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Series GSE246242 Query DataSets for GSE246242
Status Public on May 20, 2024
Title Immediate myeloid depot for SARS-CoV-2 in the human lung
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary In the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) pandemic1, considerable focus has been placed on a model of viral entry into host epithelial populations, with a separate focus upon the responding immune system dysfunction that exacerbates or causes disease. We developed a precision-cut lung slice model2,3 to investigate very early host-viral pathogenesis and found that SARS-CoV-2 had a rapid and specific tropism for myeloid populations in the human lung. Infection of alveolar macrophages was partially dependent upon their expression of ACE2, and the infections were productive for amplifying virus, both findings which were in contrast with their neutralization of another pandemic virus, Influenza A virus (IAV). Compared to IAV, SARS-CoV-2 was extremely poor at inducing interferon-stimulated genes in infected myeloid cells, providing a window of opportunity for modest titers to amplify within these cells. Endotracheal aspirate samples from humans with the acute respiratory distress syndrome (ARDS) from COVID-19 confirmed the lung slice findings, revealing a persistent myeloid depot. In the early phase of SARS-CoV-2 infection, myeloid cells may provide a safe harbor for the virus with minimal immune stimulatory cues being generated, resulting in effective viral colonization and quenching of the immune system.
 
Overall design Human lung slices were infected with SARSCoV2 for either 24, 48 or 72h. Non-infected controls were included for each time point.Samples came from 2 different subjects and we included 3/4 slices for the experiment.
 
Contributor(s) Magnen M, You R, Rao AA, Davis RT, Rodriguez L, Bernard O, Simoneau CR, Hysenaj L, Hu KH, Maishan M, Conrad C, Gbenedio OM, Love C, Woodruff PG, Erle DJ, Hendrickson CM, Calfee CS, Matthay MA, Roose JP, Sil A, Ott M, Langelier CR, Krummel MF, Looney MR
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Submission date Oct 25, 2023
Last update date May 20, 2024
Contact name Bushra Samad
E-mail(s) Bushra.Samad@ucsf.edu
Organization name USCF Immunoprofiler
Street address 505 Parnassus Ave
City San Francisco
State/province CA
ZIP/Postal code 94143
Country USA
 
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (16)
GSM7865467 L3 48h SARS
GSM7865468 L3 48h SARS LMO
GSM7865469 L3 72h SARS
Relations
BioProject PRJNA1032112

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE246242_48hr_Cov_filtered_feature_bc_matrix.h5 10.7 Mb (ftp)(http) H5
GSE246242_72hr_Cov_filtered_feature_bc_matrix.h5 8.5 Mb (ftp)(http) H5
GSE246242_Flu_48hr_filtered_feature_bc_matrix.h5 5.9 Mb (ftp)(http) H5
GSE246242_Flu_72hr_filtered_feature_bc_matrix.h5 8.0 Mb (ftp)(http) H5
GSE246242_L1_MOI1_24h_filtered_feature_bc_matrix.h5 7.0 Mb (ftp)(http) H5
GSE246242_L1_MOI1_48h_filtered_feature_bc_matrix.h5 3.2 Mb (ftp)(http) H5
GSE246242_L1_NT_24h_filtered_feature_bc_matrix.h5 9.0 Mb (ftp)(http) H5
GSE246242_L1_NT_48h_filtered_feature_bc_matrix.h5 5.0 Mb (ftp)(http) H5
GSE246242_L2_MOI1_24h_filtered_feature_bc_matrix.h5 11.2 Mb (ftp)(http) H5
GSE246242_L2_MOI1_48h_filtered_feature_bc_matrix.h5 15.0 Mb (ftp)(http) H5
GSE246242_L2_NT_24h_filtered_feature_bc_matrix.h5 11.6 Mb (ftp)(http) H5
GSE246242_L2_NT_48h_filtered_feature_bc_matrix.h5 18.0 Mb (ftp)(http) H5
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