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Author: John Harry Caufield
Publisher:
ISBN:
Category : Bacteriophages
Languages : en
Pages : 315
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Book Description
The emergence of genomics as a discrete field of biology has changed humanity's understanding of our relationship with bacteria. Sequencing the genome of each newly-discovered bacterial species can reveal novel gene sequences, though the genome may contain genes coding for hundreds or thousands of proteins of unknown function (PUFs). In some cases, these coding sequences appear to be conserved across nearly all bacteria. Exploring the functional roles of these cases ideally requires an integrative, cross-species approach involving not only gene sequences but knowledge of interactions among their products. Protein interactions, studied at genome scale, extend genomics into the field of interactomics. I have employed novel computational methods to provide context for bacterial PUFs and to leverage the rich genomic, proteomic, and interactomic data available for hundreds of bacterial species. The methods employed in this study began with sets of protein complexes. I initially hypothesized that, if protein interactions reveal protein functions and interactions are frequently conserved through protein complexes, then conserved protein functions should be revealed through the extent of conservation of protein complexes and their components. The subsequent analyses revealed how partial protein complex conservation may, unexpectedly, be the rule rather than the exception. Next, I expanded the analysis by combining sets of thousands of experimental protein-protein interactions. Progressing beyond the scope of protein complexes into interactions across full proteomes revealed novel evolutionary consistencies across bacteria but also exposed deficiencies among interactomics-based approaches. I have concluded this study with an expansion beyond bacterial protein interactions and into those involving bacteriophage-encoded proteins. This work concerns emergent evolutionary properties among bacterial proteins. It is primarily intended to serve as a resource for microbiologists but is relevant to any research into evolutionary biology. As microbiomes and their occupants become increasingly critical to human health, similar approaches may become increasingly necessary.
Author: John Harry Caufield
Publisher:
ISBN:
Category : Bacteriophages
Languages : en
Pages : 315
Get Book Here
Book Description
The emergence of genomics as a discrete field of biology has changed humanity's understanding of our relationship with bacteria. Sequencing the genome of each newly-discovered bacterial species can reveal novel gene sequences, though the genome may contain genes coding for hundreds or thousands of proteins of unknown function (PUFs). In some cases, these coding sequences appear to be conserved across nearly all bacteria. Exploring the functional roles of these cases ideally requires an integrative, cross-species approach involving not only gene sequences but knowledge of interactions among their products. Protein interactions, studied at genome scale, extend genomics into the field of interactomics. I have employed novel computational methods to provide context for bacterial PUFs and to leverage the rich genomic, proteomic, and interactomic data available for hundreds of bacterial species. The methods employed in this study began with sets of protein complexes. I initially hypothesized that, if protein interactions reveal protein functions and interactions are frequently conserved through protein complexes, then conserved protein functions should be revealed through the extent of conservation of protein complexes and their components. The subsequent analyses revealed how partial protein complex conservation may, unexpectedly, be the rule rather than the exception. Next, I expanded the analysis by combining sets of thousands of experimental protein-protein interactions. Progressing beyond the scope of protein complexes into interactions across full proteomes revealed novel evolutionary consistencies across bacteria but also exposed deficiencies among interactomics-based approaches. I have concluded this study with an expansion beyond bacterial protein interactions and into those involving bacteriophage-encoded proteins. This work concerns emergent evolutionary properties among bacterial proteins. It is primarily intended to serve as a resource for microbiologists but is relevant to any research into evolutionary biology. As microbiomes and their occupants become increasingly critical to human health, similar approaches may become increasingly necessary.
