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1. Molecular omics [2018 - ]

Journal/Periodical
1 online resource
Software/Multimedia
1 online resource (649 p.) : ill. (chiefly col.)
"The Pacific Symposium on Biocomputing (PSB) 2018 is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. Presentations are rigorously peer reviewed and are published in an archival proceedings volume. PSB 2018 will be held on January 3 – 7, 2018 in Kohala Coast, Hawaii. PSB 2018 will bring together top researchers from the US, the Asian Pacific nations, and around the world to exchange research results and address open issues in all aspects of computational biology. It is a forum for the presentation of work in databases, algorithms, interfaces, visualization, modeling, and other computational methods, as applied to biological problems, with emphasis on applications in data-rich areas of molecular biology. The PSB has been designed to be responsive to the need for critical mass in sub-disciplines within biocomputing. For that reason, it is the only meeting whose sessions are defined dynamically each year in response to specific proposals. PSB sessions are organized by leaders of research in biocomputing's "hot topics." In this way, the meeting provides an early forum for serious examination of emerging methods and approaches in this rapidly changing field."--Publisher's website.
Book
online resource (xii, 367 pages, 12 unnumbered pages of plates) : illustrations
  • Durban and Johannesburg
  • Cape Town
  • Cambridge
  • The first visit to Israel
  • Back to Cambridge
  • Birkbeck-1
  • Birkbeck-2
  • The Laboratory of Molecular Biology
  • Image analysis in electron microscopy
  • Spherical virus structure
  • Tobacco mosaic virus
  • From thon rings to modern dance
  • Tomography
  • Transfer RNA
  • Chromatin and nucleosomes
  • Zinc fingers
  • Peterhouse
  • Director of the Laboratory of Molecular Biology
  • Presidency of the Royal Society
  • Ben Gurion University
  • Prizes
  • Envoi.
The atomic structures of macromolecules provide the key to understanding how life works. Aaron Klug led the way in the development of methods for solving such structures and is one of the pioneers of structural molecular biology. He was awarded a Nobel Prize in 1982 for his work. Illuminating both his personal life and scientific achievements, this unique biography begins with Klug's youth in Durban and his studies at Johannesburg, Cape Town and then Trinity College, Cambridge. Holmes proceeds to explore Klug's career from his work on the structure of viruses with Rosalind Franklin at Birkbeck College, London to his time as Director of the MRC Laboratory of Molecular Biology (LMB) in Cambridge and as President of the Royal Society. Drawing on their long-term collaboration, interviews and unique access to Klug's archives, Holmes provides a fascinating account of an innovative man and his place in the history of structural molecular biology.
Medical Library (Lane)
Book
1 online resource (250 p.) : ill. (some col.)
"Rapid technological developments have led to increasingly efficient sequencing approaches. Next Generation Sequencing (NGS) is increasingly common and has become cost-effective, generating an explosion of sequenced data that need to be analyzed. The skills required to apply computational analysis to target research on a wide range of applications that include identifying causes of cancer, vaccine design, new antibiotics, drug development, personalized medicine and higher crop yields in agriculture are highly sought after. This invaluable book provides step-by-step guides to complex topics that make it easy for readers to perform essential analyses from raw sequenced data to answering important biological questions. It is an excellent hands-on material for teachers who conduct courses in bioinformatics and as a reference material for professionals. The chapters are written to be standalone recipes making it suitable for readers who wish to self-learn selected topics. Readers will gain skills necessary to work on sequenced data from NGS platforms and hence making themselves more attractive to employers who need skilled bioinformaticians to handle the deluge of data."--Publisher's website.
Book
1 online resource (p. 67-83) : digital, PDF file.
