Sunday 20 October 2013

Viruses in food and water

Viruses can be highly infectious and are capable of causing widespread disease outbreaks. The significance of viral pathogens in food and waterborne illness is increasingly being recognised and viruses transferred by these routes are important areas of research. Viruses in food and water reviews the risks, surveillance and control of food and waterborne viral disease. 

Part one provides an introduction to food and environmental virology. Part two goes on to explore methods of detection, surveillance and risk assessment of viruses in food and water; it includes chapters on molecular detection of viruses in foods and food processing environments, quality control in the analytical laboratory, and quantitative risk assessment for food and waterborne viruses. Part three focuses on virus transmission routes and control of food and water contamination. It contains chapters on fresh produce, shellfish and viral presence, and control methods in waste water and sewage. Finally, part four highlights particular pathogens including norovirus, hepatitis A and emerging zoonotic viruses. 

Viruses in food and water is a standard reference book for microbiologists in academia, analytical labs and the food and water treatment industries, as well as environmental health professionals and researchers working on foodborne viruses.




Toxicity of Heavy Metals to Legumes and Bioremediation

Toxicity of heavy metals to legumes and bioremediation presents numerous aspects of metal toxicity to legumes and suggests quite a few bioremediation strategies that could be useful in restoring contaminated environments vis-a-vis legume production in metal-stressed soils. The mobility and availability of toxic metals, nutritive value of some metals, and the strategies to assess the human health risk by heavy metals are reviewed and highlighted. Heavy metal toxicity to symbiotic nitrogen fixing microorganism and host legumes is dealt separately. A focused insight into the possible effects of heavy metals on seed germination and important physiological functions of plants including popularly grown legumes around the world have been amply reviewed and discussed in this book. The interaction between chromium and plant growth-promoting rhizobacteria and how chromium toxicity could be managed are explored. The influence of glutathione on the tolerance of Rhizobium leguminosarum to cadmium is covered in detail. The book further describes in a separate chapter, “Bioremediation: A natural method for the management of polluted environment,” several bioremediation strategies commonly used in cleaning up the heavy metal-contaminated sites. “Rhizobium–legume symbiosis: A model system for the recovery of metal contaminated agricultural land” has been sufficiently discussed in this book. Microbially mediated transformations of heavy metals in rhizosphere are critically addressed. “Rhizoremediation: A pragmatic approach for remediation of heavy metal contaminated soil” is reviewed and highlighted. Plant growth-promoting rhizobacteria facilitate the growth and development of various plants in both conventional and stressed soils by one or combination of several mechanisms. This interesting aspect of PGPR in the management of cadmium-contaminated soil is dealt separately. The importance of mycorrhizal fungi in enhancing legume production in both conventional and derelict environment and site-specific optimization of arbuscular mycorrhizal fungi-mediated phytoremediation have been reviewed and discussed. Further in this book, heavy metal resistance in plants and putative role of endophytic bacteria are highlighted.

Toxic Plants of North America, 2nd Edition

Toxic Plants of North America, Second Edition is an up-to-date, comprehensive reference for both wild and cultivated toxic plants on the North American continent. In addition to compiling and presenting information about the toxicology and classification of these plants published in the years since the appearance of the first edition, this edition significantly expands coverage of human and wildlife—both free-roaming and captive—intoxications and the roles of secondary compounds and fungal endophytes in plant intoxications.

More than 2,700 new literature citations document identification of previously unknown toxicants, mechanisms of intoxication, additional reports of intoxication problems, and significant changes in the classification of plant families and genera and associated changes in plant nomenclature. Toxic Plants of North America, Second Edition is a comprehensive, essential resource for veterinarians, toxicologists, agricultural extension agents, animal scientists, and poison control professionals.


Synthetic Biology

Synthetic Biology utilizes the design and construction principles of engineering to develop new biological components and systems or embed novel functions into existing ones, and standardize their behavior. This systematic approach to improving and increasing the programmability and robustness of biological components is expected to lead to the facile assembly of artificial biological components and integrated systems. While there has been considerable success in the field, it is still far from its full potential, with major challenges including standardization of parts so that they function reliably, with functional stability in face of mutations and other biophysical constraints such as noise, and integration of different parts.

The ambitious goals and interdisciplinary nature of this new research field have prompted the advancement of molecular biology techniques to meet the need for rapid development of biological building blocks as well as for their functional characterization and quality control. In parallel, researchers in the field of Systems Biology have recognized that the development of novel components necessitates advanced computational design tools that are capable of analyzing the behavior of parts and of constructing synthetic biological networks. This volume aims to review the latest developments in molecular biology techniques that find use in Synthetic Biology and to present some of the enabling computational tools that will aid in systematizing the design and construction of parts and systems. For a more comprehensive set of the latter, readers should look for our sister volume.


