Single cell atlas for 11 non-model mammals, reptiles and birds

被引：40

作者：

Chen, Dongsheng ^{[1
]}

Sun, Jian ^{[2
,3
]}

Zhu, Jiacheng ^{[1
,4
]}

Ding, Xiangning ^{[1
,4
]}

Lan, Tianming ^{[1
,5
]}

Wang, Xiran ^{[2
,3
]}

Wu, Weiying ^{[1
]}

Ou, Zhihua ^{[1
]}

Zhu, Linnan ^{[1
]}

Ding, Peiwen ^{[1
,4
]}

Wang, Haoyu ^{[1
,4
]}

Luo, Lihua ^{[1
,4
]}

Xiang, Rong ^{[1
,4
]}

Wang, Xiaoling ^{[1
,4
]}

Qiu, Jiaying ^{[1
,4
]}

Wang, Shiyou ^{[1
,4
]}

Li, Haimeng ^{[1
,4
]}

Chai, Chaochao ^{[1
,4
]}

Liang, Langchao ^{[1
,4
]}

An, Fuyu ^{[6
]}

Zhang, Le ^{[7
]}

Han, Lei ^{[7
]}

Zhu, Yixin ^{[1
,4
]}

Wang, Feiyue ^{[1
]}

Yuan, Yuting ^{[1
]}

Wu, Wendi ^{[1
]}

Sun, Chengcheng ^{[1
,4
]}

Lu, Haorong ^{[8
,9
]}

Wu, Jihong ^{[10
,11
,12
]}

Sun, Xinghuai ^{[10
,11
,12
]}

Zhang, Shenghai ^{[10
,11
,12
]}

Sahu, Sunil Kumar ^{[1
]}

Liu, Ping ^{[1
]}

Xia, Jun ^{[1
]}

Zhang, Lijing ^{[1
,4
]}

Chen, Haixia ^{[1
,4
]}

Fang, Dongming ^{[1
]}

Zeng, Yuying ^{[1
,4
]}

Wu, Yiquan ^{[13
]}

Cui, Zehua ^{[2
,3
]}

He, Qian ^{[2
,3
]}

Jiang, Sanjie ^{[1
]}

Ma, Xiaoyan ^{[14
]}

Feng, Weimin ^{[1
]}

Xu, Yan ^{[1
]}

Li, Fang ^{[15
]}

Liu, Zhongmin ^{[15
]}

Chen, Lei ^{[16
]}

Chen, Fang ^{[1
]}

Jin, Xin ^{[1
]}

机构：

[1] BGI Shenzhen, Shenzhen 518083, Peoples R China

[2] South China Agr Univ, Natl Risk Assessment Lab Antimicrobial Resistance, Guangzhou 510642, Peoples R China

[3] Guangdong Lab Lingnan Modern Agr, Guangzhou 510642, Peoples R China

[4] Univ Chinese Acad Sci, Coll Life Sci, Beijing 100049, Peoples R China

[5] Univ Copenhagen, Dept Biol, DK-2100 Copenhagen, Denmark

[6] Guangdong Acad Forestry, Guangdong Prov Key Lab Silviculture Protect & Uti, Guangzhou 510520, Peoples R China

[7] Northeast Forestry Univ, Coll Wildlife Resources, Harbin 150040, Peoples R China

[8] BGI Shenzhen, China Natl Genebank, Shenzhen 518120, Peoples R China

[9] BGI Shenzhen, Shenzhen Key Lab Environm Microbial Genom & Appli, Shenzhen 518120, Peoples R China

[10] Fudan Univ, Eye & ENT Hosp, Coll Med, Shanghai, Peoples R China

[11] Commiss Shanghai Municipal, Shanghai Key Lab Visual Impairment & Restorat Sci, Shanghai, Peoples R China

[12] Minist Hlth, Key Lab Myopia, Shanghai, Peoples R China

[13] NCI, HIV & AIDS Malignancy Branch, Ctr Canc Res, Natl Inst Hlth, Bethesda, MD 20892 USA

