Integrating transcriptomic datasets across neurological disease identifies unique myeloid subpopulations driving disease-specific signatures.

Autor: Wishart CL; Infection, Immunity, Inflammation Research Theme, School of Medical Sciences, Faculty of Medicine and Health, The University of Sydney, Sydney, New South Wales, Australia.; Sydney Cytometry Facility, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Ramaciotti Facility for Human Systems Biology, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Charles Perkins Centre, The University of Sydney, Sydney, New South Wales, Australia., Spiteri AG; Infection, Immunity, Inflammation Research Theme, School of Medical Sciences, Faculty of Medicine and Health, The University of Sydney, Sydney, New South Wales, Australia.; Sydney Cytometry Facility, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Ramaciotti Facility for Human Systems Biology, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Charles Perkins Centre, The University of Sydney, Sydney, New South Wales, Australia., Locatelli G; Theodor Kocher Institute, University of Bern, Bern, Switzerland.; Novartis Institutes for BioMedical Research, Novartis, Basel, Switzerland., King NJC; Infection, Immunity, Inflammation Research Theme, School of Medical Sciences, Faculty of Medicine and Health, The University of Sydney, Sydney, New South Wales, Australia.; Sydney Cytometry Facility, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Ramaciotti Facility for Human Systems Biology, The University of Sydney and Centenary Institute, Sydney, New South Wales, Australia.; Charles Perkins Centre, The University of Sydney, Sydney, New South Wales, Australia.; Sydney Institute for Infectious Diseases, Faculty of Medicine and Health, The University of Sydney, Sydney, New South Wales, Australia.; The University of Sydney Nano Institute, Faculty of Science, The University of Sydney, Sydney, New South Wales, Australia.
Jazyk: angličtina
Zdroj: Glia [Glia] 2023 Apr; Vol. 71 (4), pp. 904-925. Date of Electronic Publication: 2022 Dec 16.
DOI: 10.1002/glia.24314
Abstrakt: Microglia and bone marrow-derived monocytes are key elements of central nervous system (CNS) inflammation, both capable of enhancing and dampening immune-mediated pathology. However, the study-specific focus on individual cell types, disease models or experimental approaches has limited our ability to infer common and disease-specific responses. This meta-analysis integrates bulk and single-cell transcriptomic datasets of microglia and monocytes from disease models of autoimmunity, neurodegeneration, sterile injury, and infection to build a comprehensive resource connecting myeloid responses across CNS disease. We demonstrate that the bulk microglial and monocyte program is highly contingent on the disease environment, challenging the notion of a universal microglial disease signature. Integration of six single-cell RNA-sequencing datasets revealed that these disease-specific signatures are likely driven by differing proportions of unique myeloid subpopulations that were individually expanded in different disease settings. These subsets were functionally-defined as neurodegeneration-associated, inflammatory, interferon-responsive, phagocytic, antigen-presenting, and lipopolysaccharide-responsive cellular states, revealing a core set of myeloid responses at the single-cell level that are conserved across CNS pathology. Showcasing the predictive and practical value of this resource, we performed differential expression analysis on microglia and monocytes across disease and identified Cd81 as a new neuroinflammatory-stable gene that accurately identified microglia and distinguished them from monocyte-derived cells across all experimental models at both the bulk and single-cell level. Together, this resource dissects the influence of disease environment on shared immune response programmes to build a unified perspective of myeloid behavior across CNS pathology.
(© 2022 The Authors. GLIA published by Wiley Periodicals LLC.)
Databáze: MEDLINE
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