Progress in Molecular and Subcellular Biology – serie

This book focuses on the context dependency of cell signaling by showing how the endosomal system helps to structure and regulate signaling pathways. The location and concentration of signaling nodes regulate their activation cycles and engagement with distinct effector pathways. Whilst many cell signaling pathways are initiated from the cell surface, endocytosis provides an opportunity for modulating signaling networks’ output.  In this book, first a series of reviews describe the endocytic and endosomal system and show how these subcellular platforms sort and regulate a wide range of signaling pathway components and phenotypic outputs. The book then reviews the latest scientific insights into how endocytic trafficking and subcellular location modulate a set of major pathways that are essential to normal cellular function and organisms’ development.

This book discusses genome-based strategies to provide a holistic understanding of yeasts in Human Health and as model organisms in basic research or industrial production. Using numerous Saccharomyces cerevisiae strains and various non-conventional yeast species isolated from diverse origins, it describes essential biological processes, the biotechnological exploitation of yeast and pathogenesis control. It also demonstrates how functional and comparative genomics and the development of genome engineering tools are used in modern yeast research.The use of yeasts as experimental eukaryotic models increasingly gained prominence when several Nobel Prizes in Physiology/Medicine and Chemistry were awarded for innovative research, using yeast strains to elucidate molecular mechanisms in a wide range of human physiological processes and diseases, such as autophagy, cell cycle regulation and telomerase activity.This book offers useful insights for scientists in yeast research, clinical scientists working with yeast infectious models and for industrial researchers using applied microbiology.

This book discusses genome-based strategies to provide a holistic understanding of yeasts in Human Health and as model organisms in basic research or industrial production. Using numerous Saccharomyces cerevisiae strains and various non-conventional yeast species isolated from diverse origins, it describes essential biological processes, the biotechnological exploitation of yeast and pathogenesis control. It also demonstrates how functional and comparative genomics and the development of genome engineering tools are used in modern yeast research.The use of yeasts as experimental eukaryotic models increasingly gained prominence when several Nobel Prizes in Physiology/Medicine and Chemistry were awarded for innovative research, using yeast strains to elucidate molecular mechanisms in a wide range of human physiological processes and diseases, such as autophagy, cell cycle regulation and telomerase activity.This book offers useful insights for scientists in yeast research, clinical scientists working with yeast infectious models and for industrial researchers using applied microbiology.

This book provides a comprehensive overview of the biology of the endoplasmic reticulum (ER) and the associated ER proteins, it discusses their structure, function and signaling mechanisms in the cell and their role in disease. This book also offers insights into the practical aspects of research and demonstrates the use of non-mammalian models to study the structure and function of the ER. Written by leading experts in the field, the book enables readers to gain a thorough understanding of current ER biology. It is intended for scientists and clinical researchers working on the endoplasmic reticulum in all its various roles and facets in health and disease.

This book provides a comprehensive overview of the biology of the endoplasmic reticulum (ER) and the associated ER proteins, it discusses their structure, function and signaling mechanisms in the cell and their role in disease. This book also offers insights into the practical aspects of research and demonstrates the use of non-mammalian models to study the structure and function of the ER. Written by leading experts in the field, the book enables readers to gain a thorough understanding of current ER biology. It is intended for scientists and clinical researchers working on the endoplasmic reticulum in all its various roles and facets in health and disease.

This book gives a comprehensive overview of the unique roles that non-coding repetitive elements such as satellite DNAs play in different physiological and evolutionary processes. It presents the gene-regulatory aspect of satellite DNAs in different model systems including mammals, insects and plants. In addition, evolutionary aspects of activation of satellite DNAs in terms of transcription and proliferation are highlighted, revealing the role of satellite DNAs in the process of adaptation to changing environment and in the speciation process.Finally, the book discusses satellite DNA activation during pathological transformation and the mechanisms by which they affect disease progression. Namely, some satellite DNAs promote the oncogenic processes by affecting genome epigenetic regulation as well as genome integrity. Readers get a full overview of the latest research on satellite DNA.