As model organisms filamentous fungi have been important since the beginning of modern biological inquiry and have benefitted from open data since the earliest genetic maps were shared. From early origins in simple Mendelian genetics of mating types, parasexual genetics of colony colour, and the foundational demonstration of the segregation of a nutritional requirement, the contribution of research systems utilising filamentous fungi has spanned the biochemical genetics era, through the molecular genetics era, and now are at the very foundation of diverse omics approaches to research and development. Fungal model organisms have come from most major taxonomic groups although Ascomycete filamentous fungi have seen the most major sustained effort. In addition to the published material about filamentous fungi, shared molecular tools have found application in every area of fungal biology. Likewise, shared data has contributed to the success of model systems. Furthermore, the scale of data supporting research with filamentous fungi has grown by 10 to 12 orders of magnitude. From genetic to molecular maps, expression databases, and finally genome resources, the open and collaborative nature of the research communities has assured that the rising tide of data has lifted all of the research systems together.
Book
1 online resource ( xiii, 303 pages) : illustrations (chiefly color).
  • Part I Biochemistry and Physiology.- Chapter 1 Evolutionary Origin of Euglena.- Chapter 2 The Mitochondrion of Euglena gracilis.- Chapter 3 C2 Metabolism in Euglena.- Chapter 4 Biochemistry and Physiology of Reactive Oxygen Species in Euglena. Chapter 5 Biochemistry and Physiology of Vitamins in Euglena .- Chapter 6 Biochemistry and Physiology of Heavy Metal Resistance and Accumulation in Euglena.- Part II Cell and Molecular Biology.- Chapter 7 Euglena gracilis Genomes and Transcriptome: Organelles, Nuclear Genome Assembly Strategies, Initial Features.- Chapter 8 Euglena transcript processing.- Chapter 9 Photo and Nutritional Regulation of Euglena Organelle Development.- Chapter 10 Protein targeting to Euglena chloroplasts.- Chapter 11 Photomovement in Euglena.- Chapter 12 Gravitaxis in Euglena.- Part III Biotechnology.- Chapter 13 Wax Ester Fermentation and Its Application for Biofuel Production.- Chapter 14 Large-scale Cultivation of Euglena.
  • (source: Nielsen Book Data)9783319549088 20170621
This much-needed book is the first definitive volume on Euglena in twenty-fire years, offering information on its atypical biochemistry, cell and molecular biology, and potential biotechnology applications. This volume gathers together contributions from well-known experts, who in many cases played major roles in elucidating the phenomenon discussed. Presented in three parts, the first section of this comprehensive book describes novel biochemical pathways which in some instances have an atypical subcellular localization. The second section details atypical cellular mechanisms of organelle protein import, organelle nuclear genome interdependence, gene regulation and expression that provides insights into the evolutionary origins of eukaryotic cells. The final section discusses how biotechnologists have capitalized on the novel cellular and biochemical features of Euglena to produce value added products. Euglena: Biochemistry, Cell and Molecular Biology will provide essential reading for cell and molecular biologists with interests in evolution, novel biochemical pathways, organelle biogenesis and algal biotechnology. Readers will come away from this volume with a full understanding of the complexities of the Euglena as well as new realizations regarding the diversity of cellular processes yet to be discovered.
(source: Nielsen Book Data)9783319549088 20170621
EBSCOhost Access limited to 1 user
Video
1 online resource (1 streaming video file (34 min.) : color, sound).
  • Contents: History of discovery of The complement system
  • Evolution of complement
  • The alternative complement pathway
  • Defects and diseases associated with complement
  • Complement and inflammation.
Book
1 online resource.
  • Part I: Self/Nonself Evolution, â A new view of how MHC class I molecules fight disease: generalists and specialists.- Evolution and diversity of defensins in vertebrates.- Interdependencies between the adaptation and interference modules guide efficient CRISPR-Cas immunity.- How the other half lives: CRISPR-Cas's influence on bacteriophages.- Hidden Silent Codes in Viral Genomes.- Self and Non-Self from a Genomic Perspective: Transposable Elements.- Mammalian-specific traits generated by LTR retrotransposon-derived SIRH genes.- Part II: Species Evolution and Evolution of Complex Traits, The life history of domesticated genes illuminates the evolution of novel mammalian genes.- Evolution of Complex Traits in Human Populations.- The descent of bison.- Convergent and parallel evolution in early Glires (Mammalia).- Reductive evolution of apicomplexan parasites from phototrophic an-cestors.- Part III : Methods and Concepts, Evolution of milk oligosaccharides and their function in monotremes and marsupials.- Mechanistic Models of Protein Evolution.- Genome-wide screens for molecular convergent evolution in mammals.- Assessing evolutionary potential in tree species through ecology-informed genome screening.- Evolutionary constraints on coding sequences at the nucleotidic level: a statistical physics approach.- Case studies of seven gene families with unusual high retention rate since the Vertebrate and Teleost Whole Genome Duplications.
