagira E;Kibengo FM;Song H;Ochsenbauer C;Salazar-Gonzalez JF;Gilmour J;Hunter E;Yue L;Kaleebu P
• 通讯作者: Kaleebu P

Risk factors for Crimean-Congo Haemorrhagic Fever (CCHF) virus exposure in farming communities in Uganda.

• DOI: 10.1016/j.jinf.2022.09.007
• 发表时间: 2022-12
• 期刊: JOURNAL OF INFECTION
• 影响因子: 28.2
• 作者: Atim, Stella A.;Ashraf, Shirin;Belij-Rammerstorfer, Sandra;Ademun, Anna R.;Vudriko, Patrick;Nakayiki, Teddy;Niebel, Marc;Shepherd, James;Balinandi, Stephen;Nakanjako, Gladys;Abaasa, Andrew;Johnson, Paul C. D.;Odongo, Steven;Esau, Martin;Bahati, Milton;Kaleebu, Pontiano;Lutwama, Julius J.;Masembe, Charles;Lambe, Teresa;Thomson, Emma C.;Tweyongyere, Robert
• 通讯作者: Tweyongyere, Robert

Effect of high-intensity versus low-intensity praziquantel treatment on HIV disease progression in HIV and Schistosoma mansoni co-infected patients: a randomised controlled trial.

• DOI: 10.12688/wellcomeopenres.14683.1
• 发表时间: 2018-01-01
• 期刊: Wellcome open research
• 作者: Abaasa, Andrew;Asiki, Gershim;Kamali, Anatoli
• 通讯作者: Kamali, Anatoli

Differential Performance of CoronaCHEK SARS-CoV-2 Lateral Flow Antibody Assay by Geographic Origin of Samples.

CoronaCHEK SARS-CoV-2 横向流动抗体检测的不同性能因样品的地理来源而异。

• DOI: 10.1101/2021.04.12.21255284
• 发表时间: 2021
• 期刊: the preprint server for health sciences
• 作者: Baker OR