Stem Cell Biology in Normal Life and Diseases

Stem cells have a prominent role in biology of normal life and also in pathogenesis of diseases. Life starts with generation of an embryo (the most primitive form of a stem cell) and goes through all of the embryonic and fetal stages of life. It forms all of the tissue and organs of a living organism and then has a role in maintenance of normal cellular composition of body. And finally these cells maintain body in a steady state of cell loss and substitution of normal lost/died cells by new normal cells. Nearly in every organ of body we have these cells, although location characteristic and biological property of them is not completely understood. Despite of their role in normal life, these cells also have a prominent role in many diseases. Deficiency/depletion of these cells is very important in pathogenesis diseases. For example aplastic anemia (a fatal form of hematopoietic stem cell disease) is stem cell damage in bone marrow, due to environmental or immunologic dysregulation.

Cancer is also a stem cell disease. Genetic/metabolic abnormalities of tissue stem cells (or some times more mature progenitor cells) may disrupt normal proliferation of immature cells in an organ and start process of carcinogenesis. Although clinical application of the best known stem cells (Hematopoietic stem cells) is possible today and they are useful for treatment of many malignant and non-malignant disorders, clinical knowledge and application of these cells is in infancy. These cells are potentially applicable in regenerative medicine and also cancer treatment. For safe and effective application of these cells, we need better knowledge of their biology, their interaction with other cells (especially supporting niche cells), growth, maturation and also immigration of stem cells through body in normal and abnormal conditions. Also for clinical application we need to know their characterization, their separation methods and safe manipulation.

This book is written to clarify some aspects of stem cell biology, their characteristics, assessment of damage to cells during ex vivo manipulation and also their role in a model of cancers (chronic myeloid leukemia).

Sirtuins

The sirtuins are a family of genes encoding NAD(+)-dependent protein deacylases conserved in several organisms including yeast, worms, flies, and mammals. This family of genes has been shown to play crucial roles in the molecular pathways that regulate cell survival, metabolism, and the diseases of aging. Because of the diverse roles sirtuins play, research in the area of sirtuins has expanded into multiple disciplines at an accelerated pace, identifying new and unexpected roles for this family of genes. A diverse array of model organisms and scientific techniques are used to study the sirtuins, which are presented in a comprehensive manner in this volume of Methods in Molecular Biology. After an introductory chapter, the first four chapters (Part I) focus on “Methods to generate sirtuin biology tools,” one each for yeast, C . elegans, Drosophila , and mammalian model organisms. In addition to reviewing common tools, some techniques are presented along with these tools as examples for their use. The next five chapters (Part II) focus on “Methods to identify sirtuin substrates,” covering several enrichment and proteomic strategies to measure changes in acylation of sirtuin substrates. The following five chapters (Part III) cover “Methods to measure sirtuin activity,” which is one of the major challenges currently facing the sirtuin field. Both direct and indirect measurements of sirtuin activity are presented.

Finally, the last five chapters (Part IV) on “Methods to study sirtuin biology” describe protocols to measure some of the major biological pathways controlled by the sirtuins, including metabolism, autophagy, genomic stability, circadian rhythms, and calorie restriction.

Together, the chapters in this volume present detailed protocols for sirtuin research that can be followed directly or modified to investigate new areas of sirtuin biology. We deeply thank the contributing authors to this volume and wish success to the scientists using these protocols for discoveries in this rapidly evolving and exciting field.


Sex Determination in Fish

Sex Determination in Fish is the first to report that research in allogenics/xenogenics has conclusively shown that fishes have retained bisexual potency even after sexual maturity and spermiation. The XY genotype found in the unexpected female phenotypes sired by supermales (Y1Y2) and androgenic males (Y2Y2) points out the need to employ sex specific molecular markers to identify the true genotype of a juvenile, which matures either as a male or female, depending upon the sex of its pair (female or male) and thereby critically assessing the environmental role in sex determination. This book is meant to assist molecular biologists in the search of sex determining gene(s), fishery biologists endeavouring to develop techniques for profitable monosex aquaculture and ecologists interested in conservation of fishes and their genomes.

