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      Spatiotemporal diversity and regulation of glycosaminoglycans in cell homeostasis and human disease

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          Abstract

          Glycosaminoglycans (GAGs) are long, linear polysaccharides that are ubiquitously expressed on the cell surface and in the extracellular matrix of all animal cells. These complex carbohydrates play important roles in many cellular processes and have been implicated in many disease states, including cancer, inflammation, and genetic disorders. GAGs are among the most complex molecules in biology with enormous information content and extensive structural and functional heterogeneity. GAG biosynthesis is a nontemplate-driven process facilitated by a large group of biosynthetic enzymes that have been extensively characterized over the past few decades. Interestingly, the expression of the enzymes and the consequent structure and function of the polysaccharide chains can vary temporally and spatially during development and under certain pathophysiological conditions, suggesting their assembly is tightly regulated in cells. Due to their many key roles in cell homeostasis and disease, there is much interest in targeting the assembly and function of GAGs as a therapeutic approach. Recent advances in genomics and GAG analytical techniques have pushed the field and generated new perspectives on the regulation of mammalian glycosylation. This review highlights the spatiotemporal diversity of GAGs and the mechanisms guiding their assembly and function in human biology and disease.

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          Proteomics. Tissue-based map of the human proteome.

          Resolving the molecular details of proteome variation in the different tissues and organs of the human body will greatly increase our knowledge of human biology and disease. Here, we present a map of the human tissue proteome based on an integrated omics approach that involves quantitative transcriptomics at the tissue and organ level, combined with tissue microarray-based immunohistochemistry, to achieve spatial localization of proteins down to the single-cell level. Our tissue-based analysis detected more than 90% of the putative protein-coding genes. We used this approach to explore the human secretome, the membrane proteome, the druggable proteome, the cancer proteome, and the metabolic functions in 32 different tissues and organs. All the data are integrated in an interactive Web-based database that allows exploration of individual proteins, as well as navigation of global expression patterns, in all major tissues and organs in the human body. Copyright © 2015, American Association for the Advancement of Science.
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            Multiplex genome engineering using CRISPR/Cas systems.

            Functional elucidation of causal genetic variants and elements requires precise genome editing technologies. The type II prokaryotic CRISPR (clustered regularly interspaced short palindromic repeats)/Cas adaptive immune system has been shown to facilitate RNA-guided site-specific DNA cleavage. We engineered two different type II CRISPR/Cas systems and demonstrate that Cas9 nucleases can be directed by short RNAs to induce precise cleavage at endogenous genomic loci in human and mouse cells. Cas9 can also be converted into a nicking enzyme to facilitate homology-directed repair with minimal mutagenic activity. Lastly, multiple guide sequences can be encoded into a single CRISPR array to enable simultaneous editing of several sites within the mammalian genome, demonstrating easy programmability and wide applicability of the RNA-guided nuclease technology.
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              RNA-guided human genome engineering via Cas9.

              Bacteria and archaea have evolved adaptive immune defenses, termed clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) systems, that use short RNA to direct degradation of foreign nucleic acids. Here, we engineer the type II bacterial CRISPR system to function with custom guide RNA (gRNA) in human cells. For the endogenous AAVS1 locus, we obtained targeting rates of 10 to 25% in 293T cells, 13 to 8% in K562 cells, and 2 to 4% in induced pluripotent stem cells. We show that this process relies on CRISPR components; is sequence-specific; and, upon simultaneous introduction of multiple gRNAs, can effect multiplex editing of target loci. We also compute a genome-wide resource of ~190 K unique gRNAs targeting ~40.5% of human exons. Our results establish an RNA-guided editing tool for facile, robust, and multiplexable human genome engineering.
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                Author and article information

                Journal
                Am J Physiol Cell Physiol
                Am J Physiol Cell Physiol
                AJPCELL
                American Journal of Physiology - Cell Physiology
                American Physiological Society (Rockville, MD )
                0363-6143
                1522-1563
                1 May 2022
                16 March 2022
                16 March 2022
                : 322
                : 5
                : C849-C864
                Affiliations
                [1] 1Complex Carbohydrate Research Center, University of Georgia , Athens, Georgia
                [2] 2Department of Biochemistry and Molecular Biology, University of Georgia , Athens, Georgia
                Author notes
                [*]

                A. Basu and N. G. Patel contributed equally to this work.

                Correspondence: R. J. Weiss ( ryan.weiss@ 123456uga.edu ).
                Author information
                https://orcid.org/0000-0002-4563-6075
                Article
                C-00085-2022 C-00085-2022
                10.1152/ajpcell.00085.2022
                9037703
                35294848
                04e5ef71-dc09-4b48-bceb-e32d09bd38f4
                Copyright © 2022 The Authors

                Licensed under Creative Commons Attribution CC-BY 4.0. Published by the American Physiological Society.

                History
                : 22 February 2022
                : 9 March 2022
                : 9 March 2022
                Funding
                Funded by: HHS | NIH | National Institute of General Medical Sciences (NIGMS), doi 10.13039/100000057;
                Award ID: GM107004
                Award Recipient : Neil G. Patel
                Funded by: UGA | University of Georgia Research Foundation (UGARF), doi 10.13039/100012483;
                Award Recipient : Ryan J. Weiss
                Categories
                Review
                Deciphering the Role of Proteoglycans and Glycosaminoglycans in Health and Disease
                Custom metadata
                True

                Anatomy & Physiology
                chondroitin sulfate,glycosaminoglycans,heparan sulfate,regulation,transcription factors

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