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      GSDME-mediated pyroptosis promotes the progression and associated inflammation of atherosclerosis

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          Abstract

          Pyroptosis, a type of Gasdermin-mediated cell death, contributes to an exacerbation of inflammation. To test the hypothesis that GSDME-mediated pyroptosis aggravates the progression of atherosclerosis, we generate ApoE and GSDME dual deficiency mice. As compared with the control mice, GSDME −/− /ApoE −/− mice show a reduction of atherosclerotic lesion area and inflammatory response when induced with a high-fat diet. Human atherosclerosis single-cell transcriptome analysis demonstrates that GSDME is mainly expressed in macrophages. In vitro, oxidized low-density lipoprotein (ox-LDL) induces GSDME expression and pyroptosis in macrophages. Mechanistically, ablation of GSDME in macrophages represses ox-LDL-induced inflammation and macrophage pyroptosis. Moreover, the signal transducer and activator of transcription 3 (STAT3) directly correlates with and positively regulates GSDME expression. This study explores the transcriptional mechanisms of GSDME during atherosclerosis development and indicates that GSDME-mediated pyroptosis in the progression of atherosclerosis could be a potential therapeutic approach for atherosclerosis.

          Abstract

          Macrophages have been shown to have an important function in atherosclerosis. Here the authors show that, in human atherosclerotic plaques and mouse models, GSDME and pyroptosis promote atherosclerosis and inhibition of these pathways could reduce pathology associated with atherosclerotic disease.

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          Most cited references77

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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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            STAR: ultrafast universal RNA-seq aligner.

            Accurate alignment of high-throughput RNA-seq data is a challenging and yet unsolved problem because of the non-contiguous transcript structure, relatively short read lengths and constantly increasing throughput of the sequencing technologies. Currently available RNA-seq aligners suffer from high mapping error rates, low mapping speed, read length limitation and mapping biases. To align our large (>80 billon reads) ENCODE Transcriptome RNA-seq dataset, we developed 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. STAR outperforms other aligners by a factor of >50 in mapping speed, aligning to the human genome 550 million 2 × 76 bp paired-end reads per hour on a modest 12-core server, while at the same time improving alignment sensitivity and precision. In addition to unbiased de novo detection of canonical junctions, STAR can discover non-canonical splices and chimeric (fusion) transcripts, and is also capable of mapping full-length RNA sequences. Using Roche 454 sequencing of reverse transcription polymerase chain reaction amplicons, we experimentally validated 1960 novel intergenic splice junctions with an 80-90% success rate, corroborating the high precision of the STAR mapping strategy. STAR is implemented as a standalone C++ code. STAR is free open source software distributed under GPLv3 license and can be downloaded from http://code.google.com/p/rna-star/.
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              clusterProfiler: an R package for comparing biological themes among gene clusters.

              Increasing quantitative data generated from transcriptomics and proteomics require integrative strategies for analysis. Here, we present an R package, clusterProfiler that automates the process of biological-term classification and the enrichment analysis of gene clusters. The analysis module and visualization module were combined into a reusable workflow. Currently, clusterProfiler supports three species, including humans, mice, and yeast. Methods provided in this package can be easily extended to other species and ontologies. The clusterProfiler package is released under Artistic-2.0 License within Bioconductor project. The source code and vignette are freely available at http://bioconductor.org/packages/release/bioc/html/clusterProfiler.html.
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                Author and article information

                Contributors
                zuyiyuan@mail.xjtu.edu.cn
                yue.wu@xjtu.edu.cn
                Journal
                Nat Commun
                Nat Commun
                Nature Communications
                Nature Publishing Group UK (London )
                2041-1723
                18 February 2023
                18 February 2023
                2023
                : 14
                : 929
                Affiliations
                [1 ]GRID grid.452438.c, ISNI 0000 0004 1760 8119, Department of Cardiovascular Medicine, , The First Affiliated Hospital of Xi’an Jiaotong University, ; Xi’an, Shaanxi China
                [2 ]GRID grid.43169.39, ISNI 0000 0001 0599 1243, Key Laboratory of Environment and Genes Related to Diseases, , Ministry of Education, Xi’an Jiaotong University, ; Xi’an, Shaanxi China
                [3 ]GRID grid.43169.39, ISNI 0000 0001 0599 1243, Department of Vascular Surgery, The First Affiliated Hospital, , Xi’an Jiaotong University, ; Xi’an, Shaanxi China
                [4 ]GRID grid.43169.39, ISNI 0000 0001 0599 1243, Department of Pharmacy, The First Affiliated Hospital, , Xi’an Jiaotong University, ; Xi’an, Shaanxi China
                Author information
                http://orcid.org/0000-0002-3023-6394
                http://orcid.org/0000-0003-4905-132X
                http://orcid.org/0000-0002-7341-6889
                http://orcid.org/0000-0002-0084-2510
                Article
                36614
                10.1038/s41467-023-36614-w
                9938904
                36807553
                ad1f79d0-fe28-4694-888f-5de2b95d5c85
                © The Author(s) 2023

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 30 September 2021
                : 9 February 2023
                Funding
                Funded by: FundRef https://doi.org/10.13039/501100001809, National Natural Science Foundation of China (National Science Foundation of China);
                Award ID: 92049203
                Award ID: 81941005
                Award ID: 81822005
                Award ID: 81970351
                Award Recipient :
                Funded by: National key R&D Program of China 2021YFA1301201
                Funded by: National Key R&D Program of China, 2019YFA0802300. The Clinical Research Award of the First Affiliated Hospital of Xi'an Jiaotong University, China, XJTU1AF-CRF-2017-006
                Categories
                Article
                Custom metadata
                © The Author(s) 2023

                Uncategorized
                cardiovascular diseases,atherosclerosis,inflammation,foam cells,cell death and immune response

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