The title of the book is a ‘hot area’ of research. Not surprisingly, there are many reviews and books on this topic. However, these are more concerned with sex differentiation than sex determination; they have not considered unisexualism in the context of sex determination in fishes. In an attempt to find clues to resolve the riddle of sex determination in fishes, this comprehensive book explores it from cytogenetics through hybrids, gynogenics, androgenics, ploidies, allogenics/xenogenics to sexonomics of gonochores, hermaphrodites and unisexuals. About 77 and 50% of references cited here are dated after 1991 and 2001, respectively; they were collected from widely scattered 375 sources of journals, book proceedings, theses and so on. As the book is a continuum of the earlier book ‘Sexuality in Fishes’, there are a few unavoidable but obligatorily required duplications to keep each chapter complete and independent, besides pointing out areas of research requiring critical inputs. None of the earlier reviews/books have ever considered allogenics/xenogenics; this book is the fi rst to report that researches in this frontier area have conclusively shown that fishes have retained bisexual potency even after sexual maturity and spermiation. The XY genotype found in the unexpected female phenotypes sired by supermales (Y1Y2) and androgenic males (Y2Y2) points out the need to employ sex specific molecular markers to identify the true genotype of a juvenile, which matures either as a male or female, depending upon the sex of its pair (female or male) and thereby critically assess the environmental role in sex determination.


Proteomics for Biomarker Discovery

With the advent of proteomics came the development of technologies, primarily mass spectrometry, which allowed high-throughput identification of proteins in complex mixtures. While the mass spectrometer resides at the heart of proteomics, its ability to characterize biological samples is only as good as the sample preparation and data analysis tools used in any study. Not only has proteomics increased our capacity to identify proteins, it has enabled other characteristics of proteomes to be measured. Of utmost interest has been the development of techniques for measuring posttranslational modifications such as phosphorylation and glycosylation. Since the amount of any specific protein within a cell is important to its function, methods to quantitate protein levels have also been developed. These quantitative methods include both label-free approaches and those that utilize stable isotopes incorporated both during cell growth or added via a chemical reaction once the proteome is extracted from the cell.

The purpose of this book is to provide the student and researcher in the fields of Biochemistry, Biomedicine, Molecular and Cellular Biology, and Bioinformatics a detailed description of many of the different sample preparation and data analysis tools used in proteomics today. The editors are indebted to each of the authors for providing their time and expertise in making this edition an invaluable resource to anyone involved or interested in proteomics.



Principles of Plant Genetics and Breeding; Second Edition

To respond to the increasing need to feed the world's population as well as an ever greater demand for a balanced and healthy diet there is a continuing need to produce improved new cultivars or varieties of plants, particularly crop plants. The strategies used to produce these are increasingly based on our knowledge of relevant science, particularly genetics, but involves a multidisciplinary understanding that optimizes the approaches taken.
Principles of Plant Genetics and Breeding, 2nd Edition introduces both classical and molecular tools for plant breeding. Topics such as biotechnology in plant breeding, intellectual property, risks, emerging concepts (decentralized breeding, organic breeding), and more are addressed in the new, updated edition of this text. Industry highlight boxes are included throughout the text to contextualize the information given through the professional experiences of plant breeders. The final chapters provide a useful reference on breeding the largest and most common crops.
It represents a thoroughly overhauled version of the preceding edition, following recommendations and suggestions from users and reviewers. The major changes in the new edition include restructuring and reordering the chapters to follow more closely with how plant breeding is done in practice, and expanding the molecular genetics component. Also, the basic science information has been reduced. Two of the chapters in the first edition have been transferred to the back of the textbook as supplementary material, so it may be referred to by users only as needed. In this way, students and users who already have a background in genetics will not feel obligated to study those chapters before advancing to more plant breeding related topics. A feature of the first edition that is retained and expanded in the second edition is the inclusion of contributions on selected topics by industry professionals. The book is copiously illustrated to facilitate teaching and learning of the topics.

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Pluripotent Stem Cells

Stem cells have generated a lot of excitement among the researchers, clinicians and the public alike. Various types of stem cells are being evaluated for their regenerative potential. Marginal benefit resulting by transplanting autologus stem cells (deemed to be absolutely safe) in various clinical conditions has been proposed to be a growth factor effect rather than true regeneration. In contrast, various pre-clinical studies have been undertaken, using differentiated cells from embryonic stem cells or induced pluripotent stem cells have shown promise, functional improvement and no signs of teratoma formation. The scientists are not in a rush to reach the clinic but a handful of clinical studies have shown promise. This book is a collection of studies/reviews, beginning with an introduction to the pluripotent stem cells and covering various aspects like derivation, differentiation, ethics, etc., and hence would provide insight into the recent standing on the pluripotent stem cells biology. The chapters have been categorized into three sections, covering subjects ranging from the generation of pluripotent stem cells and various means of their derivation from embryonic as well as adult tissues, the mechanistic understanding of pluripotency and narrating the potential therapeutic implications of these in vitro generated cells in various diseases, in addition to the associated pros and cons in the same.