Author: Vanessa Stefanie Crnković
Publisher:
ISBN:
Category :
Languages : en
Pages : 0
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Book Description
Author:
Publisher: Academic Press
ISBN: 0123947898
Category : Science
Languages : en
Pages : 545
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Book Description
This special volume of Progress in Molecular Biology and Translational Science focuses on the molecular biology of arrestins, with contributions from leaders in the field. Arrestins have emerged as central players in the regulation of many facets of G protein-coupled receptor signaling. This volume covers a variety of topics with reviews written by experts in the field. - Contributions from leading authorities - Informs and updates on all the latest developments in the field
Author: Paul L. Bartel
Publisher: Oxford University Press, USA
ISBN: 9780195109382
Category : Carrier proteins
Languages : en
Pages : 362
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Book Description
This volume, part of the Advances in Molecular Biology series, presents work by pioneers in the field and is the first publication devoted solely to the yeast two-hybrid system. It includes detailed protocols, practical advice on troubleshooting, and suggestions for future development. In addition, it illustrates how to construct an activation domain hybrid library, how to identify mutations that disrupt an interaction, and how to use the system in mammalian cells. Many of the contributors have developed new applications and variations of the technique.
Author: Timothy D. Veenstra
Publisher: John Wiley & Sons
ISBN: 0470007737
Category : Science
Languages : en
Pages : 361
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Book Description
Written by recognized experts in the study of proteins, Proteomics for Biological Discovery begins by discussing the emergence of proteomics from genome sequencing projects and a summary of potential answers to be gained from proteome-level research. The tools of proteomics, from conventional to novel techniques, are then dealt with in terms of underlying concepts, limitations and future directions. An invaluable source of information, this title also provides a thorough overview of the current developments in post-translational modification studies, structural proteomics, biochemical proteomics, microfabrication, applied proteomics, and bioinformatics relevant to proteomics. Presents a comprehensive and coherent review of the major issues faced in terms of technology development, bioinformatics, strategic approaches, and applications Chapters offer a rigorous overview with summary of limitations, emerging approaches, questions, and realistic future industry and basic science applications Discusses higher level integrative aspects, including technical challenges and applications for drug discovery Accessible to the novice while providing experienced investigators essential information Proteomics for Biological Discovery is an essential resource for students, postdoctoral fellows, and researchers across all fields of biomedical research, including biochemistry, protein chemistry, molecular genetics, cell/developmental biology, and bioinformatics.
Author: Deep Chandra Suyal
Publisher: Springer Nature
ISBN: 3030861694
Category : Science
Languages : en
Pages : 394
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Book Description
This book collates the latest trends and technological advancements in bioremediation, especially for its monitoring and assessment. Divided into 18 chapters, the book summarizes basic concepts of waste management and bioremediation, describes advancements of the existing technologies, and highlights the role of modern instrumentation and analytical methods, for environmental clean-up and sustainability. The chapters cover topics such as the role of microbial fuel cells in waste management, microbial biosensors for real-time monitoring of bioremediation processes, genetically modified microorganisms for bioremediation, application of immobilized enzyme reactors, spectroscopic techniques, and in-silico approaches in bioremediation monitoring and assessment. The book will be advantageous not only to researchers and scholars interested in bioremediation and sustainability but also to professionals and policymakers.
Author: Vijaykumar Yogesh Muley
Publisher: Springer Science & Business Media
ISBN: 1461447054
Category : Science
Languages : en
Pages : 66
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Book Description
Using genome sequencing, one can predict possible interactions among proteins. There are very few titles that focus on protein-protein interaction predictions in bacteria. The authors will describe these methods and further highlight its use to predict various biological pathways and complexity of the cellular response to various environmental conditions. Topics include analysis of complex genome-scale protein-protein interaction networks, effects of reference genome selection on prediction accuracy, and genome sequence templates to predict protein function.