This book gives a comprehensive overview of the unique roles that non-coding repetitive elements such as satellite DNAs play in different physiological and evolutionary processes. It presents the gene-regulatory aspect of satellite DNAs in different model systems including mammals, insects and plants. In addition, evolutionary aspects of activation of satellite DNAs in terms of transcription and proliferation are highlighted, revealing the role of satellite DNAs in the process of adaptation to changing environment and in the speciation process.Finally, the book discusses satellite DNA activation during pathological transformation and the mechanisms by which they affect disease progression. Namely, some satellite DNAs promote the oncogenic processes by affecting genome epigenetic regulation as well as genome integrity. Readers get a full overview of the latest research on satellite DNA.

This volume focuses on the biomedical aspects of inorganic polyphosphates, a family of unique bio-inorganic polymers.In recent years, great advances have been made in understanding the development, metabolism, and physiological role of inorganic polyphosphates. These energy-rich polymers, which consist of long chains of phosphate units, are evolutionary old molecules. The acidocalcisomes, conserved organelles from bacteria to humans, as well as the mitochondria play a central role in polyphosphate production and storage. Polyphosphates have been assigned multiple functions, some of which are closely related to medically important processes, such as blood coagulation and fibrinolysis, energy metabolism, cell cycle regulation, apoptosis, chaperon function, microvascularization, stress response, neurodegeneration and aging. The development of bioinspired polyphosphate particles, in combination with suitable hydrogel-forming polymers enabled the development of new strategies in regenerative medicine, in particular for hard and soft tissue repair, but also in drug delivery and antimicrobial defense. This book not only highlights the basic research in this area, but also discusses possible applications. Therefore, it appeals to scientists working in cell biology, biochemistry, and biomedicine and practicioners alike.

This volume focuses on the biomedical aspects of inorganic polyphosphates, a family of unique bio-inorganic polymers.In recent years, great advances have been made in understanding the development, metabolism, and physiological role of inorganic polyphosphates. These energy-rich polymers, which consist of long chains of phosphate units, are evolutionary old molecules. The acidocalcisomes, conserved organelles from bacteria to humans, as well as the mitochondria play a central role in polyphosphate production and storage. Polyphosphates have been assigned multiple functions, some of which are closely related to medically important processes, such as blood coagulation and fibrinolysis, energy metabolism, cell cycle regulation, apoptosis, chaperon function, microvascularization, stress response, neurodegeneration and aging. The development of bioinspired polyphosphate particles, in combination with suitable hydrogel-forming polymers enabled the development of new strategies in regenerative medicine, in particular for hard and soft tissue repair, but also in drug delivery and antimicrobial defense. This book not only highlights the basic research in this area, but also discusses possible applications. Therefore, it appeals to scientists working in cell biology, biochemistry, and biomedicine and practicioners alike.

In a world replete with microorganisms, humans have evolved alongside these tiny entities, sharing the same environment and establishing intricate relationships with them. This book covers the world of bacteria and archaea, two groups of microorganisms that have played both beneficial and detrimental roles in different environments. By exploring the diverse life of these microorganisms, the book aims to tell the story of the importance and the need for further research into their different and largely unexplored aspects.The book is structured to provide a comprehensive understanding of bacteria and archaea, starting with their evolutionary and systematic history, as well as their diversity, highlighting the unique characteristics and adaptations that allow them to thrive in diverse environments. The reader will be introduced to the metabolic processes of bacteria and archaea, including the production of primary and secondary metabolites, which are crucial for their survival and interaction with other organisms.Thanks to technological advances, we now have the tools to better understand the systematics, life activities and biotechnological applications of microorganisms. This book explores these applications in depth, from developing new treatments and therapies to improving crop yields and soil health. The biotechnological potential of these microorganisms is vast and promising.This title is aimed at researchers and students interested in environmental biology and biotechnology and is a valuable resource for understanding the complex world of microorganisms. By examining the microbiota and microbiome, and using microbial omics, readers will be equipped with the knowledge necessary to appreciate the profound impact these microorganisms have on our lives and the environment.

