scholarly journals Bacteriophages and the Immune System

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Medeea Popescu ◽  
Jonas D. Van Belleghem ◽  
Arya Khosravi ◽  
Paul L. Bollyky
Keyword(s):  
Innate Immunity ◽  
Immune System ◽  
Immune Dysregulation ◽  
Annual Review ◽  
Publication Date ◽  
Bacterial Clearance ◽  
Interconnected Network ◽  
Bacterial Interactions ◽  
Microbial Dysbiosis ◽  
The Stability

Bacteriophages—viruses that infect bacteria—are abundant within our bodies, but their significance to human health is only beginning to be explored. Here, we synthesize what is currently known about our phageome and its interactions with the immune system. We first review how phages indirectly affect immunity via bacterial expression of phage-encoded proteins. We next review how phages directly influence innate immunity and bacterial clearance. Finally, we discuss adaptive immunity against phages and its implications for phage/bacterial interactions. In light of these data, we propose that our microbiome can be understood as an interconnected network of bacteria, bacteriophages, and human cells and that the stability of these tri-kingdom interactions may be important for maintaining our immunologic and metabolic health. Conversely, the disruption of this balance, through exposure to exogenous phages, microbial dysbiosis, or immune dysregulation, may contribute to disease. Expected final online publication date for the Annual Review of Virology, Volume 8 is September 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Immunosensation: Neuroimmune Cross Talk in the Skin

2021 ◽  
Vol 39 (1) ◽  
Author(s):  
Masato Tamari ◽  
Aaron M. Ver Heul ◽  
Brian S. Kim
Keyword(s):  
Immune System ◽  
Host Immunity ◽  
The Body ◽  
Annual Review ◽  
Publication Date ◽  
Protective Behaviors ◽  
Evolutionarily Conserved ◽  
Structural Barrier ◽  
Thermal Stimuli ◽  
Antimicrobial Immunity

Classically, skin was considered a mere structural barrier protecting organisms from a diversity of environmental insults. In recent decades, the cutaneous immune system has become recognized as a complex immunologic barrier involved in both antimicrobial immunity and homeostatic processes like wound healing. To sense a variety of chemical, mechanical, and thermal stimuli, the skin harbors one of the most sophisticated sensory networks in the body. However, recent studies suggest that the cutaneous nervous system is highly integrated with the immune system to encode specific sensations into evolutionarily conserved protective behaviors. In addition to directly sensing pathogens, neurons employ novel neuroimmune mechanisms to provide host immunity. Therefore, given that sensation underlies various physiologies through increasingly complex reflex arcs, a much more dynamic picture is emerging of the skin as a truly systemic organ with highly coordinated physical, immunologic, and neural functions in barrier immunology. Expected final online publication date for the Annual Review of Immunology, Volume 39 is April 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

scholarly journals Bacteriophage-Bacteria Interactions in the Gut: From Invertebrates to Mammals

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Joshua M. Kirsch ◽  
Robert S. Brzozowski ◽  
Dominick Faith ◽  
June L. Round ◽  
Patrick R. Secor ◽  
...  
Keyword(s):  
Immune System ◽  
Environmental Conditions ◽  
Online Publication ◽  
Annual Review ◽  
Publication Date ◽  
Microbiota Composition ◽  
Complex Environment ◽  
Health And Disease ◽  
Polymicrobial Communities ◽  
Diverse Interactions

Bacteria and their viruses (bacteriophages or phages) interact antagonistically and beneficially in polymicrobial communities such as the guts of animals. These interactions are multifaceted and are influenced by environmental conditions. In this review, we discuss phage-bacteria interactions as they relate to the complex environment of the gut. Within the mammalian and invertebrate guts, phages and bacteria engage in diverse interactions including genetic coexistence through lysogeny, and phages directly modulate microbiota composition and the immune system with consequences that are becoming recognized as potential drivers of health and disease. With greater depth of understanding of phage-bacteria interactions in the gut and the outcomes, future phage therapies become possible. Expected final online publication date for the Annual Review of Virology, Volume 8 is September 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

scholarly journals Model Reduction Methods for Complex Network Systems

2020 ◽  
Vol 4 (1) ◽  
Author(s):  
X. Cheng ◽  
J.M.A. Scherpen
Keyword(s):  
Autonomous Systems ◽  
High Dimensional ◽  
Annual Review ◽  
Publication Date ◽  
Network Systems ◽  
Modeling And Control ◽  
Reduced Order ◽  
Reduction Methods ◽  
The Stability ◽  
And Control

