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Series GSE183300 Query DataSets for GSE183300
Status Public on Sep 04, 2021
Title Single cell atlas for mammals, reptiles and birds
Organisms Anas platyrhynchos; Columba livia; Canis lupus familiaris; Felis catus; Capra aegagrus; Manis javanica; Oryctolagus cuniculus; Mesocricetus auratus; Anolis carolinensis; Cervus nippon taiouanus; Panthera tigris altaica
Experiment type Expression profiling by high throughput sequencing
Summary The availability of viral entry factors is a prerequisite for the cross-species transmission of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Large-scale single-cell screening on animal cells is a powerful tool to reveal the expression patterns of viral entry genes for different hosts. But such exploration for SARS-CoV-2 remained limited. Here, we presented the broadest pan-species single-nucleus RNA sequencing study to date, covering 11 representative species in pets (cat, dog, hamster, lizard), livestock (goat, rabbit), poultry (duck, pigeon) and wildlife (pangolin, tiger, deer), from which we investigated the co-expression of ACE2 and TMPRSS2. Notably, the proportion of SARS-CoV-2 putative target cells in cat was found considerably higher than that of other species investigated in this study, highlighting the necessity to carefully evaluate the role of cats during SARS-CoV-2 circulation. Furthermore, cross-species analysis of comparative lung cell atlas in mammals, reptiles and birds revealed core developmental programs, critical connectomes and conserved regulatory circuits among evolutionarily distant species. Additionally, we developed a user-friendly and freely accessible online platform named PANDORA for researchers to fully exploit the pan-species single cell atlas. Overall, our work provides a compendium of gene expression profiles for non-model animals, which could be employed to identify potential SARS-CoV-2 target cells and narrow down putative zoonotic reservoirs. Alternatively, our resources could also be utilized to illuminate the cellular and molecular mechanisms underlying animal tissue evolution.
 
Overall design To investigate the expression of SARS-CoV-2 receptors ACE2 and TMPRSS2 from 11 representative species in pets (cat, dog, hamster, lizard), livestock (goat, rabbit), poultry (duck, pigeon) and wildlife (pangolin, tiger, deer).
 
Contributor(s) Chen D
Citation(s)
  • Chen D, Sun J, Zhu J, Ding X et al. Single cell atlas for 11 non-model mammals, reptiles and birds. Nat Commun 2021 Dec 6;12(1):7083. PMID: 34873160
BioProject PRJNA747757
Submission date Sep 02, 2021
Last update date Jan 10, 2022
Contact name CNSA CNGB
Organization name BGI
Street address BGI
City shenzhen
ZIP/Postal code 518083
Country China
 
Platforms (11)
GPL27961 BGISEQ-500 (Canis lupus familiaris)
GPL28238 BGISEQ-500 (Columba livia)
GPL28431 BGISEQ-500 (Oryctolagus cuniculus)
Samples (29)
GSM5555207 sn-RNAseq of Duck Lung
GSM5555208 sn-RNAseq of Lizard Lung
GSM5555209 sn-RNAseq of Dog Lung
Relations
SRA SRP329017

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
GSE183300_RAW.tar 717.7 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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