  • (source: Nielsen Book Data)9783319615684 20171009
This book presents 19 selected contributions to the 20th Evolutionary Biology Meeting in Marseille, which took place in September 2016. They are grouped under the following major themes:* Self/Nonself Evolution* Species Evolution and Evolution of Complex Traits* Methods and Concepts The aims of the annual meetings in Marseille - which bring together leading evolutionary biologists and other scientists using evolutionary biology concepts, e.g. for medical research - are to promote the exchange of ideas and to encourage interdisciplinary collaborations. Offering a revealing overview of the latest findings in the field of evolutionary biology, this book represents an invaluable source of information for scientists, teachers and advanced students alike.
(source: Nielsen Book Data)9783319615684 20171009
Video
1 online resource (1 streaming video file (31 min.) : color, sound).
  • Contents: Future discovery of CNVs
  • Genotyping
  • Inversion and deletion
  • 17q21.31 targeted sequencing
  • Application of next-generation sequencing technology
  • Personalized duplication or CNV map
  • Long read sequencing technology
  • Single-molecule, real-time detection of structural variation (SMRT-SV)
  • Full-spectrum of human genetic variation.
Book
PDF-file: 6 pages; size: 3.4 Mbytes
Abstract not provided
Book
1 online resource (Article No. 15441) : digital, PDF file.
Mg/Ca ratios of planktic foraminifera are commonly used to reconstruct past ocean temperatures. However, intrashell Mg/Ca ratios exhibit a pattern of alternating high and low Mg-bands in many species. Whereas mechanisms controlling Mg variability are poorly constrained, recent experiments demonstrate that it is paced by the diurnal light/dark cycle in Orbulina universa, which forms a terminal shell of simple spherical geometry. It is unknown whether Mg-heterogeneity is diurnally paced in species with complex shell morphologies, or is the result of growth processes. Here, we show that high Mg/Ca-calcite also forms at night in cultured specimens of the multi-chambered planktic foraminifera Neogloboquadrina dutertrei. Our results demonstrate that N. dutertrei adds a significant amount of calcite, and nearly all Mg-bands, after the final chamber forms. Furthermore, these results have implications for interpreting patterns of calcification in N. dutertrei, and possibly other foraminifera species, and suggests diurnal Mg-banding is an intrinsic component of biomineralization in planktic foraminifera.
Book
1 online resource (Article No. 183) : digital, PDF file.
Understanding the biological mechanisms related to lipids and glycolipids is challenging due to the vast number of possible isomers. Mass spectrometry (MS) measurements are currently the dominant approach for studying and providing detailed information on lipid and glycolipid structures. However, difficulties in distinguishing many structural isomers (e.g. distinct acyl chain positions, double bond locations, as well as glycan isomers) inhibit the understanding of their biological roles. Here we utilized ultra-high resolution ion mobility spectrometry (IMS) separations based upon the use of traveling waves in a serpentine long path length multi-pass Structures for Lossless Manipulations (SLIM) to enhance isomer resolution. The multi-pass arrangement allowed separations ranging from ~16 m (1 pass) to ~470 m (32 passes) to be investigated for the distinction of lipids and glycolipids with extremely small structural differences. Lastly, these ultra-high resolution SLIM IMS-MS analyses provide a foundation for exploring and better understanding isomer specific biological and disease processes.
