Back

Viral receptor profiles of masked palm civet revealed by single-cell transcriptomics

Chen, D.; Ou, Z.; Wang, H.; Zhang, Y.; Zhu, J.; An, F.; Xu, J.; Ding, X.; Ding, P.; Luo, L.; Wu, W.; Qin, Q.; Wei, Y.; Zhao, W.; Lv, Z.; Lan, T.; Li, M.; Zhang, W.; Liu, H.; Hua, Y.

2021-07-21 immunology
10.1101/2021.07.20.452903 bioRxiv
Show abstract

Civets are small mammals belonging to the family Viverridae. The masked palm civets (Paguma larvata) served as an intermediate host in the bat-to-human transmission of severe acute respiratory syndrome coronavirus (SARS-CoV) in 20031. Because of their unique role in the SARS outbreak, civets were suspected as a potential intermediate host of SARS-CoV-2, the etiological pathogen of the COVID-19 pandemic. Besides their susceptibility to coronaviruses, civets can also be infected by other viruses, such as canine distemper viruses2, parvoviruses3, influenza viruses4, etc. Regarding the ecological and economical role of civets, it is vital to evaluate the potential threats from different pathogens to these animals. Receptor binding is a necessary step for virus entry into host cells. Understanding the distribution of receptors of various viruses provides hints to their potential tissue tropisms. Herein, we characterized the cell atlas of five important organs (the frontal lobe, lung, liver, spleen and kidney) of masked palm civets (Paguma larvata) and described the expression profiles of receptor associated genes of 132 viruses from 25 families, including 16 viruses from 10 families reported before that can attack civets and 116 viruses with little infection record.

Matching journals

The top 10 journals account for 50% of the predicted probability mass.

1
Viruses
○ 332 papers in training set
Top 0.3%
9.7%
Similar papers in this journal
2
Journal of Virology
● 499 papers in training set
Top 0.9%
7.8%
Similar papers in this journal
3
Journal of Medical Virology
○ 140 papers in training set
Top 0.3%
5.4%
Similar papers in this journal
4
Microbiology Spectrum
● 469 papers in training set
Top 3%
5.4%
Similar papers in this journal
5
Emerging Microbes & Infections
○ 74 papers in training set
Top 0.2%
5.1%
Similar papers in this journal
6
Scientific Reports
○ 3612 papers in training set
Top 20%
4.8%
7
iScience
○ 1154 papers in training set
Top 5%
4.0%
8
Nature Communications
○ 5641 papers in training set
Top 33%
3.5%
9
The Innovation
○ 13 papers in training set
Top 0.1%
3.4%
10
Frontiers in Immunology
○ 638 papers in training set
Top 4%
3.2%
50% of probability mass above
11
PLOS Neglected Tropical Diseases
● 466 papers in training set
Top 3%
2.6%
12
PLOS Pathogens
● 820 papers in training set
Top 5%
2.6%
13
Archives of Virology
○ 15 papers in training set
Top 0.1%
1.9%
14
Gut
● 40 papers in training set
Top 0.5%
1.7%
15
Communications Biology
○ 993 papers in training set
Top 14%
1.7%
16
Heliyon
○ 152 papers in training set
Top 3%
1.7%
17
PLOS ONE
● 5266 papers in training set
Top 47%
1.7%
18
Science Bulletin
○ 21 papers in training set
Top 0.2%
1.5%
19
Biochemical and Biophysical Research Communications
○ 84 papers in training set
Top 1%
1.4%
20
Virologica Sinica
○ 11 papers in training set
Top 0.1%
1.4%
21
BMC Biology
○ 265 papers in training set
Top 3%
1.3%
22
eLife
● 5828 papers in training set
Top 59%
1.1%
23
Protein & Cell
◐ 25 papers in training set
Top 0.3%
1.1%
24
Virology
○ 61 papers in training set
Top 1%
1.1%
25
Proceedings of the National Academy of Sciences
● 2444 papers in training set
Top 39%
1.0%
26
Influenza and Other Respiratory Viruses
○ 46 papers in training set
Top 0.6%
1.0%
27
Journal of Biomedical Science
○ 17 papers in training set
Top 0.3%
0.8%
28
Cell
○ 431 papers in training set
Top 10%
0.8%
29
Frontiers in Genetics
○ 230 papers in training set
Top 5%
0.8%
30
Med
○ 39 papers in training set
Top 0.8%
0.8%

"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.