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| Status |
Public on Jan 18, 2023 |
| Title |
Comparative analysis of innate immune responses to viral infection among animals |
| Organisms |
Rousettus aegyptiacus; Macaca mulatta; Pan troglodytes; Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Bats harbour various viruses without severe symptoms and act as natural reservoirs. This tolerance of bats toward viral infections is assumed to be originated from the uniqueness of their immune system. However, how the innate immune response varies between primates and bats remains unclear. To illuminate differences in innate immune responses among animal species, we performed a comparative single-cell RNA-sequencing analysis on peripheral blood mononuclear cells (PBMCs) from four species including Egyptian fruit bats inoculated with various infectious stimuli.
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| Overall design |
PBMCs were obtained from human (Homo sapiens), chimpanzee (Pan troglodytes), rhesus macaque (Macaca mulatta), and Egyptian fruit bat (Rousettus aegyptiacus). PBMCs were treated with herpes simplex virus type 1 (HSV-1) (strain F; GenBank accession number: GU734771), Sendai virus (SeV) (strain Cantrell, clone cCdi; GenBank accession number: AB855654) or lipopolysaccharide (LPS). On one day post infection, these infected/stimulated PBMCs (HSV-1, SeV, and LPS) were collected. Unstimulated PBMCs (Mock) were also prepared. A total of 16 samples (4 species × 4 stimuli) were loaded into the Next GEM chip G using a Chromium controller. Reverse transcription were performed in each GEM and barcoded cDNA were produced. After cDNA amplification, enzymatic fragmentation end repair, A-tailing, adaptor ligation and index PCR were processed.
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| Contributor(s) |
Aso H, Ito J, Kashima Y, Suzuki Y, Ozaki H, Koyanagi Y, Sato K |
| Citation(s) |
37848618 |
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| Submission date |
Nov 17, 2022 |
| Last update date |
Oct 26, 2023 |
| Contact name |
Kei Sato |
| E-mail(s) |
su9ark@gmail.com
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| Phone |
81364092212
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| Organization name |
The Institute of Medical Science, The University of Tokyo
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| Department |
Department of Microbiology and Immunology
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| Lab |
Division of Systems Virology
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| Street address |
4-6-1 Shiroganedai
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| City |
Minato-ku |
| State/province |
Tokyo |
| ZIP/Postal code |
1088639 |
| Country |
Japan |
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| Platforms (4)
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| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
| GPL27943 |
Illumina NovaSeq 6000 (Macaca mulatta) |
| GPL30573 |
Illumina NovaSeq 6000 (Pan troglodytes) |
| GPL30616 |
Illumina NovaSeq 6000 (Rousettus aegyptiacus) |
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| Samples (16)
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| GSM6736388 |
Homo sapiens PBL, LPS |
| GSM6736389 |
Pan troglodytes PBL, mock |
| GSM6736390 |
Pan troglodytes PBL, HSV-1 |
| GSM6736391 |
Pan troglodytes PBL, SeV |
| GSM6736392 |
Pan troglodytes PBL, LPS |
| GSM6736393 |
Macaca mulatta PBL, mock |
| GSM6736394 |
Macaca mulatta PBL, HSV-1 |
| GSM6736395 |
Macaca mulatta PBL, SeV |
| GSM6736396 |
Macaca mulatta PBL, LPS |
| GSM6736397 |
Rousettus aegyptiacus PBL, mock |
| GSM6736398 |
Rousettus aegyptiacus PBL, HSV-1 |
| GSM6736399 |
Rousettus aegyptiacus PBL, SeV |
| GSM6736400 |
Rousettus aegyptiacus PBL, LPS |
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| Relations |
| BioProject |
PRJNA902735 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE218199_RAW.tar |
118.5 Mb |
(http)(custom) |
TAR (of H5) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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