This volume examines recent progress in the development of rational strategies for tissue regeneration, including approaches for wound healing and the management of chronic wounds. These advances build on the understanding that tissue repair is an energy-dependent process and on the identification of molecules that help overcome energy deficits during healing.The book also discusses the design of controlled drug delivery systems and the development of composite materials for tissue regeneration and wound repair, based on synthetic or biological polymers and nanoparticles, which offer improved performance compared to conventional materials.Contributions from leading researchers provide an overview of key developments and current directions in this evolving area of biomedical research.

This book describes the discovery of molecules from unexploited extreme marine environments, and presents new approaches in marine genomics. It combines the current state of knowledge in marine genomics and advanced natural products’ chemistry to pursue the sustainable production of novel secondary metabolites (lead compounds), as well as pharmacologically active peptides/proteins, with antimicrobial, neuroprotective, anti-osteoporotic, anti-protozoan/anti-plasmodial, anti-ageing and immune-modulating effects. Further, it employs molecular-biology-based approaches and advanced chemical techniques to obtain and to select candidate compounds for pre-clinical and clinical studies.

This book presents the latest advances concerning the regulation of chromosome segregation during cell division by means of centromeres and kinetochores. The authors cover both state-of-the-art techniques and a range of species and model systems, shedding new light on the molecular mechanisms controlling the transmission of genetic material between cell divisions and from parent to offspring. The chapters cover five major areas related to the current study of centromeres and kinetochores: 1) their genetic and epigenetic features, 2) key breakthroughs at the molecular, proteomic, imaging and biochemical level, 3) the constitutive centromere proteins, 4) the role of centromere proteins in the physical process of chromosome segregation and its careful orchestration through elaborate regulation, and 5) intersections with reproductive biology, human health and disease, as well as chromosome evolution. The book offers an informative and provocative guide for newcomers as wellas those already acquainted with the field.

This book describes the discovery of molecules from unexploited extreme marine environments, and presents new approaches in marine genomics. It combines the current state of knowledge in marine genomics and advanced natural products’ chemistry to pursue the sustainable production of novel secondary metabolites (lead compounds), as well as pharmacologically active peptides/proteins, with antimicrobial, neuroprotective, anti-osteoporotic, anti-protozoan/anti-plasmodial, anti-ageing and immune-modulating effects. Further, it employs molecular-biology-based approaches and advanced chemical techniques to obtain and to select candidate compounds for pre-clinical and clinical studies.

This book focuses on the context dependency of cell signaling by showing how the endosomal system helps to structure and regulate signaling pathways. The location and concentration of signaling nodes regulate their activation cycles and engagement with distinct effector pathways. Whilst many cell signaling pathways are initiated from the cell surface, endocytosis provides an opportunity for modulating signaling networks’ output.  In this book, first a series of reviews describe the endocytic and endosomal system and show how these subcellular platforms sort and regulate a wide range of signaling pathway components and phenotypic outputs. The book then reviews the latest scientific insights into how endocytic trafficking and subcellular location modulate a set of major pathways that are essential to normal cellular function and organisms’ development.

Many complex molecular interactions are involved in the development of the mammalian brain. Molecules serving as guidance cues for migratory cells, growing axons and for recognition of postsynaptic targets are a major topic for research because they are directly involved in the formation of neuronal circuits, thus creating the foundation for subsequent functional refinement through interactions with the environment. In addition, most guidance cue molecules are also involved in plasticity, damage repair and regeneration in the adult brain. This volume reviews current knowledge on major classes of molecules involved in: guidance of growing axons; tau proteins involved in the establishment of axonal polarity, outgrowth and contact recognition; gangliosides and lectins involved in neuronal migration, neurite outgrowth and contact recognition; and myelin molecules that inhibit nerve regeneration.