Book
1 online resource (Article No. 40555) : digital, PDF file.
Lung immaturity is a major cause of morbidity and mortality in premature infants. Understanding the molecular mechanisms driving normal lung development could provide insights on how to ameliorate disrupted development. While transcriptomic and proteomic analyses of normal lung development have been previously reported, characterization of changes in the lipidome is lacking. Lipids play significant roles in the lung, such as dipalmitoylcholine in pulmonary surfactant; however, many of the roles of specific lipid species in normal lung development, as well as in disease states, are not well defined. In this study, we used liquid chromatography-mass spectrometry (LC-MS/MS) to investigate the murine lipidome during normal postnatal lung development. Lipidomics analysis of lungs from post-natal day 7, day 14 and 6-8 week mice (adult) identified 928 unique lipids across 21 lipid subclasses, with dramatic alterations in the lipidome across developmental stages. Our data confirmed previously recognized aspects of post-natal lung development and revealed several insights, including in sphingolipid-mediated apoptosis, inflammation and energy storage/usage. Complementary proteomics, metabolomics and chemical imaging corroborated these observations. Finally, this multi-omic view provides a unique resource and deeper insight into normal pulmonary development.
Book
1 online resource (571 pages) : illustrations.
  • 1 Structure and function of the stressosome signalling hub Jan Pane-Farre, Maureen B. Quin, Richard J. Lewis, Jon Marles-Wright 2 The Canonical Inflammasome - a macromolecular complex driving inflammation Tom P. Monie 3 The Ferritin superfamily Alejandro Yevenes 4 Antibody Recognition of Immunodominant Vaccinia Virus Envelope Proteins Dirk M. Zajonc 5 The Peroxiredoxin Family: An Unfolding Story Zhenbo Cao and J. Gordon Lindsay 6 α2-Macroglobulins: structure and function Irene Garcia-Ferrer, Aniebrys Marrero, F. Xavier Gomis-Ruth, Theodoros Goulas 7 The Structure and Function of the PRMT5:MEP50 Complex Stephen Antonysamy 8 Symmetry-Directed Design of Protein Cages and Protein Lattices and their Applications Aaron Sciore and E. Neil G. Marsh 9 STRUCTURE AND FUNCTION RNA POLYMERASES AND THE TRANSCRIPTION MACHINERIES Joachim Griesenbeck, Herbert Tschochner and Dina Grohmann 10 Dihydrodipicolinate synthase: Structure, dynamics, function, and evolution. F. Grant Pearce, Andre O. Hudson, Kerry Loomes, Renwick C.J. Dobson 11 Pyruvate Carboxylase, Structure and Function Mikel Valle 12 Cullin-RING E3 Ubiquitin Ligases: Bridges to Destruction Henry C. Nguyen, Wei Wang, and Yong Xiong 13 The Ccr4-Not complex: Architecture and structural insights Martine A. Collart and Olesya O. Panasenko 14 Higher-order structure in bacterial VapBC toxin-antitoxin complexes Kirstine L. Bendtsen and Ditlev E. Brodersen 15 D-glyceraldehyde-3-Phosphate Dehydrogenase Structure and Function Michael R. White and Elsa D. Garcin 16 Protein Complexes in the Nucleus: the control of chromosome segregation Victor M. Bolanos-Garcia 17 GroEL and the GroEL-GroES Complex Noriyuki Ishii 18 The Aminoacyl-tRNA Synthetase Complex Marc Mirande 19 Apoptosome: the caspase-activating machine Mengying Zhou, Qi Hu, and Yigong Shi 20 The Pyruvate Dehydrogenase Complex and Related Assemblies in Health and Disease Olwyn Byron and J. Gordon Lindsay 21 Type III CRISPR-Cas Systems: a structural perspective Laura Spagnolo 22 Structure and assembly of clathrin cages Mary Halebian, Kyle Morris, Corinne Smith Index.