Plant Breeding from Laboratories to Fields

Breeding of crop plants to make them more adapted to human agricultural systems has been on-going during domestication the last 10,000 years. However, only recently with the invention of the Mendelian principles of genetics and the subsequent development of quantitative genetics during the twentieth century has such genetic crop improvement become based on a general theory. During the last 50 years plant breeding has entered a molecular era based on molecular tools to analyse DNA, RNA and proteins and associate such molecular results with plant phenotype. These marker trait associations develop fast to enable more efficient breeding. However, they still leave a major part of breeding to be performed through selection of phenotypes using quantitative genetic tools. The ten chapters of this book illustrate this development.

Plant Mineral Nutrients

Plants require a range of essential macro and micronutrients for their growth and development. For terrestrial plants, all mineral nutrients derive from the soil. Although research into the roles and functions of such minerals stretches back more than 150 years, there are still many unresolved questions, even where the definition of “essential mineral” is concerned. The study of plant mineral nutrition has both academic and applied aspects to it.  The simple fact that the human diet is, directly or indirectly, plant based has obvious and profound implications in this respect. Today, research into plant mineral nutrition is more pertinent than ever in the face of a growing world population and the increasing need for sustainable agriculture.


The study of plant mineral research touches on many biological disciplines such as biophysical techniques to follow uptake and distribution of mineral ions, analytical methods to measure minerals in soil and tissue, whole plant physiology to assess growth and development in different conditions, and, more recently, the whole gambit of molecular approaches to characterize the relevant genes and proteins. Furthermore, it spans a large spatiotemporal range from subcellular to whole plants and from msec to months. This volume contains a comprehensive collection of methodologies that are routinely used in plant mineral nutrition research. It describes easy-to-follow protocols that will allow the researcher to study the most relevant aspects of plant mineral nutrition, including growth parameters, ion contents and composition, soil analyses, flux measurements, and the use of public facilities for high-throughput analyses. As such this volume should be of great use to plant scientists at every level but particularly to plant physiologists, crop scientists, and horticulturalists.

Pheromone Signaling

Providing experimental methods and protocols for performing pheromone research in a variety of organisms ranging from invertebrates to vertebrates, Pheromone Signaling: Methods and Protocols covers a wide spectrum of experimental approaches necessary for handling pheromone molecules, measuring receptor response and neural activation, and analyzing behavioral output. A great deal of progress has been made in understanding the molecular mechanisms underlying pheromone action, largely due to the discovery of receptor genes, the advancement of imaging techniques, and key multi-disciplinary approaches including aspects of organic chemistry, biochemistry, molecular biology, electrophysiology, and behavioral science. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips for troubleshooting and avoiding known pitfalls.

Authoritative and practical, Pheromone Signaling: Methods and Protocols details the key methodologies utilized in laboratories all over the world, making them accessible to those who want to begin investigation in the area of pheromone research.



Peptide Modifications to Increase Metabolic Stability and Activity

Historically, natural products have served as important sources of pharmacologically active compounds or lead structures for the development of new drugs. Among natural products, peptides are particularly interesting because of the key roles they play in biological processes. Peptides’ potential for high efficacy and their minimal side effects combined with advances in recombinant DNA technology, solid-phase synthetic chemistry, purification technology, and new strategies for peptide drug delivery made them widely considered as lead compounds in drug development. At present around 67 peptides are in the world market for clinical applications, some 270 are in clinical phases, and more than 400 are in advanced preclinical trials worldwide. Peptide-based therapeutics exist for a variety of human diseases, including osteoporosis (calcitonin), diabetes (insulin), infertility (gonadorelin), carcinoid tumors and acromegaly (octreotide), hypothyroidism (thyrotropinreleasing hormone [TRH]), and bacterial infections (vancomycin, daptomycin). However, despite their great potential, there are still limitations for peptides as drugs per se. Major disadvantages are short half-life, rapid metabolism, and poor permeation across biological barriers such as the blood–brain barrier (BBB) and intestinal mucosa. Nevertheless, pharmacokinetic properties of peptides can be improved and optimized through synthetic modifications. Peptidomimetic modifications, cyclization of linear peptides, or incorporation of D - and non-proteinogenic amino acids are traditionally used, both in academia and in industry, as an attractive method to provide more stable and bioactive peptides. In addition, linear peptide sequence modification by cyclization, glycosylation, and incorporation of non-proteinogenic amino acids have been widely used to enhance the potential of peptides as therapeutic agents. Peptide modifications to increase metabolic stability and activity is the first volume of a series that summarizes methods for preparation and purification of these peptides, and assessment of their biochemical activity. Readers of this volume will find detailed synthetic protocols that lead to modifications of the peptide backbone, side chains chapter, and terminal residues. Among these are protocols for preparation of conformationally constrained peptides (Chapters 1 and 2 ), modifi cation of peptide bonds (Chapters 3 and 4 ), introduction of non-proteinogenic amino acids (Chapters 5 – 7 ), and alteration of peptides’ physical and biological properties by modifi cation of the amino acid side chains and/or terminal residues (Chapters 8 – 12 ). Last chapter (Chapter 13 ) describes a new experimental approach for the detection of exogenous peptides within living cells using peptides labeled with heavy isotopes and confocal Raman microscopy. This method allows peptide structure–activity relationships and metabolism to be explored directly within the targeted cellular environment. Of course, there are many other ways to improve peptides’ metabolic stability and activity (e.g., peptide PEGylation or N -methylation of peptide bond and/or incorporation of D -amino acids) and they are well documented in the literature. However, my goal in this volume is to provide alternative approaches to peptide modification that many researchers may find applicable to their specific research requirements.