[14] Univ Cambridge, Dept Biochem, Cambridge CB2 1QW, England

[15] Tongji Univ, Sch Med, East Hosp, Res Ctr Translat Med, 150 Jimo Rd, Shanghai 200120, Peoples R China

[16] Yangzhou Univ, Coll Vet Med, Yangzhou 225009, Jiangsu, Peoples R China

[17] Sun Yat Sen Univ, Affiliated Hosp 3, Dept Neurol, Guangzhou 510080, Peoples R China

[18] Chinese Acad Agr Sci, Inst Special Anim & Plant Sci ISAPS, Changchun, Peoples R China

[19] BGI Shenzhen, Guangdong Prov Acad Workstat BGI Synthet Genom, Shenzhen 518120, Peoples R China

[20] Northeast Forestry Univ, Coll Wildlife & Protected Areas, 26,Hexing Rd, Harbin 150040, Peoples R China

[21] BGI Shenzhen, State Key Lab Agr Genom, Shenzhen 518083, Peoples R China

[22] BGI Shenzhen, Guangdong Prov Key Lab Genome Read & Write, Shenzhen 518083, Peoples R China

来源：

NATURE COMMUNICATIONS | 2021年 / 12卷 / 01期

基金：

国家重点研发计划;

关键词：

VIRUS; LUNG; CORONAVIRUS; RECEPTOR; INFECTION; DIFFERENTIATION; PROLIFERATION; PATHOGENESIS; DIVERGENCE; SEMAPHORIN;

D O I：

10.1038/s41467-021-27162-2

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Here the authors report single-nucleus RNA sequencing for several anatomical locations in 11 species, including cat, dog, hamster, lizard, goat, rabbit, duck, pigeon, pangolin, tiger, and deer, highlighting coexpression of SARS-CoV-2 entry factors ACE2 and TMPRSS2. 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 of animal cells could reveal the expression patterns of viral entry genes in different hosts. However, such exploration for SARS-CoV-2 remains limited. Here, we perform single-nucleus RNA sequencing for 11 non-model species, including pets (cat, dog, hamster, and lizard), livestock (goat and rabbit), poultry (duck and pigeon), and wildlife (pangolin, tiger, and deer), and investigated the co-expression of ACE2 and TMPRSS2. Furthermore, cross-species analysis of the lung cell atlas of the studied mammals, reptiles, and birds reveals core developmental programs, critical connectomes, and conserved regulatory circuits among these evolutionarily distant species. 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 putative zoonotic reservoirs.

引用

页数：17

共 100 条

[51] Transcriptional control of lung alveolar type 1 cell development and maintenance by NK homeobox 2-1 [J].

Little, Danielle R. ;

Gerner-Mauro, Kamryn N. ;

Flodby, Per ;

Crandall, Edward D. ;

Borok, Zea ;

Akiyama, Haruhiko ;

Kimura, Shioko ;

Ostrin, Edwin J. ;

Chen, Jichao .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2019, 116 (41) :20545-20555

[52] Viral Metagenomics Revealed Sendai Virus and Coronavirus Infection of Malayan Pangolins (Manis java']javanica) [J].

Liu, Ping ;

Chen, Wu ;

Chen, Jin-Ping .

VIRUSES-BASEL, 2019, 11 (11)

[53]

Liu Y., 2020, BIORXIV, DOI [10.1101/2020.04.22.046565, DOI 10.1101/2020.04.22.046565]

[54] Single cell RNA sequencing of human liver reveals distinct intrahepatic macrophage populations [J].