During evolution silica deposition has been used in Protozoa, Metazoa and in plants as skeletal elements. It appears that the mechanisms for the formation of biogenic silica have evolved independently in these three taxa. In Protozoa and plants biosilicification appears to be primarily driven by non-enzymatic processes and procedes on organic matrices. In contrast, in sponges (phylum Porifera) this process is mediated by enzymes; the initiation of this process is likewise dependent on organic matrices. In this monograph the role of biosilica as stabilizing structures in different organisms is reviewed and their role for morphogenetic processes is outlined. It provides an up-to-date summary of the mechanisms by which polymeric biosilica is formed. The volume is intended for biologists, biochemists and molecular biologists, involved in the understanding of structure formation in living organisms and will also be very useful for scientists working in the field of applied Nanotechnology and Nanobiotechnology.

Epigenetics refers to heritable patterns of gene expression which do not depend on alterations of genomic DNA sequence. This book provides a state-of-the-art account of a few selected hot spots by scientists at the edge in this extremely active field. It puts special emphasis on two main streams of research. One is the role of post-translational modifications of proteins, mostly histones, on chromatin structure and accessibility. The other one deals with parental genomic imprinting, a process which allows to express a few selected genes from only one of the parental allele while extinguishing the other.

Members of the phylum Echinodermata are among the most familiar marine invertebrates. Forms such as the sea star have become virtually a symbol of sea life. Used in ancient oriental medicine as a source of bioactive compounds, sea cucumbers, sea stars and sea urchins are now used for the extraction and purification of cytotoxic, haemolytic, antiviral, antifungal, antifouling, antimicrobial and even anti-tumoural activities. In addition, of the five extant classes, sea urchins and sea cucumbers are important economic resources for current fishery and aquaculture. Molecular and cell biological techniques described in this book are, on the one hand, indicative of the improvements made over the years and, on the other, stress the need of their further exploitation for the sustainable production of bioactive compounds and their application in biomedicine.

In this book, tumour growth is perceived as a deviation from the normal development of the human organism. The molecular, cellular, and tissue determinants of different tumours are discussed showing that each is a different disease, often corresponding to a particular developmental stage. The natural history of several cancers illustrates how clinical incidence can be just the visible part of the iceberg, while the first changes at the tissue level sometimes occur several years before tumour growth becomes manifest. Several mechanisms are proposed to explain the distribution of cancers during the human life span and the decline of the incidence of cancers during human senescence.

Symbiotic associations involving prokaryotes occur ubiquitously and are ecologically highly significant. In symbiotic associations, co-evolution of the partner organisms has led to specific mechanisms of signal exchange and reciprocal regulation, and resulted in novel physiological capabilities of the association as compared to those of the individual partners. Symbiosis research has recently entered an exciting era because molecular biology techniques are available for studying partner organisms in association and in a culture-independent manner. It is the goal of this book to contribute towards a broader perspective and an understanding of the function of symbiotic systems. 14 different model systems have been chosen, comprising well known symbioses as well as novel experimental systems which have only recently become amenable to experimental manipulation.

Increasing awareness of the deleterious effects of toxic components in antifouling coatings has raised interest in the potential for nontoxic alternatives. This book examines how marine organisms from bacteria to invertebrates and plants use chemicals to communicate and defend themselves. Chemicals that prevent colonisation of living surfaces are particularly pertinent to antifouling technology and may inspire new solutions. The challenge is to identify such compounds, identify the means for sustainable production and incorporate them into coatings to give long-term antifouling efficacy.

Marine molluscs are very promising candidates for a wide range of biotechnological applications. For example, they possess analgesic drugs more potent than morphine and very effective anticancer agents. The present book gives an up-to-date overview of the main classes of bioactive compounds from molluscs, moving from ecological observations, to chemical characterization, to biosynthesis, to large-scale synthesis, and to pharmacological applications. A truly outstanding international panel of experts from all continents provides complete coverage of the most stimulating topics related to molluscs. This knowledge of their history and current studies provides an open door to the future.

