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      Myeloid CD40 deficiency reduces atherosclerosis by impairing macrophages’ transition into a pro-inflammatory state

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          Abstract

          Aims

          CD40 and its ligand, CD40L, play a critical role in driving atherosclerotic plaque development. Disrupted CD40-signalling reduces experimental atherosclerosis and induces a favourable stable plaque phenotype. We recently showed that small molecule-based inhibition of CD40-tumour necrosis factor receptor associated factor-6 interactions attenuates atherosclerosis in hyperlipidaemic mice via macrophage-driven mechanisms. The present study aims to detail the function of myeloid CD40 in atherosclerosis using myeloid-specific CD40-deficient mice.

          Method and Results

          Cd40 flox/flox and LysM-cre Cd40 flox/flox mice on an Apoe −/− background were generated ( CD40 wt and CD40 mac−/− , respectively). Atherosclerotic lesion size, as well as plaque macrophage content, was reduced in CD40 mac−/− compared to CD40 wt mice, and their plaques displayed a reduction in necrotic core size. Transcriptomics analysis of the CD40 mac−/− atherosclerotic aorta revealed downregulated pathways of immune pathways and inflammatory responses. Loss of CD40 in macrophages changed the representation of aortic macrophage subsets. Mass cytometry analysis revealed a higher content of a subset of alternative or resident-like CD206 +CD209b macrophages in the atherosclerotic aorta of CD40 mac−/− compared to CD40 wt mice. RNA-sequencing of bone marrow-derived macrophages of CD40 mac−/− mice demonstrated upregulation of genes associated with alternatively activated macrophages (including Folr2, Thbs1, Sdc1, and Tns1).

          Conclusions

          We here show that absence of CD40 signalling in myeloid cells reduces atherosclerosis and limits systemic inflammation by preventing a shift in macrophage polarization towards pro-inflammatory states. Our study confirms the merit of macrophage-targeted inhibition of CD40 as a valuable therapeutic strategy to combat atherosclerosis.

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          Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

          In comparative high-throughput sequencing assays, a fundamental task is the analysis of count data, such as read counts per gene in RNA-seq, for evidence of systematic changes across experimental conditions. Small replicate numbers, discreteness, large dynamic range and the presence of outliers require a suitable statistical approach. We present DESeq2, a method for differential analysis of count data, using shrinkage estimation for dispersions and fold changes to improve stability and interpretability of estimates. This enables a more quantitative analysis focused on the strength rather than the mere presence of differential expression. The DESeq2 package is available at http://www.bioconductor.org/packages/release/bioc/html/DESeq2.html. Electronic supplementary material The online version of this article (doi:10.1186/s13059-014-0550-8) contains supplementary material, which is available to authorized users.
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            Fiji: an open-source platform for biological-image analysis.

            Fiji is a distribution of the popular open-source software ImageJ focused on biological-image analysis. Fiji uses modern software engineering practices to combine powerful software libraries with a broad range of scripting languages to enable rapid prototyping of image-processing algorithms. Fiji facilitates the transformation of new algorithms into ImageJ plugins that can be shared with end users through an integrated update system. We propose Fiji as a platform for productive collaboration between computer science and biology research communities.
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              The Sequence Alignment/Map format and SAMtools

              Summary: The Sequence Alignment/Map (SAM) format is a generic alignment format for storing read alignments against reference sequences, supporting short and long reads (up to 128 Mbp) produced by different sequencing platforms. It is flexible in style, compact in size, efficient in random access and is the format in which alignments from the 1000 Genomes Project are released. SAMtools implements various utilities for post-processing alignments in the SAM format, such as indexing, variant caller and alignment viewer, and thus provides universal tools for processing read alignments. Availability: http://samtools.sourceforge.net Contact: rd@sanger.ac.uk
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                Author and article information