Oxidative Stress and Nanotechnology

Over the past decade, nanotechnology has been a buzzword that the scientific community has embraced with great compassion. The emergence of nanotechnology has had a profound effect on almost every aspect of the twenty-first century’s daily life. It has had a revolutionary impact from stain-resistant clothing and cosmetics to environmental issues, including energy and medicine and even aerospace engineering. This volume, comprised of nine Reviews, nine new Protocols, and one Future Directions chapter, is an endeavor to present various aspects of nanotechnology from the oxidative stress point of view. The authors reflect the large participation of internationally eminent researchers, who have already distinguished themselves by making a deep impact in the fields of nanotechnology and oxidative stress. Starting from a single concept, nanotechnology has emerged as one of the fastest growing niches in this exciting field. Proponents of this avant-garde technology also describe it as one of the most prevalent engineering innovations in science and society since the Industrial Revolution.

There is an enormous disparity between the amount of funding dedicated to nanoparticle safety studies as compared to its mammoth applications in industrial and consumer products. However, there has been a sustaining interest by the scientific community in the effects of short-term and chronic exposure to nanomaterials on humans and the environment. Succinct nanoparticles are defined as submicron particles, usually <100 nm in size. Materials in this range usually produce a set of distinctive physicochemical properties. Therefore, size, chemical composition, and surface properties of nanomaterials play a crucial role in oxidative stress-induced nanotoxicity. Part I of this volume includes detailed Reviews and characterization of different types of nanomaterials, including polymeric and inorganic nanoparticles, nanotubes, nanogels, and quantum dots along with their adverse effects, particularly nanotoxicity induced by oxidative stress. It also reviews in vivo and in vitro toxic effects caused by oxidative stress as a result of exposure to nanomaterials.


Neural Stem cells – New perspectives

During the last two decades stem cell biology has changed the field of basic research in life science as well as our perspective of its possible outcomes in medicine. At the beginning of the nineties, the discovery of neural stem cells in the mammalian central nervous system (CNS) made the generation of new neurons a real biological process occurring in the adult brain. Since then, a vast community of neuroscientists started to think in terms of regenerative medicine as a possible solution for incurable CNS diseases, such as traumatic injuries, stroke and neurodegenerative disorders. Nevertheless, in spite of the remarkable expansion of the field, the development of techniques to image neurogenesis in vivo, sophisticated in vitro stem cell cultures, and experimental transplantation techniques, no efficacious therapies capable of restoring CNS structure and functions through cell replacement have been convincingly developed so far. Deep anatomical, developmental, molecular and functional investigations have shown that new neurons can be generated only within restricted brain regions under the control of specific environmental signals. In the rest of the CNS, many problems arise when stem cells encounter the mature parenchyma, which still behaves as 'dogmatically' static tissue. More recent studies have added an additional level of complexity, specifically in the context of CNS structural plasticity, where stem cells lie within germinal layer-derived neurogenic sites whereas progenitor cells are widespread through the CNS.

Hence, two decades after the seminal discovery of neural stem cells, the real astonishing fact is the occurrence of such cells in a largely nonrenewable tissue. Still, the most intriguing question is which possible functional or evolutionary reasons might justify such oddity. In other self-renewing tissues, such as skin, cornea, and blood, the role of stem cells in the tissue homeostasis is largely known and efficacious stem cell therapies are already available. The most urgent question is whether and how the potential of neural stem cells could be exploited within the harsh territory of the mammalian CNS. In this case, unlike other tissues, more intense and time-consuming basic research is required before achieving a regenerative outcome. The road of such research should travel through a better knowledge of several aspects which are still poorly understood, including the developmental programs leading to postnatal brain maturation, the heterogeneity of progenitor cells involved, the bystander effect that stem cell grafts exert even in the absence of cell replacement, and the cohort of stem cell-to-tissue interactions occurring both in homeostatic and pathological conditions.

In this book, the experience and expertise of many leaders in neural stem cell research are gathered with the aim of making the point on a number of extremely promising, yet unresolved, issues.