Author: Tariq Aftab
Publisher: CRC Press
ISBN: 1000574733
Category : Technology & Engineering
Languages : en
Pages : 313
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Book Description
This new volume highlights the various emerging techniques and molecular applications that are currently being used in plant abiotic stress physiology. It provides a thorough overview of omics approaches in response to stressors such as low water accessibility (drought), excess water (flooding/waterlogging), extremes of temperatures (cold, chill, frost, and heat), salinity, mineral deficiency, and heavy metal toxicity-many of which are the result of climate change. The book, with chapters contributed by specialists in the field, emphasizes the broad variety of themes using an omics analysis of plants under abiotic stress factors at the cellular and molecular levels. The chapter authors explore a variety of approaches to address plant abiotic stress, including proteomic approaches, genome editing applications, and system biology approaches. The volume takes into consideration, from omics perspective, how to use the plant-microbe interaction to make plants more resilient to changing climates. It also looks at the role of ionomics (the study of complete mineral nutrient and trace elemental composition of a plant species) and osmoprotectants to address multiple abiotic stress tolerance in plants. Omics Analysis of Plants under Abiotic Stress provides the fundamental information for all who are working in or have interest in this specific field. Unquestionably, this volume will be beneficial for common use of research students, teachers, and persons who have interest in plant abiotic stress physiology.
Author: Debmalya Barh
Publisher: Academic Press
ISBN: 0323986218
Category : Medical
Languages : en
Pages : 464
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Book Description
The COVID-19 pandemic has affected the entire world in an unprecedented way since 2019. However, novel and innovative applications of various omics, computational, and smart technologies have helped manage the pandemic of the 21st century in a very effective manner. Omics approaches and technologies in COVID-19 presents up-to-date knowledge on omics, genetic engineering, mathematical and computational approaches, and advanced technologies in the diagnosis, prevention, monitoring, and management of COVID-19. This book contains 26 chapters written by academic and industry experts from more than 15 countries. Split into three sections (Omics; Artificial Intelligence and Bioinformatics; and Smart and Emerging Technologies), it brings an overview of novel technologies under omics such as, genomic, metagenomic, pangenomic, metabolomics and proteomics in COVID-19. In addition, it discusses hostpathogen interactions and interactomics, management options, application of genetic engineering, mathematical modeling andsimulations, systems biology, and bioinformatics approaches in COVID-19 drug discovery and vaccine development. This is a valuable resource for students, biotechnologists, bioinformaticians, virologists, clinicians, and pharmaceutical, biomedical, and healthcare industry people who want to understand the promising omics and other technologies used in combating COVID-19 from various aspects. Provides novel technologies for rapid diagnostics, drug discovery, vaccine development, monitoring, prediction of future waves, etc. Describes various omics applications including genomics, metagenomics, epigenomics, nutrigenomics, transcriptomics,miRNAomics, proteomics, metabolomics, phenomics, multiomics, etc., in COVID-19 Presents applications of genetic engineering, CRISPR, artificial intelligence, mathematical and in silico modeling, systems biology,and other computational approaches in COVID-19 Discusses emerging, digital, and smart technologies for the monitoring and management of COVID-19
Author: Rakeeb Ahmad Mir
Publisher: Elsevier
ISBN: 0323993788
Category : Science
Languages : en
Pages : 276
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Book Description
Principles of Genomics and Proteomics is the perfect reference for graduate students and researchers in these areas to understand its principles and execute precise and reproducible experiments. Following an introductory chapter, the book dives into proper research, including genome mapping. Experiments covered in the book span from Sangers Sequencing, Shotgun sequencing, SAGE analysis, DNA footprinting, Gel retardation, ChIP, and protein resolution methods, including PAGE, 2D gel electrophoresis and isoelectric focusing. Biophysical techniques are also described in detail, including ultraviolet and visible light spectroscopy, fluorescence spectroscopy, NMR and X-ray diffraction. A final proteome analysis is dedicated to functional analysis. Other chapters cover applications of omics technologies broadly. This book is the perfect reference for genetics labs around the world. Graduate students will benefit from the structured and detailed coverage of methods and established researchers will benefit from the book for staff training in research and may find it particularly helpful in enhancing reproducibility of experiments. Provides a comprehensive accounting of the technical aspects of genomic and proteomic analysis and applications in living organisms Includes detailed and standardized coverage of basic research methods in areas covered Presents advanced applications of genomics and proteomics that are highlighted with major significance in medical and agricultural fields
