Pan Coronavirus Genomic Surveillance of a Large NHP Colony

项目摘要/摘要 2019年末出现的新型冠状病毒，被称为SARS-CoV-2，迅速在世界各地传播 已经杀死了数百万人。这场大流行的一个关键方面仍然没有得到充分的研究，那就是对 季节性冠状病毒对新冠肺炎病的影响。有几行证据表明有影响，但 这种影响的性质尚不清楚。我们有初步数据证实我们的殖民地有5000只恒河猴 在对来源不明的冠状病毒具有免疫力的动物中，猕猴占有很大比例。 这种免疫力在使用这些动物治疗新冠肺炎和其他冠状病毒疾病方面可能很重要。我们 假设我们的群体季节性地传播人类季节性冠状病毒，但我们需要确定 真正的病毒在传播。在这里，我们将使用多种方法来评估这些感染的频率 并识别出真正的病毒。在目标1中，我们将使用泛冠状病毒引物来量化冠状病毒 在我们的殖民地感染。我们将对鼻部和直肠部位进行采样，因为已知冠状病毒会在鼻腔和直肠部位脱落 从这两个方面。在目标2中，我们将使用下一代测序来识别正在传播的病毒。我们会申请 用系统进化方法来描述我们殖民地中病毒的多样性。这些数据将具有 对使用猕猴治疗冠状病毒感染具有重要意义，并可能对 冠状病毒家族。

Project Summary/Abstract The novel coronavirus that emerged in late 2019, termed SARS-CoV-2, quickly spread throughout the world and has killed millions. A critical aspect of this pandemic that remains understudied is the impact of immunity to seasonal coronaviruses on COVID-19 disease. Several lines of evidence suggest there is an impact but the nature of that impact remains unclear. We have preliminary data confirming our colony of 5,000 rhesus macaques harbors a large fraction of animals with preexisting immunity to coronaviruses of unknown origin. This immunity may be important in the use of these animals for COVID-19 and other coronavirus disease. We hypothesize that our colony seasonally circulates human seasonal coronaviruses but we need to identify the actual viruses circulating. Here, we will use multiple approaches to assess the frequency of these infections and to identify the actual viruses. In Aim 1, we will use pan-coronavirus primers to quantify coronavirus infections in our colony. We will sample both nasal and rectal sites as coronaviruses are known to be shed from both. In Aim 2, we will use next generation sequencing to identify the viruses circulating. We will apply phylogenetic approaches to characterize the diversity of the virus or viruses in our colony. These data will have important implications for the use of macaques for coronavirus infections in general and may shed light on the coronavirus family.