Molecular Imaging: Fundamentals and Applications

Molecular Imaging: Fundamentals and Applications" is a comprehensive monograph which describes not only the theory of the underlying algorithms and key technologies but also introduces a prototype system and its applications, bringing together theory, technology and applications. By explaining the basic concepts and principles of molecular imaging, imaging techniques, as well as research and applications in detail, the book provides both detailed theoretical background information and technical methods for researchers working in medical imaging and the life sciences. Clinical doctors and graduate students will also benefit from this book.


MicroRNAs from basic science to disease biology

MicroRNAs (miRNAs) are RNA molecules, conserved by evolution, that regulate gene expressions and their recent discovery is revolutionising both basic biomedical research and drug discovery. Expression levels of MiRNAs have been found to vary between tissues and with developmental stages and hence evaluation of the global expression of miRNAs potentially provides opportunities to identify regulatory points for many different biological processes. This wide-ranging reference work, written by leading experts from both academia and industry, will be an invaluable resource for all those wishing to use miRNA techniques in their own research, from graduate students, post-docs and researchers in academia to those working in R&D in biotechnology and pharmaceutical companies who need to understand this emerging technology. From the discovery of miRNAs and their functions to their detection and role in disease biology, this volume uniquely integrates the basic science with industry application towards drug validation, diagnostic and therapeutic development. 


MicroRNA Protocols

miRNAs, small single-stranded hairpin RNAs capable of interfering with intracellular mRNAs that contain partial complementarity, are useful for the design of new therapies against cancer polymorphism and viral mutation. This characteristic is different from siRNA because a rigid complete complementarity is required for siRNA-induced RNAi gene silencing. miRNA was originally discovered in Caenorhabditis elegans as native RNA fragments that modulate a wide range of genetic regulatory pathways during animal development. Recently, findings of intron-derived miRNA in C. elegans, mouse, and human have led to a novel therapeutic strategy, using the miRNA generated by polymerase II (Pol-II) RNA transcription and splicing.

In view of the high conservation of the miRNAs in modulation of gene expression, the main objective of MicroRNA Protocols is to provide diverse, novel, and useful descriptions of miRNAs in several species, including plants, worms, flies, fish, chicks, mice, and humans. These include some useful adaptations and applications that could be relevant to the wider research community who are already familiar with the identification of miRNAs. For example, a variety of different adaptations are described that have been employed to develop miRNAs as a potential drug design. miRNA has opened a new avenue for our understanding of gene expression and will become one of the most widely applied techniques in biomedical research, playing a major role in the molecular investigation of disease pathogenesis. Determination of the applicable miRNAs at the molecular level is already beginning to inform the design of new therapeutic strategies. It is our hope that MicroRNA Protocols will stimulate the reader to explore diverse ways to understand the mechanisms by which miRNAs facilitate the molecular aspects of biomedical research.



Measurement, Monitoring, Modelling and Control of Bioprocesses

In 1988, the European Federation of Biotechnology EFB founded a new Working Party with the target to deal with measurement and control of bioprocesses. This was an ambitious move. Now, some two decades later a myriad of new issues within this broad scope have arisen: bioprocess performance monitoring, fault detection, experimental design, modelling of bioreactors and bioprocesses, fighting ‘‘data drowning’’, detection and monitoring of impurities, faster product innovation together with the reconfiguration control and integrated design. There is also a growing need to foster these aspects in teaching and training within the relevant higher education programmes. The M3C reflects those drivers for measurement, monitoring, modelling and control and is the brand name used by the European Federation of Biotechnology and the European Society of Biochemical Engineering Science. This collection of contributions on M3C provides an update of a previous volume in this series and represents a state-of-the-art assessment of the different elements of M3C. It brings together leading academics and industrial practitioners, from global institutions, to provide expert analysis and opinion in a pragmatic and useful format.

Mass Spectrometry of Glycoproteins

Glycosylation is the most abundant post-translational modification of proteins. Estimates vary widely, but a common assessment is that upwards of 50% of eukaryotic proteins are modified by some type of glycan. Indeed, the difficulties associated with accurately assessing the glycosylation status of intra- and extracellular proteins are the primary motivations for this volume. Over the past 30 years, insight into the biological roles of glycan modifications has grown dramatically, yet this field has often struggled due to the inadequacies of accessible analytical methods. Fortunately, simultaneous to the recent expansion of knowledge in glycobiology, a similar transformation has occurred in the field of glycoproteomics. New enrichment techniques, novel ionization methods, mass spectrometry technologies, the expanding role of high-performance liquid chromatography, and improved informatics resources have transformed niche characterization of discrete glycoproteins into a powerful “omics” toolset that can simultaneously characterize diverse glycoproteins and the Glycans they carry. Although proteomics approaches have been applied to broad classes of posttranslational modifications, glycoproteins represent a particularly challenging case due to the heterogeneity of glycan structures, the lability of glycosidic bonds, the isobaric nature of many monosaccharides, and the difficulties associated with determining the unique structure of a branched molecule from compositional analysis. As presented in this volume, the latest glycoproteomics tools are meeting these challenges, providing unprecedented information about the structure and diversity of glycoproteins. It is an exciting time to be both a glycobiologist and mass spectrometrist.