                Contributors
                Journal
                Cardiovasc Res
                Cardiovasc Res
                cardiovascres
                Cardiovascular Research
                Oxford University Press (US )
                0008-6363
                1755-3245
                May 2023
                19 May 2022
                19 May 2022
                : 119
                : 5
                : 1146-1160
                Affiliations
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Kennedy Institute of Rheumatology, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford , Oxford, UK
                Department of Vascular Medicine, Amsterdam Cardiovascular Sciences (ACS), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Bioinformatics Laboratory, Department of Epidemiology and Data Science, Amsterdam UMC, University of Amsterdam , Amsterdam, The Netherlands
                Bioinformatics Laboratory, Department of Epidemiology and Data Science, Amsterdam UMC, University of Amsterdam , Amsterdam, The Netherlands
                Department of Molecular Cell Biology and Immunology, Amsterdam Cardiovascular Sciences, Cancer Center Amsterdam, Amsterdam UMC, Vrije Universiteit Amsterdam , Amsterdam, Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Molecular Cell Biology and Immunology, Amsterdam Cardiovascular Sciences, Cancer Center Amsterdam, Amsterdam UMC, Vrije Universiteit Amsterdam , Amsterdam, Netherlands
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Institute of Cardiovascular Prevention (IPEK), Ludwig Maximilian’s University , Munich, Germany
                German Centre for Cardiovascular Research (DZHK), partner site Munich Heart Alliance , Munich, Germany
                Department of Biochemistry, Cardiovascular Research Institute Maastricht (CARIM), Maastricht University , Maastricht, the Netherlands
                Munich Cluster for Systems Neurology (SyNergy) , Munich, Germany
                Institute of Cardiovascular Prevention (IPEK), Ludwig Maximilian’s University , Munich, Germany
                Munich Cluster for Systems Neurology (SyNergy) , Munich, Germany
                Walter-Straub-Institute of Pharmacology and Toxicology, Ludwig-Maximilians Universität , München, Germany
                Kennedy Institute of Rheumatology, Nuffield Department of Orthopaedics, Rheumatology and Musculoskeletal Sciences, University of Oxford , Oxford, UK
                Division of Cardiology, Pulmonology and Vascular Medicine, Medical Faculty, University Hospital and Heinrich Heine University Düsseldorf , Germany
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Department of Clinical Sciences Malmö, Lund University, Clinical Research Center , Malmö, Sweden
                Department of Medical Biochemistry, Amsterdam Cardiovascular Sciences (ACS) & Amsterdam Infection and Immunity (AII), Amsterdam University Medical Centres, University of Amsterdam , Amsterdam, The Netherlands
                Institute of Cardiovascular Prevention (IPEK), Ludwig Maximilian’s University , Munich, Germany
                German Centre for Cardiovascular Research (DZHK), partner site Munich Heart Alliance , Munich, Germany
                Experimental Cardiovascular Immunology Laboratory, Department of Cardiovascular Medicine, Mayo Clinic , Rochester, MN, USA
                Author notes
                Corresponding author. Tel: +46 (0)40 391206, E-mail: annelie.shami@ 123456med.lu.se

                A.S. and E.L. contributed equally.

                Conflicts of interest: C.W., D.A., E.L. and N.G. are supported by the Deutsche Forschungs Gemeinschaft (grants CRC1123, A5, SFB 1123, TRR259, SFB1116). E.L is also supported by the Netherlands CardioVascular Research Initiative, the Dutch Heart Foundation, Dutch Federation of University Medical Centers, the Netherlands Organization for Health Research and Development and the Royal Netherlands Academy of Sciences’ for the GENIUS project ‘Generating the best evidence-based pharmaceutical targets for atherosclerosis’ (CVON2011-19), and the ERC Con grant (CD40-INN). E.L. is also the vice chair at the ESC working group on atherosclerosis, serves on the EAS programme committee and the ATVB awards and programme committee and has received payment or honoraria for lectures at Novartis and Novo Nordisk. The remaining authors have nothing to disclose.

                Author information
                https://orcid.org/0000-0002-1984-9691
                https://orcid.org/0000-0002-9676-9249
                https://orcid.org/0000-0003-2822-8050
                https://orcid.org/0000-0002-7852-2891
                https://orcid.org/0000-0003-4610-8714
                https://orcid.org/0000-0003-1985-4914
                https://orcid.org/0000-0002-6976-4397
                Article
                cvac084
                10.1093/cvr/cvac084
                10202633
                35587037
                2fe57a35-2b15-469b-b25c-ac4b6d810178
                © The Author(s) 2022. Published by Oxford University Press on behalf of the European Society of Cardiology.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License ( https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

                History
                : 16 February 2022
                : 20 April 2022
                : 04 May 2022
                : 11 June 2022
                Page count
                Pages: 15
                Categories
                Original Article
                AcademicSubjects/MED00200

                Cardiovascular Medicine
                atherosclerosis,cd40,macrophage,inflammation
                Cardiovascular Medicine
                atherosclerosis, cd40, macrophage, inflammation

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