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Series GSE156755 Query DataSets for GSE156755
Status Public on Jan 14, 2021
Title SARS-CoV-2 infection dynamics in lungs of African green monkeys
Organism Chlorocebus aethiops
Experiment type Expression profiling by high throughput sequencing
Summary Detailed knowledge about dynamics of SARS-CoV-2 infection in vivo is important for unraveling the viral and host response factors that contribute to COVID-19 pathogenesis. The unknown dose and exposure timing in human infections makes the needed well-controlled time course studies impossible and thus animal models of disease are essential to fill in the gaps in our understanding of disease progression. Old-World nonhuman primate species recapitulate mild COVID-19 cases, thereby serving as important models for studying disease pathogenesis. In this study, we compare African green monkeys (AGM; Chlorocebus sabaeus) inoculated with SARS-CoV-2 to AGM inoculated with a gamma-irradiated form of the virus to study the dynamics of virus replication throughout the respiratory tract and other target tissues. RNA sequencing of single cells from the lungs and mediastinal lymph nodes allowed a high-resolution, simultaneous analysis of virus replication and the host response in these tissues over time. Viral replication was mainly localized to the lower respiratory tract, especially the pneumocyte population. However, even in the absence of active replication, viral genomic RNA is was highly stable, especially in the upper respiratory tract. Macrophages play a vital and dynamic role in initiating a pro-inflammatory state in the lungs, while also interacting with infected pneumocytes. Together, our dataset provides a detailed view of changes in host and virus replication dynamics over the course of a mild COVID-19 infection and serves as a valuable resource to identify new therapeutic targets.
Overall design 10 african green monkeys, 2 inoculated with irradiated SARS-CoV-2, 8 with active SARS-CoV-2, single cell sequencing
Contributor(s) Speranza E, Williamson BN, Feldmann F, Sturdevant G, Perea-Perez L, Meand-White K, Smith BJ, Martens C, Munster VJ, Okumura A, Shaia C, Feldmann H, Best SM, de Wit E
Citation(s) 33431511
Submission date Aug 24, 2020
Last update date Jan 16, 2021
Contact name Craig Martens
Phone 406-363-9415
Organization name NIAID
Department DIR
Street address 903 S. 4th St
City Hamilton
State/province MT
ZIP/Postal code 59840
Country USA
Platforms (1)
GPL29061 NextSeq 550 (Chlorocebus aethiops)
Samples (20)
GSM4743527 AGM1_Lung
GSM4743528 AGM2_Lung
GSM4743529 AGM3_Lung
BioProject PRJNA658976
SRA SRP278622

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Supplementary file Size Download File type/resource
GSE156755_RAW.tar 383.4 Mb (http)(custom) TAR (of TAR)
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Raw data are available in SRA
Processed data provided as supplementary file

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