Marine Proteins and Peptides

Food proteins and bioactive peptides play a vital role in the growth and development of the body’s structural integrity and regulation, as well as having a variety of other functional properties. Land animal-derived food proteins such as collagen and gelatine carry risks of contamination (such as BSE). Marine-derived proteins, which can provide equivalents to collagen and gelatin without the associated risks, are becoming more popular among consumers because of their numerous health beneficial effects. Most marine-derived bioactive peptides are currently underutilized. While fish and shellfish are perhaps the most obvious sources of such proteins and peptides, there is also the potential for further development of proteins and peptides from sources like algae, sea cucumber and molluscs. Marine-derived proteins and peptides also have potential uses in novel products, with the possibility of wide commercialization in the food, beverage, pharmaceutical and cosmetic industries, as well as in other fields such as photography, textiles, leather, electronics, medicine and biotechnology.
Marine Proteins and Peptides: Biological Activities and Applications presents an overview of the current status, future industrial perspectives and commercial trends of bioactive marine-derived proteins and peptides. Many of the industrial perspectives are drawn from the food industry, but the book also refers to the pharmaceutical and cosmetics industries. There have recently been significant advances in isolating functional ingredients from marine bio-resources and seafood by-products for use in these industries, but little has been published, creating a knowledge gap, particularly with regard to the isolation and purification processes. This book is the first to fill that gap.
Marine Proteins and Peptides: Biological Activities and Applications is a valuable resource for researchers in marine biochemistry field as well as food industry managers interested in exploring novel techniques and knowledge on alternative food protein sources. It will become a standard reference book for researchers involved in developing marine bio-resources and seafood by-products for novel nutraceutical, cosmetics, and pharmaceutical applications. It will also appeal to managers and product developers in the food, pharmaceutical and cosmetics industries, particularly those looking to use marine-derived proteins and peptides as substitutes or replacements for unfashionable or outdated food components.


Lipoproteins and Cardiovascular Disease

Methods in Molecular Biology : Lipoproteins and Cardiovascular Disease: Methods and Protocols is a compendium of advanced and classical molecular biology methods targeted towards lipoprotein, atherosclerosis, and vascular biology research. Lipoprotein, atherosclerosis, and vascular biology studies present unique challenges to the molecular biologist. The lipid-rich and otherwise challenging nature of many key tissues complicate the isolation of high-quality RNA for gene expression analysis, for example, and the unique nature of lipoproteins and their biological effects has engendered unique methodologies. To date, no volume has yet encompassed these lipoprotein-centered cutting edge methods in molecular biology.

This book brings together in a single volume an updated set of protocols and strategies for methods now driving advances in lipoprotein and atherosclerosis research, along with classical methods that are still widely used. The chapters are written for researchers at any level, from graduate students to established investigators with no prior experience in the described techniques, and may be of interest to molecular biologists outside the lipoprotein field using similar techniques. Of particular interest to readers are methods chapters on quantitative real-time PCR, microarrays, RT-PCR laser capture microdissection, and tissue-speci fi c gene overexpression, knockout, and knockdown methodologies, including AAV as a liver-directed gene delivery vehicle. Special topics include an overview of next-generation and third-generation sequencing, antisense technology, chromatin immunoprecipitation, streamlined LCAT activity assays, and native HDL subpopulation analysis. Updated methods for 5 ′ and 3 ′ RACE cloning of full-length cDNAs and Northern analysis have been added. Overviews, strategic considerations, and background information are included for particularly novel or complex methods.

This edition complements its classic predecessor, “Lipoprotein Protocols,” edited by Jose Ordovas, by incorporating cutting-edge methodological advances developed over the past decade. The two volumes together provide a complete, up-to-date set of methods for any researcher with an interest in lipoproteins and their biological effects.



Lactic Acid Bacteria: Microbiological and Functional Aspects; Fourth Edition

The previous editions of this book have never looked very much like their predecessors, and this fourth edition is no exception. Due to the accumulation of new findings during the seven years that has passed since the previous update, practically all chapters are either completely rewritten or are totally new. We (the editors) and the contributors have strived to reach a proper balance between the well-established “eternal truths” and the novel and even controversial findings. While keeping the format of individual chapters as reviews, a certain compromise between comprehensiveness and readability has been aimed at in order to avoid an excessive length and too massive a size of the volume. In addition to purely scientific aspects related to lactic acid bacteria and their applications, the regulatory framework related to their safety and efficacy, particularly in probiotic use, has also been reviewed. We hope that the book will find its audience both as an introduction to the field for an advanced student and as a handbook for microbiologists, food scientists, nutritionists, clinicians, and regulatory experts.