Network systems consist of subsystems and their interconnections and provide a powerful framework for the analysis, modeling, and control of complex systems. However, subsystems may have high-dimensional dynamics and a large number of complex interconnections, and it is therefore relevant to study reduction methods for network systems. Here, we provide an overview of reduction methods for both the topological (interconnection) structure of a network and the dynamics of the nodes while preserving structural properties of the network. We first review topological complexity reduction methods based on graph clustering and aggregation, producing a reduced-order network model. Next, we consider reduction of the nodal dynamics using extensions of classical methods while preserving the stability and synchronization properties. Finally, we present a structure-preserving generalized balancing method for simultaneously simplifying the topological structure and the order of the nodal dynamics. Expected final online publication date for the Annual Review of Control, Robotics, and Autonomous Systems, Volume 4 is May 3, 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Epigenetic Remodeling in Innate Immunity and Inflammation

2021 ◽  
Vol 39 (1) ◽  
Author(s):  
Qian Zhang ◽  
Xuetao Cao
Keyword(s):  
Gene Expression ◽  
Innate Immunity ◽  
Regulatory Element ◽  
Expression Patterns ◽  
Innate Immune ◽  
Annual Review ◽  
Specific Gene ◽  
Publication Date ◽  
Specific Expression ◽  
Epigenetic Remodeling

The innate immune response is a rapid response to pathogens or danger signals. It is precisely activated not only to efficiently eliminate pathogens but also to avoid excessive inflammation and tissue damage. cis-Regulatory element–associated chromatin architecture shaped by epigenetic factors, which we define as the epiregulome, endows innate immune cells with specialized phenotypes and unique functions by establishing cell-specific gene expression patterns, and it also contributes to resolution of the inflammatory response. In this review, we focus on two aspects: ( a) how niche signals during lineage commitment or following infection and pathogenic stress program epiregulomes by regulating gene expression levels, enzymatic activities, or gene-specific targeting of chromatin modifiers and ( b) how the programed epiregulomes in turn mediate regulation of gene-specific expression, which contributes to controlling the development of innate cells, or the response to infection and inflammation, in a timely manner. We also discuss the effects of innate immunometabolic rewiring on epiregulomes and speculate on several future challenges to be encountered during the exploration of the master regulators of epiregulomes in innate immunity and inflammation. Expected final online publication date for the Annual Review of Immunology, Volume 39 is April 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

COVID-19: Inflammatory Profile

2021 ◽  
Vol 73 (1) ◽  
Author(s):  
Yuhang Wang ◽  
Stanley Perlman
Keyword(s):  
Immune Response ◽  
Distress Syndrome ◽  
Multiorgan Failure ◽  
Critical Role ◽  
Host Immune Response ◽  
Immune Dysregulation ◽  
Annual Review ◽  
Publication Date ◽  
Inflammatory Profile

Infection with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the cause of coronavirus disease 2019 (COVID-19), has resulted in a pandemic that has had widespread effects on human activities. The clinical presentation of severe COVID-19 includes a broad spectrum of clinical disease, most notably acute respiratory distress syndrome, cytokine release syndrome (CRS), multiorgan failure, and death. Direct viral damage and uncontrolled inflammation have been suggested as contributory factors in COVID-19 disease severity. The COVID-19 pandemic has emphasized the critical role of an effective host immune response in controlling a virus infection and demonstrated the devastating effect of immune dysregulation. Understanding the nature of the immune response to SARS-CoV-2 pathogenesis is key to developing effective treatments for COVID-19. Here, we describe the nature of the dysregulated host immune response in COVID-19, identify potential mechanisms involved in CRS, and discuss potential strategies that can be used to manage immune dysregulation in COVID-19. Expected final online publication date for the Annual Review of Medicine, Volume 73 is January 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Causative Microbes in Host-Microbiome Interactions

2021 ◽  
Vol 75 (1) ◽  
Author(s):  
Graham J. Britton ◽  
Jeremiah J. Faith
Keyword(s):  
Immune System ◽  
Human Microbiome ◽  
Individual Species ◽  
Annual Review ◽  
Publication Date ◽  
Sequencing Technology ◽  
Specific Effects ◽  
Therapeutic Benefits ◽  
Experimental Approaches

Despite identification of numerous associations between microbiomes and diseases, the complexity of the human microbiome has hindered identification of individual species and strains that are causative in host phenotype or disease. Uncovering causative microbes is vital to fully understand disease processes and to harness the potential therapeutic benefits of microbiota manipulation. Developments in sequencing technology, animal models, and bacterial culturing have facilitated the discovery of specific microbes that impact the host and are beginning to advance the characterization of host-microbiome interaction mechanisms. We summarize the historical and contemporary experimental approaches taken to uncover microbes from the microbiota that affect host biology and describe examples of commensals that have specific effects on the immune system, inflammation, and metabolism. There is still much to learn, and we lay out challenges faced by the field and suggest potential remedies for common pitfalls encountered in the hunt for causative commensal microbes. Expected final online publication date for the Annual Review of Microbiology, Volume 75 is October 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

scholarly journals Ternary Nitride Materials: Fundamentals and Emerging Device Applications

