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Construction of a large scale integrated map of macrophage pathogen recognition and effector systems

Sobia Raza, Neil McDerment, Paul A Lacaze, Kevin Robertson, Steven Watterson, Ying Chen, Michael Chisholm, George Eleftheriadis, Stephanie Monk, Maire O'Sullivan, Arran Turnbull, Douglas Roy (+3 others)
2010 BMC Systems Biology  
Results: The diagram includes detailed views of the toll-like receptor (TLR) pathways, other pathogen recognition systems, NF-kappa-B, apoptosis, interferon signalling, MAP-kinase cascades, MHC antigen  ...  In an effort to better understand the molecular networks that underpin macrophage activation we have been assembling a map of relevant pathways.  ...  and integration of a large network model of these systems.  ... 
doi:10.1186/1752-0509-4-63 pmid:20470404 pmcid:PMC2892459 fatcat:yg457jygdfa2xjhftsn2f4rzcu

Network representations of immune system complexity

Naeha Subramanian, Parizad Torabi-Parizi, Rachel A. Gottschalk, Ronald N. Germain, Bhaskar Dutta
2015 Wiley Interdisciplinary Reviews: Systems Biology and Medicine  
The mammalian immune system is a dynamic multi-scale system composed of a hierarchically organized set of molecular, cellular and organismal networks that act in concert to promote effective host defense  ...  The latter facilitate effective visualization of patterns and recognition of emergent properties arising from the many interactions of genes, molecules, and cells of the immune system.  ...  Acknowledgments This work was generously supported by the Intramural Research Program of the National Institute of Allergy and Infectious Diseases, and institutional support funds from the Institute for  ... 
doi:10.1002/wsbm.1288 pmid:25625853 pmcid:PMC4339634 fatcat:pe7eqjaqijhgrhhz5wtfep42ju

A Cognitive Computational Model Inspired by the Immune System Response

Mohamed Abdo Abd Al-Hady, Amr Ahmed Badr, Mostafa Abd Al-Azim Mostafa
2014 BioMed Research International  
The immune system has a cognitive ability to differentiate between healthy and unhealthy cells.  ...  The paper presents a descriptive model of immune system, to figure out the nature of response, deemed to be intrinsic for building a hybrid computational model based on a cognitive intelligent agent perspective  ...  Conflict of Interests The authors declare that there is no conflict of interests regarding the publication of this paper.  ... 
doi:10.1155/2014/852181 pmid:25003131 pmcid:PMC4070499 fatcat:bzqb5ek5wbdo3mpto7mz4i4ynq

Systems-Biology Approaches to Discover Anti-Viral Effectors of the Human Innate Immune Response

Carsten Münk, Andreas F.R. Sommer, Renate König
2011 Viruses  
A comprehensive systems-level understanding of the repertoire of anti-viral effectors in the context of these immediate virus-host responses would provide significant advantages in devising novel strategies  ...  This review describes the discovery of novel viral restriction factors and discusses how the integration of different methods in systems biology can be used to more comprehensively identify the intimate  ...  Acknowledgments We thank Dieter Häussinger and Klaus Cichutek for constant support. We thank Sumit K. Chanda for critical reading of the manuscript and continuous support.  ... 
doi:10.3390/v3071112 pmid:21994773 pmcid:PMC3185791 fatcat:pw7pu553y5cedcu2nzjozbnplm

Systems Biology of Fungal Infection

Fabian Horn, Thorsten Heinekamp, Olaf Kniemeyer, Johannes Pollmächer, Vito Valiante, Axel A. Brakhage
2012 Frontiers in Microbiology  
A key feature of these infections is the interaction of the different fungal morphotypes with epithelial and immune effector cells in the human host.  ...  We review current efforts to integrate omics and image-based data of host-pathogen interactions into network and spatio-temporal models.  ...  A. fumigatus also possesses immune-evasion mechanisms which reduce recognition, both by immune effector cells and the complement system (Behnsen et al., 2008 Aimanianda et al., 2009 ).  ... 
doi:10.3389/fmicb.2012.00108 pmid:22485108 pmcid:PMC3317178 fatcat:zbwfkinprvf7haap4e53qerb3y

Rab8a localisation and activation by Toll-like receptors on macrophage macropinosomes