MacParland, Sonya A. ;

Liu, Jeff C. ;

Ma, Xue-Zhong ;

Innes, Brendan T. ;

Bartczak, Agata M. ;

Gage, Blair K. ;

Manuel, Justin ;

Khuu, Nicholas ;

Echeverri, Juan ;

Linares, Ivan ;

Gupta, Rahul ;

Cheng, Michael L. ;

Liu, Lewis Y. ;

Camat, Damra ;

Chung, Sai W. ;

Seliga, Rebecca K. ;

Shao, Zigong ;

Lee, Elizabeth ;

Ogawa, Shinichiro ;

Ogawa, Mina ;

Wilson, Michael D. ;

Fish, Jason E. ;

Selzner, Markus ;

Ghanekar, Anand ;

Grant, David ;

Greig, Paul ;

Sapisochin, Gonzalo ;

Selzner, Nazia ;

Winegarden, Neil ;

Adeyi, Oyedele ;

Keller, Gordon ;

Bader, Gary D. ;

McGilvray, Ian D. .

NATURE COMMUNICATIONS, 2018, 9

[55]

Maniatis NA, 2012, ADV EXP MED BIOL, V729, P157, DOI 10.1007/978-1-4614-1222-9_11

[56] From People to Panthera: Natural SARS-CoV-2 Infection in Tigers and Lions at the Bronx Zoo [J].

McAloose, Denise ;

Laverack, Melissa ;

Wang, Leyi ;

Killian, Mary Lea ;

Caserta, Leonardo C. ;

Yuan, Fangfeng ;

Mitchell, Patrick K. ;

Queen, Krista ;

Mauldin, Matthew R. ;

Cronk, Brittany D. ;

Bartlett, Susan L. ;

Sykes, John M. ;

Zec, Stephanie ;

Stokol, Tracy ;

Ingerman, Karen ;

Delaney, Martha A. ;

Fredrickson, Richard ;

Ivancic, Marina ;

Jenkins-Moore, Melinda ;

Mozingo, Katie ;

Franzen, Kerrie ;

Bergeson, Nichole Hines ;

Goodman, Laura ;

Wang, Haibin ;

Fang, Ying ;

Olmstead, Colleen ;

McCann, Colleen ;

Thomas, Patrick ;

Goodrich, Erin ;

Elvinger, Francois ;

Smith, David C. ;

Tong, Suxiang ;

Slavinski, Sally ;

Calle, Paul P. ;

Terio, Karen ;

Torchetti, Mia Kim ;

Diel, Diego G. .

MBIO, 2020, 11 (05) :1-13

[57] The Regulation of Fibroblast to Myofibroblast Activation by Zinc Finger E-Box Binding Homeobox 1 and 2 [J].

Meikle, Zach ;

Yu, Liping ;

Netticandan, Thomas ;

Wigle, Jeffrey .

FASEB JOURNAL, 2020, 34

[58] AN ENZYME-LINKED IMMUNOSORBENT-ASSAY USING CANINE CORONAVIRUS-INFECTED CRFK CELLS AS ANTIGEN FOR DETECTION OF ANTI-CORONAVIRUS ANTIBODY IN CAT [J].

MOCHIZUKI, M ;

FURUKAWA, H .

COMPARATIVE IMMUNOLOGY MICROBIOLOGY AND INFECTIOUS DISEASES, 1989, 12 (04) :139-146

[59] Uterine influences on conceptus development in fertility-classified animals [J].

Moraes, Joao G. N. ;

Behura, Susanta K. ;

Geary, Thomas W. ;

Hansen, Peter J. ;

Neibergs, Holly L. ;

Spencer, Thomas E. .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2018, 115 (08) :E1749-E1758

[60] Detection and full genome characterization of two beta CoV viruses related to Middle East respiratory syndrome from bats in Italy [J].

Moreno, Ana ;

Lelli, Davide ;

de Sabato, Luca ;

Zaccaria, Guendalina ;

Boni, Arianna ;

Sozzi, Enrica ;

Prosperi, Alice ;

Lavazza, Antonio ;

Cella, Eleonora ;

Castrucci, Maria Rita ;

Cicozzi, Massimo ;

Vaccari, Gabriele .

VIROLOGY JOURNAL, 2017, 14

← 1 2 3 4 5 6 7 8 9 10 →