2021 ◽  
Vol 51 (1) ◽  
Author(s):  
Ann L. Greenaway ◽  
Celeste L. Melamed ◽  
M. Brooks Tellekamp ◽  
Rachel Woods-Robinson ◽  
Eric S. Toberer ◽  
...  
Keyword(s):  
Materials Science ◽  
Chemical Potential ◽  
Annual Review ◽  
Publication Date ◽  
Fundamental Properties ◽  
The Past ◽  
Device Applications ◽  
The Stability ◽  
Ternary Nitride ◽  
The Impact

Interest in inorganic ternary nitride materials has grown rapidly over the past few decades, as their diverse chemistries and structures make them appealing for a variety of applications. Due to synthetic challenges posed by the stability of N2, the number of predicted nitride compounds dwarfs the number that have been synthesized, offering a breadth of opportunity for exploration. This review summarizes the fundamental properties and structural chemistry of ternary nitrides, leveraging metastability and the impact of nitrogen chemical potential. A discussion of prevalent defects, both detrimental and beneficial, is followed by a survey of synthesis techniques and their interplay with metastability. Throughout the review, we highlight applications (such as solid-state lighting, electrochemical energy storage, and electronic devices) in which ternary nitrides show particular promise. Expected final online publication date for the Annual Review of Materials Science, Volume 51 is August 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Damage-Associated Molecular Patterns (DAMPs) in Plant Innate Immunity: Applying the Danger Model and Evolutionary Perspectives

2021 ◽  
Vol 59 (1) ◽  
Author(s):  
Kiwamu Tanaka ◽  
Martin Heil
Keyword(s):  
Innate Immunity ◽  
Immune Responses ◽  
Cellular Damage ◽  
Annual Review ◽  
Publication Date ◽  
Plant Innate Immunity ◽  
Immunomodulatory Peptides ◽  
Molecular Patterns ◽  
Damage Associated Molecular Patterns ◽  
Evolutionary Perspectives

Danger signals trigger immune responses upon perception by a complex surveillance system. Such signals can originate from the infectious nonself or the damaged self, the latter termed damage-associated molecular patterns (DAMPs). Here, we apply Matzinger's danger model to plant innate immunity to discuss the adaptive advantages of DAMPs and their integration into pre-existing signaling pathways. Constitutive DAMPs (cDAMPs), e.g., extracellular ATP, histones, and self-DNA, fulfill primary, conserved functions and adopt a signaling role only when cellular damage causes their fragmentation or localization to aberrant compartments. By contrast, immunomodulatory peptides exclusively function as signals and, upon damage, are activated as inducible DAMPs (iDAMPs). Dynamic coevolutionary processes between the signals and their emerging receptors and shared co-receptors have likely linked danger recognition to preexisting, conserved downstream pathways. Expected final online publication date for the Annual Review of Phytopathology, Volume 59 is August 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Stability and Control of Power Grids

2021 ◽  
Vol 5 (1) ◽  
Author(s):  
Tao Liu ◽  
Yue Song ◽  
Lipeng Zhu ◽  
David J. Hill
Keyword(s):  
Critical Infrastructure ◽  
Autonomous Systems ◽  
Modern Society ◽  
Power Grids ◽  
Annual Review ◽  
Publication Date ◽  
New Paradigm ◽  
Stability And Control ◽  
The Stability ◽  
And Control

Power grids are critical infrastructure in modern society, and there are well-established theories for the stability and control of traditional power grids under a centralized paradigm. Driven by environmental and sustainability concerns, power grids are undergoing an unprecedented transition, with much more flexibility as well as uncertainty brought by the growing penetration of renewable energy and power electronic devices. A new paradigm for stability and control is under development that uses graph-based, data-based, and distributed analysis tools. This article surveys classic and novel results on the stability and control of power grids to provide a perspective on this both old and new subject. Expected final online publication date for the Annual Review of Control, Robotics, and Autonomous Systems, Volume 5 is May 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Neoantigen Controversies

2021 ◽  
Vol 4 (1) ◽  
Author(s):  
Andrea Castro ◽  
Maurizio Zanetti ◽  
Hannah Carter
Keyword(s):  
Immune System ◽  
Data Science ◽  
Annual Review ◽  
Publication Date ◽  
Biomedical Data ◽  
Success Rates ◽  
Sequencing Technologies ◽  
Conflicting Evidence ◽  
Key Aspects

Next-generation sequencing technologies have revolutionized our ability to catalog the landscape of somatic mutations in tumor genomes. These mutations can sometimes create so-called neoantigens, which allow the immune system to detect and eliminate tumor cells. However, efforts that stimulate the immune system to eliminate tumors based on their molecular differences have had less success than has been hoped for, and there are conflicting reports about the role of neoantigens in the success of this approach. Here we review some of the conflicting evidence in the literature and highlight key aspects of the tumor–immune interface that are emerging as major determinants of whether mutation-derived neoantigens will contribute to an immunotherapy response. Accounting for these factors is expected to improve success rates of future immunotherapy approaches. Expected final online publication date for the Annual Review of Biomedical Data Science, Volume 4 is July 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

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