Impact of natural selection on global patterns of genetic variation and association with clinical phenotypes at genes involved in SARS-CoV-2 infection-Reference-Cited by-同舟云学术

Impact of natural selection on global patterns of genetic variation and association with clinical phenotypes at genes involved in SARS-CoV-2 infection

Published:2022-05-17 Issue:21 Volume:119 Page:
ISSN:0027-8424
Container-title:Proceedings of the National Academy of Sciences
language:en
Short-container-title:Proc. Natl. Acad. Sci. U.S.A.

Author:

Zhang Chao¹,Verma Anurag¹²^ORCID,Feng Yuanqing¹,Melo Marcelo C. R.³⁴⁵,McQuillan Michael¹,Hansen Matthew¹^ORCID,Lucas Anastasia¹,Park Joseph¹,Ranciaro Alessia¹,Thompson Simon¹,Rubel Meagan A.¹,Campbell Michael C.⁶,Beggs William¹,Hirbo Jibril⁷,Wata Mpoloka Sununguko⁸,George Mokone Gaonyadiwe⁹,Nyambo Thomas¹⁰,Wolde Meskel Dawit¹¹,Belay Gurja¹¹,Fokunang Charles¹²,Njamnshi Alfred K.¹³¹⁴,Omar Sabah A.¹⁵,Williams Scott M.¹⁶,Rader Daniel J.¹^ORCID,Ritchie Marylyn D.¹,de la Fuente-Nunez Cesar³⁴⁵,Sirugo Giorgio²,Tishkoff Sarah A.¹¹⁷¹⁸,Abecasis Goncalo,Baras Aris,Cantor Michael,Coppola Giovanni,Economides Aris,Lotta Luca A.,Overton John D.,Reid Jeffrey G.,Shuldiner Alan,Beechert Christina,Forsythe Caitlin,Fuller Erin D.,Gu Zhenhua,Lattari Michael,Lopez Alexander,Overton John D.,Schleicher Thomas D.,Padilla Maria Sotiropoulos,Widom Louis,Wolf Sarah E.,Pradhan Manasi,Manoochehri Kia,Ulloa Ricardo H.,Banerjee Nilanjana,Cantor Michael,Li Dadong,Sharma Deepika,Bai Xiaodong,Balasubramanian Suganthi,Blumenfeld Andrew,Boutkov Boris,Eom Gisu,Habegger Lukas,Hawes Alicia,Khalid Shareef,Krasheninina Olga,Lanche Rouel,Mansfield Adam J.,Maxwell Evan K.,Nafde Mrunali,O’Keeffe Sean,Orelus Max,Panea Razvan,Polanco Tommy,Rasool Ayesha,Reid Jeffrey G.,Salerno William,Staples Jeffrey C.,Jones Marcus B.,LeBlanc Michelle,Mitnaul Lyndon J.,

Affiliation:

1. Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104

2. Division of Translational Medicine and Human Genetics, Department of Medicine, University of Pennsylvania School of Medicine, Philadelphia, PA 19104

3. Machine Biology Group, Departments of Psychiatry and Microbiology, Institute for Biomedical Informatics, Institute for Translational Medicine and Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104

4. Departments of Bioengineering and Chemical and Biomolecular Engineering, School of Engineering and Applied Science, University of Pennsylvania, Philadelphia, PA 19104

5. Penn Institute for Computational Science, University of Pennsylvania, Philadelphia, PA 19104

6. Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089

7. Department of Medicine, Vanderbilt University, Nashville, TN 37232

8. Biological Sciences, University of Botswana, Gaborone, Botswana

9. Faculty of Medicine, University of Botswana, Gaborone, Botswana

10. Department of Biochemistry, Kampala International University in Tanzania, Dar es Salaam, Tanzania

11. Department of Microbial Cellular and Molecular Biology, Addis Ababa University, Addis Ababa, Ethiopia

12. Department of Pharmacotoxicology and Pharmacokinetics, Faculty of Medicine and Biomedical Sciences, The University of Yaoundé I, Yaoundé, Cameroon

13. Department of Neurology, Central Hospital Yaoundé, Yaoundé, Cameroon

14. Brain Research Africa Initiative, Neuroscience Laboratory, Faculty of Medicine and Biomedical Sciences, The University of Yaoundé I, Yaoundé, Cameroon

15. Center for Biotechnology Research and Development, Kenya Medical Research Institute, Nairobi, Kenya

16. Department of Population and Quantitative Health Sciences, Case Western Reserve University, Cleveland, OH 44106

17. Department of Biology, University of Pennsylvania, Philadelphia, PA 19104

18. Center for Global Genomics and Health Equity, University of Pennsylvania, Philadelphia, PA 19104

Abstract

Significance Viruses are strong sources of natural selection pressure during human evolutionary history. Investigating genetic diversity and detecting signatures of natural selection at host genes related to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection help to identify functionally important variation. We conducted a large study of global genomic variation at host genes that play a role in SARS-CoV-2 infection with a focus on underrepresented African populations. We identified nonsynonymous and regulatory variants at ACE2 that appear to be targets of recent natural selection in some African populations. We detected evidence of ancient adaptive evolution at TMPRSS2 in the human lineage. Genetic variants that are targets of natural selection are associated with clinical phenotypes common in patients with coronavirus disease 2019.

Publisher

Proceedings of the National Academy of Sciences

Subject

Multidisciplinary

Link

https://pnas.org/doi/pdf/10.1073/pnas.2123000119

Reference75 articles.

1. COVID-19 and African Americans

2. Racial Disparities-Associated COVID-19 Mortality among Minority Populations in the US

3. SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor

4. Structure, Function, and Antigenicity of the SARS-CoV-2 Spike Glycoprotein

5. Comparative genetic analysis of the novel coronavirus (2019-nCoV/SARS-CoV-2) receptor ACE2 in different populations

Cited by 9 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Enhancing portability of trans-ancestral polygenic risk scores through tissue-specific functional genomic data integration;PLOS Genetics;2024-08-07

2. Critically-ill COVID-19 susceptibility gene CCR3 shows natural selection in sub-Saharan Africans;Infection, Genetics and Evolution;2024-07

3. Critically-ill COVID-19 susceptibility geneCCR3shows natural selection in sub-Saharan Africans;2024-01-13

4. Increased expression of SCARF genes favoring SARS-CoV-2 infection in key target organs in CKD;Clinical Kidney Journal;2023-09-05

5. The Penn Medicine BioBank: Towards a Genomics-Enabled Learning Healthcare System to Accelerate Precision Medicine in a Diverse Population;Journal of Personalized Medicine;2022-11-29