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      Adipose tissue transcriptomic signature highlights the pathological relevance of extracellular matrix in human obesity

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          Abstract

          Analysis of the transcriptomic signature of white adipose tissue in obese human subjects revealed increased interstitial fibrosis and an infiltration of inflammatory cells into the tissue.

          Abstract

          Background

          Investigations performed in mice and humans have acknowledged obesity as a low-grade inflammatory disease. Several molecular mechanisms have been convincingly shown to be involved in activating inflammatory processes and altering cell composition in white adipose tissue (WAT). However, the overall importance of these alterations, and their long-term impact on the metabolic functions of the WAT and on its morphology, remain unclear.

          Results

          Here, we analyzed the transcriptomic signature of the subcutaneous WAT in obese human subjects, in stable weight conditions and after weight loss following bariatric surgery. An original integrative functional genomics approach was applied to quantify relations between relevant structural and functional themes annotating differentially expressed genes in order to construct a comprehensive map of transcriptional interactions defining the obese WAT. These analyses highlighted a significant up-regulation of genes and biological themes related to extracellular matrix (ECM) constituents, including members of the integrin family, and suggested that these elements could play a major mediating role in a chain of interactions that connect local inflammatory phenomena to the alteration of WAT metabolic functions in obese subjects. Tissue and cellular investigations, driven by the analysis of transcriptional interactions, revealed an increased amount of interstitial fibrosis in obese WAT, associated with an infiltration of different types of inflammatory cells, and suggest that phenotypic alterations of human pre-adipocytes, induced by a pro-inflammatory environment, may lead to an excessive synthesis of ECM components.

          Conclusion

          This study opens new perspectives in understanding the biology of human WAT and its pathologic changes indicative of tissue deterioration associated with the development of obesity.

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          Most cited references57

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          Gene Ontology: tool for the unification of biology

          Genomic sequencing has made it clear that a large fraction of the genes specifying the core biological functions are shared by all eukaryotes. Knowledge of the biological role of such shared proteins in one organism can often be transferred to other organisms. The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing. To this end, three independent ontologies accessible on the World-Wide Web (http://www.geneontology.org) are being constructed: biological process, molecular function and cellular component.
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            In silico prediction of protein-protein interactions in human macrophages

            Background: Protein-protein interaction (PPI) network analyses are highly valuable in deciphering and understanding the intricate organisation of cellular functions. Nevertheless, the majority of available protein-protein interaction networks are context-less, i.e. without any reference to the spatial, temporal or physiological conditions in which the interactions may occur. In this work, we are proposing a protocol to infer the most likely protein-protein interaction (PPI) network in human macrophages. Results: We integrated the PPI dataset from the Agile Protein Interaction DataAnalyzer (APID) with different meta-data to infer a contextualized macrophage-specific interactome using a combination of statistical methods. The obtained interactome is enriched in experimentally verified interactions and in proteins involved in macrophage-related biological processes (i.e. immune response activation, regulation of apoptosis). As a case study, we used the contextualized interactome to highlight the cellular processes induced upon Mycobacterium tuberculosis infection. Conclusion: Our work confirms that contextualizing interactomes improves the biological significance of bioinformatic analyses. More specifically, studying such inferred network rather than focusing at the gene expression level only, is informative on the processes involved in the host response. Indeed, important immune features such as apoptosis are solely highlighted when the spotlight is on the protein interaction level.
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              Adipocytes as regulators of energy balance and glucose homeostasis.

              Adipocytes have been studied with increasing intensity as a result of the emergence of obesity as a serious public health problem and the realization that adipose tissue serves as an integrator of various physiological pathways. In particular, their role in calorie storage makes adipocytes well suited to the regulation of energy balance. Adipose tissue also serves as a crucial integrator of glucose homeostasis. Knowledge of adipocyte biology is therefore crucial for understanding the pathophysiological basis of obesity and metabolic diseases such as type 2 diabetes. Furthermore, the rational manipulation of adipose physiology is a promising avenue for therapy of these conditions.
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                Author and article information

                Journal
                Genome Biol
                Genome Biology
                BioMed Central
                1465-6906
                1465-6914
                2008
                21 January 2008
                : 9
                : 1
                : R14
                Affiliations
                [1 ]INSERM, UMR-S 872, Les Cordeliers, Eq. 7 Nutriomique and Eq. 13, Paris, F-75006 France
                [2 ]Pierre et Marie Curie-Paris 6 University, Cordeliers Research Center, UMR-S 872, Paris, F-75006 France
                [3 ]Paris Descartes University, UMR-S 872, Paris, F-75006 France
                [4 ]Assistance Publique-Hôpitaux de Paris (AP-HP), Pitié Salpêtrière Hospital, Nutrition and Endocrinology department, Paris, F-75013 France
                [5 ]Franco-Czech Laboratory for Clinical Research on Obesity, INSERM and 3rd Faculty of Medicine, Charles University, Prague, CZ-10000, Czech Republic
                [6 ]INSERM, U858, Obesity Research Laboratory, I2MR, Toulouse, F-31432 France
                [7 ]Paul Sabatier University, Louis Bugnard Institute IFR31, Toulouse, F-31432 France
                [8 ]Centre Hospitalier Universitaire de Toulouse, Toulouse, F-31059 France
                [9 ]Assistance Publique-Hôpitaux de Paris (AP-HP), Beaujon Hospital, Pathology department, Clichy, F-92110 France
                [10 ]CNRS, UMR 8149, Clichy, F-92110 France
                [11 ]IRD UR Géodes, Centre IRD de l'Ile de France, Bondy, F-93143 France
                Article
                gb-2008-9-1-r14
                10.1186/gb-2008-9-1-r14
                2395253
                18208606
                1bac3dbc-c38a-4c36-a2ab-0674c77f71c3
                Copyright © 2008 Henegar et al.; licensee BioMed Central Ltd.

                This is an open access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 6 July 2007
                : 29 September 2007
                : 21 January 2008
                Categories
                Research

                Genetics
                Genetics

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