Adam A. Wall, Nicholas D. Condon, Lin Luo, Jennifer L. Stow
2018 Philosophical Transactions of the Royal Society of London. Biological Sciences  
Pathogen-mediated activation of surface and endosomal Toll-like receptors (TLRs) in macrophages upregulates macropinocytosis.  ...  Here, using multiple forms of imaging and microscopy, we track membrane-associated, fluorescently-tagged Rab8a expressed in live macrophages, using a variety of cell markers to demonstrate Rab8a localization  ...  Hodgson (Albert Einstein College of Medicine, USA) generously provided the Rab13 biosensor and helpful advice. We thank colleagues as noted for providing reagents.  ... 
doi:10.1098/rstb.2018.0151 pmid:30966999 pmcid:PMC6304745 fatcat:qpbmnixxxvevxg3v3gkdhfckge

Polyunsaturated Fatty Acids Influence LPS-Induced Inflammation of Fish Macrophages Through Differential Modulation of Pathogen Recognition and p38 MAPK/NF-κB Signaling

Qingfei Li, Kun Cui, Mengjiao Wu, Dan Xu, Kangsen Mai, Qinghui Ai
2020 Frontiers in Immunology  
Transcriptome profiling indicated that LPS elicited strong pro-inflammatory responses featuring high expression levels of pathogen recognition receptors (PRRs) and cytokines along with the activation of  ...  Overall, this study advances our understanding of the regulatory mechanisms by which PUFAs regulate LPS-induced inflammation in a non-model fish species.  ...  ACKNOWLEDGMENTS We thank Jikang Shentu and Lin Huang for providing experimental animals and facilities. We also appreciate Xiang Xu for his assistance in gene clone and plasmid preparation.  ... 
doi:10.3389/fimmu.2020.559332 pmid:33123132 pmcid:PMC7572853 fatcat:5jblxpnj3rhudg4or2dvkxmmdi

Integrated Analysis of lncRNAs, mRNAs, and TFs to Identify Regulatory Networks Underlying MAP Infection in Cattle

Maryam Heidari, Abbas Pakdel, Mohammad Reza Bakhtiarizadeh, Fariba Dehghanian
2021 Frontiers in Genetics  
This study not only enhanced our knowledge of molecular mechanisms behind MAP infection but also highlighted several promising hub and hub-hub genes involved in macrophage-pathogen interaction.  ...  After identification of hub and hub-hub genes as well as TFs and lncRNAs in the nonpreserved modules, integrated networks of lncRNA-mRNA-TF were constructed, and cis and trans targets of lncRNAs were identified  ...  In the present study, a system of biology approach was applied using WGCNA method and RNA sequencing data to construct an integrated gene regulatory network involved in MAP infection in monocyte-derived  ... 
doi:10.3389/fgene.2021.668448 pmid:34290737 pmcid:PMC8287970 fatcat:haa6ru5cz5difosajg3je2jtli

Dissecting Candida albicans Infection from the Perspective of C. albicans Virulence and Omics Approaches on Host–Pathogen Interaction: A Review

Voon Chin, Tze Lee, Basir Rusliza, Pei Chong
2016 International Journal of Molecular Sciences  
In nature, Candida species are part of the normal commensal flora in mammalian hosts. However, they can transform into pathogens once the host immune system is weakened or breached.  ...  diagnostic procedures, and a rising number of immunocompromised patients.  ...  Acknowledgments: We would like to acknowledge the management and support staff of the Faculty of Medicine and Health Sciences, University Putra Malaysia for providing financial and infrastructure support  ... 
doi:10.3390/ijms17101643 pmid:27763544 pmcid:PMC5085676 fatcat:x5b6tjho7zczlmlt2ctxtgqa24

Mining large-scale response networks reveals 'topmost activities' in Mycobacterium tuberculosis infection

Awanti Sambarey, Karyala Prashanthi, Nagasuma Chandra
2013 Scientific Reports  
The insufficiencies of both approaches can be overcome by integrating genome-wide gene expression profiles into genome scale molecular networks and constructing a specific network for each cellular condition  ...  In this work, we construct a comprehensive network of infection-related processes in a human macrophage comprising 1888 proteins and 14,016 interactions.  ...  Acknowledgements We thank the Department of Biotechnology (DBT) and the Mathematical Biology Programme supported by the Department of Science and Technology (DST), Government of India, for financial support  ... 
doi:10.1038/srep02302 pmid:23892477 pmcid:PMC3725478 fatcat:uv7prjd65rapvdg67ry4qor6gi

