Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19.
Mingfeng Liao,Yang Liu,Jing Yuan,Yanling Wen,Gang Xu,Juanjuan Zhao,Lin Cheng,Jinxiu Li,Xin Wang,Fuxiang Wang,Lei Liu,Ido Amit,Shuye Zhang,Zheng Zhang +13 more
TLDR
Single-cell transcriptome and T cell receptor analysis of bronchoalveolar lavage fluid suggests enrichment of proinflammatory macrophages in patients with severe COVID-19 and the presence of clonally expanded CD8 + T cells in Patients with moderate CO VID-19.Abstract:
Respiratory immune characteristics associated with Coronavirus Disease 2019 (COVID-19) severity are currently unclear. We characterized bronchoalveolar lavage fluid immune cells from patients with varying severity of COVID-19 and from healthy people by using single-cell RNA sequencing. Proinflammatory monocyte-derived macrophages were abundant in the bronchoalveolar lavage fluid from patients with severe COVID-9. Moderate cases were characterized by the presence of highly clonally expanded CD8+ T cells. This atlas of the bronchoalveolar immune microenvironment suggests potential mechanisms underlying pathogenesis and recovery in COVID-19.read more
Citations
More filters
Journal ArticleDOI
NK cells: A double edge sword against SARS-CoV-2.
Elena Masselli,Mauro Vaccarezza,Cecilia Carubbi,Giulia Pozzi,Valentina Presta,Prisco Mirandola,Marco Vitale +6 more
TL;DR: The role ofNK cells in SARS-COV2 infections causing the ongoing COVID19 pandemic is examined, keeping in mind the controversial role of NK cells specifically in viral respiratory infections and in inflammatory-driven lung damage.
Journal ArticleDOI
Activation or exhaustion of CD8 + T cells in patients with COVID-19.
TL;DR: In this paper, the authors summarize the current understanding of CD8+ T-cell exhaustion and describe the available knowledge on the phenotypes and functions of T cells in the context of activation and exhaustion.
Journal ArticleDOI
The dynamic changes in cytokine responses in COVID-19: a snapshot of the current state of knowledge.
TL;DR: “The role of cytokines in CO VID-19” online symposium was presented on 18 June 2020 by the NIH/FDA Immunology and Cytokine Interest Groups and was purposed to discuss the rapidly changing understanding of COVID-19-related cytokine responses in different stages of infection.
Journal ArticleDOI
T cell immunity to SARS-CoV-2 following natural infection and vaccination.
TL;DR: Some of the key mechanisms underlying cell-mediated immunity to respiratory viruses and the current understanding of the functional capacity and role of SARS-CoV-2-specific T cells following natural infection and vaccination are reviewed.
Journal ArticleDOI
Cellular events of acute, resolving or progressive COVID-19 in SARS-CoV-2 infected non-human primates.
Marissa Fahlberg,Robert V Blair,Lara A. Doyle-Meyers,Cecily C. Midkiff,Giorgio Zenere,Kasi E. Russell-Lodrigue,Chris J. Monjure,E Haupt,Toni Penney,Gabrielle Lehmicke,Breanna Threeton,Nadia A. Golden,Prasun K. Datta,Chad J. Roy,Rudolf P. Bohm,Nicholas J. Maness,Tracy Fischer,Jay Rappaport,Monica Vaccari +18 more
TL;DR: The results unravel cellular mechanisms of COVID-19 and suggest that NHP may be appropriate models to test immune therapies, and animals with anti-inflammatory responses including high IL-10:IL-6 and kynurenine to tryptophan ratios show less severe illness.
References
More filters
Journal ArticleDOI
Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China
Chaolin Huang,Yeming Wang,Xingwang Li,Lili Ren,Jianping Zhao,Yi Hu,Li Zhang,Guohui Fan,Jiuyang Xu,Xiaoying Gu,Zhenshun Cheng,Ting Yu,Jia'an Xia,Yuan Wei,Wenjuan Wu,Xuelei Xie,Wen Yin,Li Hui,Min Liu,Yan Xiao,Hong Gao,Li Guo,Jungang Xie,Guang-Fa Wang,Rongmeng Jiang,Zhancheng Gao,Qi Jin,Jianwei Wang,Bin Cao +28 more
TL;DR: The epidemiological, clinical, laboratory, and radiological characteristics and treatment and clinical outcomes of patients with laboratory-confirmed 2019-nCoV infection in Wuhan, China, were reported.
Journal ArticleDOI
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
Aravind Subramanian,Pablo Tamayo,Vamsi K. Mootha,Sayan Mukherjee,Benjamin L. Ebert,Michael A. Gillette,Amanda G. Paulovich,Scott L. Pomeroy,Todd R. Golub,Eric S. Lander,Jill P. Mesirov +10 more
TL;DR: The Gene Set Enrichment Analysis (GSEA) method as discussed by the authors focuses on gene sets, that is, groups of genes that share common biological function, chromosomal location, or regulation.
Journal ArticleDOI
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin,Carrie A. Davis,Felix Schlesinger,Jorg Drenkow,Chris Zaleski,Sonali Jha,Philippe Batut,Mark Chaisson,Thomas R. Gingeras +8 more
TL;DR: The Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure outperforms other aligners by a factor of >50 in mapping speed.
Journal ArticleDOI
clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters
TL;DR: An R package, clusterProfiler that automates the process of biological-term classification and the enrichment analysis of gene clusters and can be easily extended to other species and ontologies is presented.
Journal ArticleDOI
Comprehensive Integration of Single-Cell Data.
Tim Stuart,Andrew Butler,Paul J. Hoffman,Christoph Hafemeister,Efthymia Papalexi,William M. Mauck,Yuhan Hao,Marlon Stoeckius,Peter Smibert,Rahul Satija +9 more
TL;DR: A strategy to "anchor" diverse datasets together, enabling us to integrate single-cell measurements not only across scRNA-seq technologies, but also across different modalities.
Related Papers (5)
Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China
Chaolin Huang,Yeming Wang,Xingwang Li,Lili Ren,Jianping Zhao,Yi Hu,Li Zhang,Guohui Fan,Jiuyang Xu,Xiaoying Gu,Zhenshun Cheng,Ting Yu,Jia'an Xia,Yuan Wei,Wenjuan Wu,Xuelei Xie,Wen Yin,Li Hui,Min Liu,Yan Xiao,Hong Gao,Li Guo,Jungang Xie,Guang-Fa Wang,Rongmeng Jiang,Zhancheng Gao,Qi Jin,Jianwei Wang,Bin Cao +28 more