SARS-CoV-2 genomic variant surveillance in human and non-human primate populations in Peru

摘要 秘鲁SARS-CoV-2变异株的特征，秘鲁是世界上死亡率最高的国家之一 世界上的知识是有限的，这代表着一个重大的知识差距，可以通过 增加基因组监测活动。位于亚马逊盆地内的伊基托斯是 秘鲁首批经历新冠肺炎大流行影响的城市 2020年3月传播，随后是有记录以来最高的抗-HBs血清阳性率之一 SARS-CoV-2抗体在全球范围内传播，但从1月份开始出现第二波传播 一直到2021年3月。利用在伊基托斯及其附近收集的人类样本，伊基托斯是 新兴传染病情报(EEIDI)将对SARS-CoV-2分离株和 鉴定来自秘鲁的变异，并调查它们与人类疾病严重程度和 症状、再感染、旅行史、健康结果和患者人口统计。我们还将 从动物，特别是非人灵长类动物中分离出SARS-CoV-2变异株的特征 与人类密切互动的种群，以调查溢出到未来动物的可能性 水库。这项工作将确保对现有和新出现的变种进行快速和适应性的监测， 同时提高对哪些变异最有可能参与未来疫情的理解。

ABSTRACT Characterization of SARS-CoV-2 variants in Peru, which has one of the highest mortality rates in the world, has been limited and represents a significant knowledge gap that can be addressed through increased genomic surveillance activities. Located within the Amazon Basin, Iquitos was one of the first cities in Peru to experience the impact of the COVID-19 pandemic with devasting levels of transmission in March 2020, followed by one of the highest documented seroprevalence rates of anti- SARS-CoV-2 antibodies worldwide, only to have a second wave of transmission from January through March 2021. Utilizing human samples collected in and near Iquitos, the EpiCenter for Emerging Infectious Disease Intelligence (EEIDI) will sequence SARS-CoV-2 isolates and characterize variants from Peru and investigate their association with human disease severity and syndromes, reinfection, travel history, health outcomes, and patient demographics. We will also characterize isolates of SARS-CoV-2 variants from sampled animals, in particular non-human primate populations that closely interact with humans to investigate potential for spillback into future animal reservoirs. This work will ensure rapid and adaptive surveillance of existing and emerging variants, while improving an understanding of which variants are most likely to be involved in future outbreaks.