Splicing of primary RNA transcript, i.e. removal of introns and joining of exons to produce mature mRNAs competent for translation into proteins, is a quasi-systematic step of gene expression in higher organisms. However, this process is not unequivocal but can follow alternate pathways. Alternative splicing of a given transcript can therefore yield several distinct mRNAs encoding as many different proteins. Its full biological significance has not been appreciated until it was recognized that alternative splicing is so general as to affect about 75% of all human genes. Therefore, alternative splicing not only vastly increases protein diversity but also offers numerous opportunities for aberrant splicing events with pathological consequences.

Based on the assumption that invertebrates as well as vertebrates possess factors regulating hematopoiesis, response to infection or wounding, studies dealing with the evolution of immunity have focused on the isolation and characterization of putative cytokine-related molecules from invertebrates. Until recently, most of our knowledge of cytokine- and cytokine receptor-like molecules in invertebrates has relied on functional assays and similarities at the physicochemical level. As such, a phylogenetic relationship between invertebrate cytokine-like molecules and invertebrate counterparts could not be convincingly demonstrated. In the present book, recent studies demonstrating cytokine-like activities and related signaling pathways in invertebrates are critically reviewed, focusing on findings from molecular biology and taking advantage of the completion of the genome from the fly Drosophila and the worm Caenorhabditis elegans.

This book deals with anabolic mechanisms which regulate eukaryotic protein synthesis, with particular emphasis on insulin and amino acids. Six chapters written by leading experts in the field provide both new data and comprehensive literature reviews. The regulation of both the eIF2 and eIF4 groups of initiation factors by signal transduction mechanisms is presented, and translation is related to cellular growth in response to nutrient and hormonal signals.

This volume presents the response of the eukaryotic translational apparatus to cellular stress and apoptosis, including kinases activated through both the ERK and stress-activated pathways. It further explores two agents that inhibit protein synthesis, calcium and the immunosuppressant rapamycin. Six chapters written by leading experts in the field provide both new data and comprehensive literature reviews. Both the regulation of initiation and elongation are discussed, and the mechanisms of apoptosis are related to changes in the protein synthesis machinery.

This volume gives the reader a comprehensive overview of the fundamental and biological aspects of aging. First, the field is described from a historical perspective. Then, the author analyzes the three fundamental mechanisms of survival: energy utilization, molecular and cellular redundancy, and the organization of information. The genetics of aging is reviewed rejecting some simple-minded interpretations. A bridge is established between the molecular, cellular, and tissue modifications that have been reported in the literature, and the clinical manifestations of the aging syndrome. Special relevance is given to the problem of the supposed association between cancers and aging, giving a new interpretation of that relationship.

The discovery in 1977 that genes are split into exons and introns has done away with the one gene - one protein dogma. Indeed, the removal of introns from the primary RNA transcript is not necessarily straightforward since there may be optional pathways leading to different messenger RNAs and consequently to different proteins. Examples of such an alternative splicing mechanism cover all fields of biology. Moreover, there are plenty of occurrences where deviant splicing can have pathological effects. Despite the high number of specific cases of alternative splicing, it was not until recently that the generality and extent of this phenomenon was fully appreciated. A superficial reading of the preliminary sequence of the human genome published in 2001 led to the surprising, and even deceiving to many scientists, low number of genes (around 32,000) which contrasted with the much higher figure around 150,000 which was previously envisioned. Attempts to make a global assessment of the use of alternative splicing are recent and rely essentially on the comparison of genomic mRNA and EST sequences as reviewed by Thanaraj and Stamm in the first chapter of this volume. Most recent estimates suggest that 40-60% of human genes might be alternatively spliced, as opposed to about 22% for C. elegans.