Yersinia remodels epigenetic histone modifications in human macrophages

Indra Bekere, Jiabin Huang, Marie Schnapp, Maren Rudolph, Laura Berneking, Klaus Ruckdeschel, Adam Grundhoff, Thomas Günther, Nicole Fischer, Martin Aepfelbacher, Denise M. Monack
2021 PLoS Pathogens  
Remarkably, the altered HMod also associated with 61% of all 534 known Rho GTPase pathway genes, revealing a new level in Rho GTPase regulation and a new aspect of bacterial pathogenicity.  ...  Various pathogens systematically reprogram gene expression in macrophages, but the underlying mechanisms are largely unknown.  ...  We thank Alexander Carsten and Asiri Ortega for WA314-YopE-ALFA strain, Sahaja Aigal for WA314-YopE-ALFA stainings and Eva Tolosa and Manuela Kolster for flow cytometry analysis.  ... 
doi:10.1371/journal.ppat.1010074 pmid:34793580 pmcid:PMC8639070 fatcat:hlwfli4hgbfodpe3r4izcw2t3u

A systems biological view of intracellular pathogens

Daniel P. Beiting, David S. Roos
2011 Immunological Reviews  
As biomedical research becomes increasingly data-intensive, it is increasingly essential to integrate genomic-scale datasets, so as to generate a more holistic picture of complex biological processes.  ...  Intracellular pathogens can be viewed as the ultimate open system: they are constantly interacting with the infected cell and modulating both the host and the pathogen so as to establish a viable physical  ...  Acknowledgments DPB and DSR are supported by NIH grants AI075846 and AI028724, respectively.  ... 
doi:10.1111/j.1600-065x.2010.00998.x pmid:21349090 pmcid:PMC3065973 fatcat:levjltahivdurddqcozzu6yjpa

Proteomes of Host Cell Membranes Modified by Intracellular Activities ofSalmonella enterica

Stephanie Vorwerk, Viktoria Krieger, Jörg Deiwick, Michael Hensel, Nicole Hansmeier
2014 Molecular & Cellular Proteomics  
Our system-wide approach therefore has the potential to rapidly close gaps in our knowledge of the infection process of intracellular pathogens and demonstrates a hitherto unrecognized complexity in the  ...  Intracellular pathogens need to establish a growth-stimulating host niche for survival and replication.  ...  Francis Barr, and Dr. Martin Aepfelbacher for providing pEGFP-C2-Rab5c, pEGFP-C2-Rab2a, pEGFP-C2-Rab10a, pEGFP-C2-Rab14, and pGL-Rab7a constructs. We also thank Dr.  ... 
doi:10.1074/mcp.m114.041145 pmid:25348832 pmcid:PMC4288265 fatcat:7yemfh5wq5be3bh5ko4irnbu5i

Innate Killing of Leishmania donovani by Macrophages of the Splenic Marginal Zone Requires IRF-7

Rebecca Phillips, Mattias Svensson, Naveed Aziz, Asher Maroof, Najmeeyah Brown, Lynette Beattie, Nathalie Signoret, Paul M. Kaye, Ingrid Müller
2010 PLoS Pathogens  
Although these macrophages have been attributed with a variety of functions, including the uptake and clearance of blood and lymph-borne pathogens, little is known about the effector mechanisms they employ  ...  Here, we have combined gene expression profiling and RNAi using a stromal macrophage cell line with in situ analysis of the leishmanicidal activity of marginal zone macrophages (MZM) and marginal metallophilic  ...  Acknowledgments The authors thank the staff of the Biological Services Facility and the Technology Facility for their technical assistance, D. Zipori for providing 14M1.4 cells, T.  ... 
doi:10.1371/journal.ppat.1000813 pmid:20300600 pmcid:PMC2837405 fatcat:tz6y2b7jcbcvxcqjkzip2speni

Recombinant Salmonella expressing SspH2-EscI fusion protein limits its colonization in mice

Maozhi Hu, Weixin Zhao, Wei Gao, Wenhua Li, Chuang Meng, Qiuxiang Yan, Yuyang Wang, Xiaohui Zhou, Shizhong Geng, Zhiming Pan, Guiyou Cui, Xinan Jiao
2017 BMC Immunology  
Results: A recombinant S. typhimurium strain expressing fusion protein of the N-terminal SspH2 (a Salmonella type III secretion system 2 effector) and C-terminal EscI was constructed and designated as  ...  Conclusion: Fusion protein SspH2-EscI may be translocated into macrophages and activate NLRC4 inflammasome, which limits Salmonella colonization in spleen and liver of mice.  ...  Availability of data and materials The dataset supporting the conclusions of this article is included within the article. Authors' contributions  ... 
doi:10.1186/s12865-017-0203-2 pmid:28468643 pmcid:PMC5415771 fatcat:ujpf7br3dfa37b2ko4mtlpvgmm
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