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      Rapid proliferation due to better metabolic adaptation results in full virulence of a filament-deficient Candida albicans strain

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          Abstract

          The ability of the fungal pathogen Candida albicans to undergo a yeast-to-hypha transition is believed to be a key virulence factor, as filaments mediate tissue damage. Here, we show that virulence is not necessarily reduced in filament-deficient strains, and the results depend on the infection model used. We generate a filament-deficient strain by deletion or repression of EED1 (known to be required for maintenance of hyphal growth). Consistent with previous studies, the strain is attenuated in damaging epithelial cells and macrophages in vitro and in a mouse model of intraperitoneal infection. However, in a mouse model of systemic infection, the strain is as virulent as the wild type when mice are challenged with intermediate infectious doses, and even more virulent when using low infectious doses. Retained virulence is associated with rapid yeast proliferation, likely the result of metabolic adaptation and improved fitness, leading to high organ fungal loads. Analyses of cytokine responses in vitro and in vivo, as well as systemic infections in immunosuppressed mice, suggest that differences in immunopathology contribute to some extent to retained virulence of the filament-deficient mutant. Our findings challenge the long-standing hypothesis that hyphae are essential for pathogenesis of systemic candidiasis by C. albicans.

          Abstract

          The ability of the fungal pathogen Candida albicans to undergo yeast-to-hypha transition is believed to be a key virulence factor. Here, Dunker et al. show that a filament-deficient strain is attenuated in a mouse model of intraperitoneal infection, but remains virulent in a mouse model of systemic candidiasis.

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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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            Cytoscape: a software environment for integrated models of biomolecular interaction networks.

            Cytoscape is an open source software project for integrating biomolecular interaction networks with high-throughput expression data and other molecular states into a unified conceptual framework. Although applicable to any system of molecular components and interactions, Cytoscape is most powerful when used in conjunction with large databases of protein-protein, protein-DNA, and genetic interactions that are increasingly available for humans and model organisms. Cytoscape's software Core provides basic functionality to layout and query the network; to visually integrate the network with expression profiles, phenotypes, and other molecular states; and to link the network to databases of functional annotations. The Core is extensible through a straightforward plug-in architecture, allowing rapid development of additional computational analyses and features. Several case studies of Cytoscape plug-ins are surveyed, including a search for interaction pathways correlating with changes in gene expression, a study of protein complexes involved in cellular recovery to DNA damage, inference of a combined physical/functional interaction network for Halobacterium, and an interface to detailed stochastic/kinetic gene regulatory models.
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              The Third International Consensus Definitions for Sepsis and Septic Shock (Sepsis-3).

              Definitions of sepsis and septic shock were last revised in 2001. Considerable advances have since been made into the pathobiology (changes in organ function, morphology, cell biology, biochemistry, immunology, and circulation), management, and epidemiology of sepsis, suggesting the need for reexamination.
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                Author and article information

                Contributors
                ilse.jacobsen@hki-jena.de
                Journal
                Nat Commun
                Nat Commun
                Nature Communications
                Nature Publishing Group UK (London )
                2041-1723
                23 June 2021
                23 June 2021
                2021
                : 12
                : 3899
                Affiliations
                [1 ]GRID grid.418398.f, ISNI 0000 0001 0143 807X, Research Group Microbial Immunology, , Leibniz Institute for Natural Product Research and Infection Biology – Hans Knoell Institute, ; Beutenbergstraße 11a, Jena, Germany
                [2 ]GRID grid.8379.5, ISNI 0000 0001 1958 8658, Department of Bioinformatics, Biocenter, Am Hubland, , University of Würzburg, ; Würzburg, Germany
                [3 ]GRID grid.19006.3e, ISNI 0000 0000 9632 6718, The Lundquist Institute for Biomedical Innovation at Harbor UCLA Medical Center, , David Geffen School of Medicine at UCLA, ; Los Angeles, CA USA
                [4 ]GRID grid.8379.5, ISNI 0000 0001 1958 8658, Institute for Hygiene and Microbiology, , University of Würzburg, ; Würzburg, Germany
                [5 ]Present Address: Laboratory Dr. Wisplinghoff, Department of Molecular Biology, Horbeller Strasse 18-20, Cologne, Germany
                [6 ]GRID grid.9647.c, ISNI 0000 0004 7669 9786, Present Address: Institute of Immunology, Molecular Pathogenesis, Center for Biotechnology and Biomedicine (BBZ), , College of Veterinary Medicine, Leipzig University, Deutscher Platz 5, ; Leipzig, Germany
                Author information
                http://orcid.org/0000-0001-5382-0617
                http://orcid.org/0000-0001-6483-5793
                http://orcid.org/0000-0002-4101-6979
                http://orcid.org/0000-0003-3229-1554
                http://orcid.org/0000-0002-2742-3156
                http://orcid.org/0000-0001-5667-6032
                http://orcid.org/0000-0002-5261-6267
                http://orcid.org/0000-0002-2212-1511
                http://orcid.org/0000-0003-1886-7625
                http://orcid.org/0000-0002-6033-9984
                Article
                24095
                10.1038/s41467-021-24095-8
                8222383
                34162849
                6b4496f8-98bd-4e52-8f58-fef4fbfcfdfb
                © The Author(s) 2021

                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
                : 19 June 2020
                : 28 May 2021
                Funding
                Funded by: International Leibniz Research School for Microbial and Bimolecular Interactions
                Funded by: NIH grant R00DE026856
                Funded by: FundRef https://doi.org/10.13039/501100001659, Deutsche Forschungsgemeinschaft (German Research Foundation);
                Award ID: 210879364
                Award Recipient :
                Categories
                Article
                Custom metadata
                © The Author(s) 2021

                Uncategorized
                cellular microbiology,fungal pathogenesis,pathogens
                Uncategorized
                cellular microbiology, fungal pathogenesis, pathogens

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