Janeway’s Immunobiology

Janeway's Immunobiology is intended for undergraduate and graduate courses in immunology, as well as for medical students. The book can be used as an introduction to immunology but its scope is sufficiently comprehensive and deep to be useful for more advanced students and working immunologists. Immunobiology presents immunology from the consistent viewpoint of the host's interaction with an environment full of microbes and pathogens, and illustrates that the loss of any component of this system increases host susceptibility to some particular infection. The companion book, Case Studies in Immunology, provides an additional, integrated discussion of clinical topics (diseases covered in Case Studies are indicated by a symbol in the margin of Immunobiology).

This eighth edition retains the overall organization of the previous edition, and chapters in which the field has made important and rapid developments have been extensively revised. The discussion of innate immunity has been substantially expanded and its mechanisms are now treated in two separate chapters, presented in the order in which a pathogen would encounter innate defenses as it attempts to establish an infection. The immediate and soluble defenses are treated in Chapter 2. The complement system is introduced in the context of innate immunity, with the lectin pathway presented before the classical pathway of activation. The induced defenses of innate immunity-including a completely updated treatment of innate sensing-follows in Chapter 3, where various innate cell subsets and their receptors are also described. Signaling pathways are now presented as they are encountered, and not confined to a single chapter. Signaling pathways of the Toll-like receptors and other innate sensors are described in Chapter 3, while antigen receptor signaling pathways and cytokine and apoptotic pathways are retained in Chapter 7. Chapter 10 has been revised to place more emphasis on the trafficking of B cells in peripheral lymphoid organs and the locations at which they encounter antigen. Mucosal immunology (Chapter 12) has been expanded to include more discussion of responses to the commensal microbiota and the role of specialized dendritic cells and regulatory T cells in maintaining tolerance to food antigens and commensal bacteria. The last four chapters-the clinical chapters Chapters 13-16)-reinforce the basic concepts discussed earlier with our latest understanding of the causes of disease, whether by inherited or acquired immunodeficiencies or by failures of immunological mechanisms. Chapter 16 describes how the immune response can be manipulated in attempts to combat infectious diseases, transplant rejection, and cancer. This chapter includes a complete update of the immunotherapeutics and vaccine sections. Aspects of evolution, which were confined to the last chapter of previous editions, are now discussed throughout the book as the relevant topics are encountered.


Immunocytochemistry of Plant Cells

Immunocytochemistry of plant cells has come a long way from the first review on this subject by Bruce Knox in the early 1980s. In that early review, our only tools were fluorescein-labeled antibodies for light microscopy and ferritin-labeled antibodies for electron microscopic observation. Frankly, in many of these early localizations the resolution of the tissue or the specificity of the labeling left much to be desired.

Immunocytochemistry of Plant Cells is the first book exclusively dedicated to this topic. The first and largest portion of the book is concerned with a group of proven protocols and variations on these protocols that might prove useful, many developed or modified in the author's laboratory. The second portion of the book covers the studies that have been published previously on each of the plant organelles. Numerous state of the art micrographs from researchers around the world are included to demonstrate typical results.

This book is organized essentially into two sections. The first chapter gives what we consider general protocols that work well on a variety of tissues and organelles, but also a number of variations that one might try in order to obtain a successful localization. Most of these were developed when the more standard protocols failed. The second portion of the book reviews by organelle of those techniques that may work better with that particular organelle, what unique immunocytochemical techniques can be used, and a review of some of the more important studies on that organelle. Some of the chapters also address the questions that are still outstanding and which could benefit from immunocytochemical studies.


Human Monoclonal Antibodies

The introduction of monoclonal antibodies revolutionized immunology. The development of human monoclonal antibodies was inspired primarily by the enormous clinical benefits promised by these reagents which can be used as anti-inflammatory reagents, anti-tumor reagents and reagents for passive immunization in a variety of pathologies. Human Monoclonal Antibodies: Methods and Protocols presents technical protocols of cellular and molecular methods for the production, purification and application of human monoclonal antibodies, as well as review articles on related topics of human monoclonal and polyclonal antibodies. Written in the successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible protocols, and notes on troubleshooting and avoiding known pitfalls.
Authoritative and easily accessible, Human Monoclonal Antibodies: Methods and Protocols seeks to serve both professionals and novices with its well-honed methodologies which will prove invaluable in a clinical setting.