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      Lipopolysaccharide detection by the innate immune system may be an uncommon defence strategy used in nature

      review-article
      1 , 2 , 3 , 1 , 4 ,
      Open Biology
      The Royal Society
      LPS, TLR4, innate immunity, inflammasomes, inflammation, pattern recognition

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          Abstract

          Abstract

          Since the publication of the Janeway's Pattern Recognition hypothesis in 1989, study of pathogen-associated molecular patterns (PAMPs) and their immuno-stimulatory activities has accelerated. Most studies in this area have been conducted in model organisms, which leaves many open questions about the universality of PAMP biology across living systems. Mammals have evolved multiple proteins that operate as receptors for the PAMP lipopolysaccharide (LPS) from Gram-negative bacteria, but LPS is not immuno-stimulatory in all eukaryotes. In this review, we examine the history of LPS as a PAMP in mammals, recent data on LPS structure and its ability to activate mammalian innate immune receptors, and how these activities compare across commonly studied eukaryotes. We discuss why LPS may have evolved to be immuno-stimulatory in some eukaryotes but not others and propose two hypotheses about the evolution of PAMP structure based on the ecology and environmental context of the organism in question. Understanding PAMP structures and stimulatory mechanisms across multi-cellular life will provide insights into the evolutionary origins of innate immunity and may lead to the discovery of new PAMP variations of scientific and therapeutic interest.

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          Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation

          The Interactive Tree Of Life ( https://itol.embl.de ) is an online tool for the display, manipulation and annotation of phylogenetic and other trees. It is freely available and open to everyone. iTOL version 5 introduces a completely new tree display engine, together with numerous new features. For example, a new dataset type has been added (MEME motifs), while annotation options have been expanded for several existing ones. Node metadata display options have been extended and now also support non-numerical categorical values, as well as multiple values per node. Direct manual annotation is now available, providing a set of basic drawing and labeling tools, allowing users to draw shapes, labels and other features by hand directly onto the trees. Support for tree and dataset scales has been extended, providing fine control over line and label styles. Unrooted tree displays can now use the equal-daylight algorithm, proving a much greater display clarity. The user account system has been streamlined and expanded with new navigation options and currently handles >1 million trees from >70 000 individual users. Graphical Abstract iTOL: an online tool for the tree display and annotation.
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            Cleavage of GSDMD by inflammatory caspases determines pyroptotic cell death.

            Inflammatory caspases (caspase-1, -4, -5 and -11) are critical for innate defences. Caspase-1 is activated by ligands of various canonical inflammasomes, and caspase-4, -5 and -11 directly recognize bacterial lipopolysaccharide, both of which trigger pyroptosis. Despite the crucial role in immunity and endotoxic shock, the mechanism for pyroptosis induction by inflammatory caspases is unknown. Here we identify gasdermin D (Gsdmd) by genome-wide clustered regularly interspaced palindromic repeat (CRISPR)-Cas9 nuclease screens of caspase-11- and caspase-1-mediated pyroptosis in mouse bone marrow macrophages. GSDMD-deficient cells resisted the induction of pyroptosis by cytosolic lipopolysaccharide and known canonical inflammasome ligands. Interleukin-1β release was also diminished in Gsdmd(-/-) cells, despite intact processing by caspase-1. Caspase-1 and caspase-4/5/11 specifically cleaved the linker between the amino-terminal gasdermin-N and carboxy-terminal gasdermin-C domains in GSDMD, which was required and sufficient for pyroptosis. The cleavage released the intramolecular inhibition on the gasdermin-N domain that showed intrinsic pyroptosis-inducing activity. Other gasdermin family members were not cleaved by inflammatory caspases but shared the autoinhibition; gain-of-function mutations in Gsdma3 that cause alopecia and skin defects disrupted the autoinhibition, allowing its gasdermin-N domain to trigger pyroptosis. These findings offer insight into inflammasome-mediated immunity/diseases and also change our understanding of pyroptosis and programmed necrosis.
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              Pathogen recognition and innate immunity.

              Microorganisms that invade a vertebrate host are initially recognized by the innate immune system through germline-encoded pattern-recognition receptors (PRRs). Several classes of PRRs, including Toll-like receptors and cytoplasmic receptors, recognize distinct microbial components and directly activate immune cells. Exposure of immune cells to the ligands of these receptors activates intracellular signaling cascades that rapidly induce the expression of a variety of overlapping and unique genes involved in the inflammatory and immune responses. New insights into innate immunity are changing the way we think about pathogenesis and the treatment of infectious diseases, allergy, and autoimmunity.
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                Author and article information

                Contributors
                Role: ConceptualizationRole: InvestigationRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Funding acquisitionRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Journal
                Open Biol
                Open Biol
                RSOB
                royopenbio
                Open Biology
                The Royal Society
                2046-2441
                October 5, 2022
                October 2022
                October 5, 2022
                : 12
                : 10
                : 220146
                Affiliations
                [ 1 ] Division of Gastroenterology, Boston Children's Hospital and Harvard Medical School, , 300 Longwood Avenue, Boston, MA 02115, USA
                [ 2 ] Program in Virology, Harvard Medical School, , Boston, MA, USA
                [ 3 ] Department of Biology, Boston University, , 5 Cummington Mall, Boston, MA 02215, USA
                [ 4 ] Harvard Medical School, and Boston Children's Hospital, Division of Immunology, Division of Gastroenterology, , USA
                Author information
                http://orcid.org/0000-0002-3401-9784
                http://orcid.org/0000-0003-2364-2746
                Article
                rsob220146
                10.1098/rsob.220146
                9533005
                36196535
                572ba658-db80-4035-9b33-724b672b5098
                © 2022 The Authors.

                Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/, which permits unrestricted use, provided the original author and source are credited.

                History
                : May 16, 2022
                : September 9, 2022
                Funding
                Funded by: Division of Intramural Research, National Institute of Allergy and Infectious Diseases, http://dx.doi.org/10.13039/100006492;
                Award ID: AI093589
                Award ID: AI116550
                Award ID: AI133524
                Funded by: National Institute of Diabetes and Digestive and Kidney Diseases, http://dx.doi.org/10.13039/100000062;
                Award ID: P30DK34854
                Categories
                199
                200
                Review
                Review Articles

                Life sciences
                lps,tlr4,innate immunity,inflammasomes,inflammation,pattern recognition
                Life sciences
                lps, tlr4, innate immunity, inflammasomes, inflammation, pattern recognition

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