Microbial Cyclic Di-Nucleotide Signaling

Microbial Cyclic Di-Nucleotide Signaling

Author: Shan-Ho Chou

Publisher: Springer Nature

Published: 2020-03-05

Total Pages: 640

ISBN-13: 3030333086

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This book explores the broad and diverse biological and physiological impacts of established and newly discovered cyclic di-nucleotide second messenger signaling systems, while also providing descriptions of the intriguing biochemical characteristics of multiple turnover enzymes and receptors. The respective chapters discuss the commonalities and diversity of cyclic di-GMP, cyclic di-AMP and recently discovered cyclic GMP-AMP signaling systems in manifold Gram-negative and Gram-positive bacteria. The global human pathogens Mycobacterium tuberculosis, Vibrio cholerae, Salmonella typhimurium, Escherichia coli and Streptococcus pneumoniae, the facultative human pathogen Pseudomonas aeruginosa, global plant pathogens as exemplified by Xanthomonas campestris and Burkholderia spp., and the omnipresent probiotic Lactobacilli, as well as environmentally important photoautotrophic cyanobacteria, the multicellular Myxococcus xanthus, and chemolithotrophic Acidithiobacillus are among the representatives of the microbial kingdom that are described. In turn, the various aspects of bacterial physiology affected by these signaling systems– e.g. biofilm formation and dispersal, the cell cycle, motility, virulence, production of antimicrobials, fundamental metabolism and osmohomeostasis – are discussed in detail in the context of different microorganisms. Dedicated chapters focus on the population diversity of cyclic dinucleotide signaling systems, their tendency to be horizontally transferred, the cyclic di-GMP signaling system in the social amoeba Dictyostelium, honorary cyclic (di)nucleotides, and the development of strategies for interfering with cyclic dinucleotide signaling in order to manipulate microbial behavior. Taken together, the chapters provide an authoritative source of information for a broad readership: beginners and advanced researchers from various disciplines; individuals seeking a broad overview of cyclic di-nucleotide signaling; and those who want to learn more about specific aspects. Also featuring reviews with a forward-looking perspective, the book offers a valuable source of inspiration for future research directions.


Prokaryotic Metabolism and Physiology

Prokaryotic Metabolism and Physiology

Author: Byung Hong Kim

Publisher: Cambridge University Press

Published: 2019-05-16

Total Pages: 509

ISBN-13: 1107171733

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Extensive and up-to-date review of key metabolic processes in bacteria and archaea and how metabolism is regulated under various conditions.


Treating Infectious Diseases in a Microbial World

Treating Infectious Diseases in a Microbial World

Author: National Research Council

Publisher: National Academies Press

Published: 2006-01-03

Total Pages: 102

ISBN-13: 0309180686

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Humans coexist with millions of harmless microorganisms, but emerging diseases, resistance to antibiotics, and the threat of bioterrorism are forcing scientists to look for new ways to confront the microbes that do pose a danger. This report identifies innovative approaches to the development of antimicrobial drugs and vaccines based on a greater understanding of how the human immune system interacts with both good and bad microbes. The report concludes that the development of a single superdrug to fight all infectious agents is unrealistic.


Lasso Peptides

Lasso Peptides

Author: Yanyan Li

Publisher: Springer

Published: 2014-10-21

Total Pages: 113

ISBN-13: 1493910108

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Lasso peptides form a growing family of fascinating ribosomally-synthesized and post-translationally modified peptides produced by bacteria. They contain 15 to 24 residues and share a unique interlocked topology that involves an N-terminal 7 to 9-residue macrolactam ring where the C-terminal tail is threaded and irreversibly trapped. The ring results from the condensation of the N-terminal amino group with a side-chain carboxylate of a glutamate at position 8 or 9, or an aspartate at position 7, 8 or 9. The trapping of the tail involves bulky amino acids located in the tail below and above the ring and/or disulfide bridges connecting the ring and the tail. Lasso peptides are subdivided into three subtypes depending on the absence (class II) or presence of one (class III) or two (class I) disulfide bridges. The lasso topology results in highly compact structures that give to lasso peptides an extraordinary stability towards both protease degradation and denaturing conditions. Lasso peptides are generally receptor antagonists, enzyme inhibitors and/or antibacterial or antiviral (anti-HIV) agents. The lasso scaffold and the associated biological activities shown by lasso peptides on different key targets make them promising molecules with high therapeutic potential. Their application in drug design has been exemplified by the development of an integrin antagonist based on a lasso peptide scaffold. The biosynthesis machinery of lasso peptides is therefore of high biotechnological interest, especially since such highly compact and stable structures have to date revealed inaccessible by peptide synthesis. Lasso peptides are produced from a linear precursor LasA, which undergoes a maturation process involving several steps, in particular cleavage of the leader peptide and cyclization. The post-translational modifications are ensured by a dedicated enzymatic machinery, which is composed of an ATP-dependent cysteine protease (LasB) and a lactam synthetase (LasC) that form an enzymatic complex called lasso synthetase. Microcin J25, produced by Escherichia coli AY25, is the archetype of lasso peptides and the most extensively studied. To date only around forty lasso peptides have been isolated, but genome mining approaches have revealed that they are widely distributed among Proteobacteria and Actinobacteria, particularly in Streptomyces, making available a rich resource of novel lasso peptides and enzyme machineries towards lasso topologies.


