Single-cell multi-omics analysis of the immune response in COVID-19

Nature Medicine, Journal Year: 2021, Volume and Issue: 27(5), P. 904 - 916

Published: April 20, 2021

Analysis of human blood immune cells provides insights into the coordinated response to viral infections such as severe acute respiratory syndrome coronavirus 2, which causes disease 2019 (COVID-19). We performed single-cell transcriptome, surface proteome and T B lymphocyte antigen receptor analyses over 780,000 peripheral mononuclear from a cross-sectional cohort 130 patients with varying severities COVID-19. identified expansion nonclassical monocytes expressing complement transcripts (CD16

Language: Английский

---

Cross-tissue immune cell analysis reveals tissue-specific features in humans

Science, Journal Year: 2022, Volume and Issue: 376(6594)

Published: May 12, 2022

Despite their crucial role in health and disease, our knowledge of immune cells within human tissues remains limited. We surveyed the compartment 16 from 12 adult donors by single-cell RNA sequencing VDJ generating a dataset ~360,000 cells. To systematically resolve cell heterogeneity across tissues, we developed CellTypist, machine learning tool for rapid precise type annotation. Using this approach, combined with detailed curation, determined tissue distribution finely phenotyped types, revealing hitherto unappreciated tissue-specific features clonal architecture T B Our multitissue approach lays foundation identifying highly resolved types leveraging common reference dataset, tissue-integrated expression analysis, antigen receptor sequencing.

Language: Английский

---

Clinical relevance of tumour-associated macrophages

Nature Reviews Clinical Oncology, Journal Year: 2022, Volume and Issue: 19(6), P. 402 - 421

Published: March 30, 2022

Language: Английский

---

Inflammasome activation in infected macrophages drives COVID-19 pathology

Nature, Journal Year: 2022, Volume and Issue: 606(7914), P. 585 - 593

Published: April 28, 2022

Language: Английский

---

Tissue-specific macrophages: how they develop and choreograph tissue biology

Nature reviews. Immunology, Journal Year: 2023, Volume and Issue: 23(9), P. 563 - 579

Published: March 15, 2023

Macrophages are innate immune cells that form a 3D network in all our tissues, where they phagocytose dying and cell debris, complexes, bacteria other waste products. Simultaneously, produce growth factors signalling molecules — such activities not only promote host protection response to invading microorganisms but also crucial for organ development homeostasis. There is mounting evidence of macrophages orchestrating fundamental physiological processes, as blood vessel formation, adipogenesis, metabolism central peripheral neuronal function. In parallel, novel methodologies have led the characterization tissue-specific macrophages, with distinct subpopulations these showing different developmental trajectories, transcriptional programmes life cycles. Here, we summarize growing knowledge macrophage diversity how subsets orchestrate tissue We further interrelate ontogeny their core functions across is, events within niche may control functionality during development, homeostasis ageing. Finally, highlight open questions will need be addressed by future studies better understand subsets. important immunity infections clearing products from maintain health regulating metabolism, many biological processes. Elvira Mass co-workers discuss populations found throughout body, highlighting shared unique aspects functions.

Language: Английский

---

Single-nucleus cross-tissue molecular reference maps toward understanding disease gene function

Science, Journal Year: 2022, Volume and Issue: 376(6594)

Published: May 12, 2022

Understanding gene function and regulation in homeostasis disease requires knowledge of the cellular tissue contexts which genes are expressed. Here, we applied four single-nucleus RNA sequencing methods to eight diverse, archived, frozen types from 16 donors 25 samples, generating a cross-tissue atlas 209,126 nuclei profiles, integrated across tissues, donors, laboratory with conditional variational autoencoder. Using resulting atlas, highlight shared tissue-specific features tissue-resident cell populations; identify that might contribute neuromuscular, metabolic, immune components monogenic diseases biological processes involved their pathology; determine modules underlie mechanisms for complex traits analyzed by genome-wide association studies.

Language: Английский

---

M1/M2 macrophages and their overlaps – myth or reality?

Clinical Science, Journal Year: 2023, Volume and Issue: 137(15), P. 1067 - 1093

Published: Aug. 1, 2023

Abstract Macrophages represent heterogeneous cell population with important roles in defence mechanisms and homoeostasis. Tissue macrophages from diverse anatomical locations adopt distinct activation states. M1 M2 are two polarized forms of mononuclear phagocyte vitro differentiation phenotypic patterns functional properties, but vivo, there is a wide range different macrophage phenotypes between depending on the microenvironment natural signals they receive. In human infections, pathogens use strategies to combat these include shaping polarization towards one or another phenotype. infiltrating tumours can affect patient’s prognosis. have been shown promote tumour growth, while provide both tumour-promoting anti-tumour properties. autoimmune diseases, prolonged activation, as well altered function contribute their onset activity. atherosclerotic lesions, expressing profiles detected potential factors affecting occurrence cardiovascular diseases. allergic inflammation, T2 cytokines drive profiles, which airway inflammation remodelling. transplantations seem acute rejection, fibrosis graft. The view pro-inflammatory suppressing seems be an oversimplification because cells exploit very high level plasticity large scale immunophenotypes overlapping this respect, it would more precise describe M1-like M2-like.

Language: Английский

---

Diversity of Macrophages in Lung Homeostasis and Diseases

Frontiers in Immunology, Journal Year: 2021, Volume and Issue: 12

Published: Sept. 24, 2021

Lung macrophages play important roles in the maintenance of homeostasis, pathogen clearance and immune regulation. The different types pulmonary their lung diseases have attracted attention recent years. Alveolar (AMs), including tissue-resident alveolar (TR-AMs) monocyte-derived (Mo-AMs), as well interstitial (IMs) are major macrophage populations unique characteristics both steady-state conditions disease states. these three determine they development disease. Therefore, it is to fully understand similarities differences among for study diseases. In this review, we will discuss physiological functions acute chronic We also possible methods target

Language: Английский

---

The impact of the lung environment on macrophage development, activation and function: diversity in the face of adversity

Mucosal Immunology, Journal Year: 2022, Volume and Issue: 15(2), P. 223 - 234

Published: Jan. 11, 2022

The last decade has been somewhat of a renaissance period for the field macrophage biology. This renewed interest, combined with advent new technologies and development novel model systems to assess different facets biology, led major advances in our understanding diverse roles macrophages play health, inflammation, infection repair, dominance tissue environments influencing all these areas. Here, we discuss recent developments lung heterogeneity, ontogeny, metabolism function context health disease, highlight core conceptual key unanswered questions that believe should be focus work coming years.

Language: Английский

---

Immuno-proteomic profiling reveals aberrant immune cell regulation in the airways of individuals with ongoing post-COVID-19 respiratory disease

Immunity, Journal Year: 2022, Volume and Issue: 55(3), P. 542 - 556.e5

Published: Jan. 26, 2022

Some patients hospitalized with acute COVID-19 suffer respiratory symptoms that persist for many months. We delineated the immune-proteomic landscape in airways and peripheral blood of healthy controls post-COVID-19 3 to 6 months after hospital discharge. Post-COVID-19 showed abnormal airway (but not plasma) proteomes, an elevated concentration proteins associated apoptosis, tissue repair, epithelial injury versus individuals. Increased numbers cytotoxic lymphocytes were observed individuals greater dysfunction, while increased B cell altered monocyte subsets more widespread lung abnormalities. A one-year follow-up some indicated these abnormalities resolved over time. In summary, causes a prolonged change immune those persistent disease, evidence death repair linked ongoing activation T cells.

Language: Английский

---