Metalloenzymes in Denitrification

Metalloenzymes in Denitrification

Author: Isabel Moura

Publisher: Royal Society of Chemistry

Published: 2016-11-15

Total Pages: 468

ISBN-13: 1782623345

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The reduction of nitrate to nitrogen by metalloenzymes is a vital step in the nitrogen cycle. The importance of this pathway has inspired efforts to understand in greater depth the mechanisms involved. This book presents and discusses the latest information on multiple aspects of denitrification. Written by recognized specialists in the field, this book describes the bioinorganic aspects and the key enzymes involved in denitrification, including their structure, function and mechanisms. Active site modelling, novel methodologies for monitoring denitrification in vivo and biotechnological methods for water treatment are discussed. The book also focusses on the environmental implications of denitrification, such nitrate accumulation and the release of nitrous oxide into the atmosphere from excessive fertiliser use. An important topic in many biological, environmental and agricultural contexts, this book will aid teaching and help bioinorganic chemists and biotechnologists gain an up-to-date picture of the science behind the denitrification process.


The Science and Applications of Synthetic and Systems Biology

The Science and Applications of Synthetic and Systems Biology

Author: Institute of Medicine

Publisher: National Academies Press

Published: 2011-12-30

Total Pages: 570

ISBN-13: 0309219396

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Many potential applications of synthetic and systems biology are relevant to the challenges associated with the detection, surveillance, and responses to emerging and re-emerging infectious diseases. On March 14 and 15, 2011, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to explore the current state of the science of synthetic biology, including its dependency on systems biology; discussed the different approaches that scientists are taking to engineer, or reengineer, biological systems; and discussed how the tools and approaches of synthetic and systems biology were being applied to mitigate the risks associated with emerging infectious diseases. The Science and Applications of Synthetic and Systems Biology is organized into sections as a topic-by-topic distillation of the presentations and discussions that took place at the workshop. Its purpose is to present information from relevant experience, to delineate a range of pivotal issues and their respective challenges, and to offer differing perspectives on the topic as discussed and described by the workshop participants. This report also includes a collection of individually authored papers and commentary.


Acidophiles

Acidophiles

Author: Raquel Quatrini

Publisher:

Published: 2016

Total Pages: 310

ISBN-13: 9781910190333

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Contributors from a wide range of biological and environmental sciences. This up-to-date and comprehensive book is indispensable for environmental scientists and microbiologists and is a recommended acquisition for all microbiology libraries. Written by experts in their field, this important volume provides a comprehensive account of acidophilic microbiology from fundamental to applied aspects. The seventeen chapters are arranged in five sections, each dealing with a specific area. The first section looks at the challenges faced by life-forms that grow in extremely acidic environments and how they adapt to meet these challenges. The next section describes the physiological and phylogenetic diversities of acidophilic microorganisms including archaea, bacteria and eukaryotes. Section three covers acidophile community dynamics, quorum sensing and the formation of biofilms. The next section deals with the various omic technologies that are used to study acidophiles including genomic and metagenomic studies, proteomic-, mobilomic- and metabolomic-focused research. The final section considers the ways in which acidophiles are used in established and emerging biotechnologies and describes why these fascinating microorganisms are considered potential candidates for life on other solar bodies, such as Mars, and beyond.


Organophosphorus Chemistry 2018

Organophosphorus Chemistry 2018

Author: György Keglevich

Publisher: MDPI

Published: 2020-03-05

Total Pages: 602

ISBN-13: 3039282360

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Organophosphorus chemistry is an important discipline within organic chemistry. Phosphorus compounds, such as phosphines, trialkyl phosphites, phosphine oxides (chalcogenides), phosphonates, phosphinates and >P(O)H species, etc., may be important starting materials or intermediates in syntheses. Let us mention the Wittig reaction and the related transformations, the Arbuzov- and the Pudovik reactions, the Kabachnik–Fields condensation, the Hirao reaction, the Mitsunobu reaction, etc. Other reactions, e.g., homogeneous catalytic transformations or C-C coupling reactions involve P-ligands in transition metal (Pt, Pd, etc.) complex catalysts. The synthesis of chiral organophosphorus compounds means a continuous challenge. Methods have been elaborated for the resolution of tertiary phosphine oxides and for stereoselective organophosphorus transformations. P-heterocyclic compounds, including aromatic and bridged derivatives, P-functionalized macrocycles, dendrimers and low coordinated P-fragments, are also of interest. An important segment of organophosphorus chemistry is the pool of biologically-active compounds that are searched and used as drugs, or as plant-protecting agents. The natural analogue of P-compounds may also be mentioned. Many new phosphine oxides, phosphinates, phosphonates and phosphoric esters have been described, which may find application on a broad scale. Phase transfer catalysis, ionic liquids and detergents also have connections to phosphorus chemistry. Green chemical aspects of organophosphorus chemistry (e.g., microwave-assisted syntheses, solvent-free accomplishments, optimizations, and atom-efficient syntheses) represent a dynamically developing field. Last, but not least, theoretical approaches and computational chemistry are also a strong sub-discipline within organophosphorus chemistry.


Modified Nucleic Acids

Modified Nucleic Acids

Author: Kazuhiko Nakatani

Publisher: Springer

Published: 2016-04-04

Total Pages: 280

ISBN-13: 3319271113

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This book spans diverse aspects of modified nucleic acids, from chemical synthesis and spectroscopy to in vivo applications, and highlights studies on chemical modifications of the backbone and nucleobases. Topics discussed include fluorescent pyrimidine and purine analogs, enzymatic approaches to the preparation of modified nucleic acids, emission and electron paramagnetic resonance (EPR) spectroscopy for studying nucleic acid structure and dynamics, non-covalent binding of low- and high-MW ligands to nucleic acids and the design of unnatural base pairs. This unique book addresses new developments and is designed for graduate level and professional research purposes.