  • (source: Nielsen Book Data)9783319465012 20180521
This volume of the established Subcellular Biochemistry series presents 20 chapters dealing with a broad range of interesting protein complexes. It will enable researchers to readily appreciate the major contribution from both X-ray crystallography and cryo-electron microscopy in this field of study. The biological significance of these structural studies is emphasised throughout the book. The diversity of the material included here indicates the breadth of this field and the tremendous progress that has been made in recent years. The book is directed primarily to advanced students and researchers in structural biology, and others in the biochemical sciences. It will be supplemented by other related books within the Subcellular Biochemistry series. One of the Editors (JM-W) is actively involved in structural biology and the other (JRH), as a retired academic and the Series Editor of Subcellular Biochemistry, has long experience at editing multi-author books.
(source: Nielsen Book Data)9783319465012 20180521
Book
1 online resource (761 pages)
Since 1994, Molecular Biotechnology: Principles and Applications of Recombinant DNA has introduced students to the fast-changing world of molecular biotechnology. With each revision, the authors have extensively updated the book to keep pace with the many new techniques in gene isolation and amplification, nucleic acid synthesis and sequencing, gene editing, and their applications to biotechnology. In this edition, authors Bernard R. Glick and Cheryl L. Patten have continued that tradition, but have also overhauled the book's organization to Detail fundamental molecular biology methods and recombinant protein engineering techniques, which provides students with a solid scientific basis for the rest of the book. Present the processes of molecular biotechnology and its successes in medicine, bioremediation, raw material production, biofuels, and agriculture. Examine the intersection of molecular biotechnology and society, including regulation, patents, and controversies around genetically modified products. Filled with engaging figures that strongly support the explanations in the text, Molecular Biotechnology: Principles and Applications of Recombinant DNA presents difficult scientific concepts and technically challenging methods in clear, crisp prose. This excellent textbook is ideal for undergraduate and graduate courses in introductory biotechnology, as well as, courses dedicated to medical, agricultural, environmental, and industrial biotechnology applications.
(source: Nielsen Book Data)9781555819361 20180521
Book
1 online resource (xviii, 740 pages) : illustrations (chiefly color).
Since 1994, Molecular Biotechnology: Principles and Applications of Recombinant DNA has introduced students to the fast-changing world of molecular biotechnology. With each revision, the authors have extensively updated the book to keep pace with the many new techniques in gene isolation and amplification, nucleic acid synthesis and sequencing, gene editing, and their applications to biotechnology. In this edition, authors Bernard R. Glick and Cheryl L. Patten have continued that tradition, but have also overhauled the book's organization to Detail fundamental molecular biology methods and recombinant protein engineering techniques, which provides students with a solid scientific basis for the rest of the book. Present the processes of molecular biotechnology and its successes in medicine, bioremediation, raw material production, biofuels, and agriculture. Examine the intersection of molecular biotechnology and society, including regulation, patents, and controversies around genetically modified products. Filled with engaging figures that strongly support the explanations in the text, Molecular Biotechnology: Principles and Applications of Recombinant DNA presents difficult scientific concepts and technically challenging methods in clear, crisp prose. This excellent textbook is ideal for undergraduate and graduate courses in introductory biotechnology, as well as, courses dedicated to medical, agricultural, environmental, and industrial biotechnology applications.
(source: Nielsen Book Data)9781555819361 20180521
ProQuest Ebook Central Access limited to 3 simultaneous users
Book
1 online resource.
EBSCOhost Access limited to 1 user
Software/Multimedia
1 online resource (667 p.) : ill. (some col.)
"The Pacific Symposium on Biocomputing (PSB) 2017 is an international, multidisciplinary conference for the presentation and discussion of current research in the theory and application of computational methods in problems of biological significance. Presentations are rigorously peer reviewed and are published in an archival proceedings volume. PSB 2017 will be held on January 4 – 8, 2017 in Kohala Coast, Hawaii. Tutorials and workshops will be offered prior to the start of the conference. PSB 2017 will bring together top researchers from the US, the Asian Pacific nations, and around the world to exchange research results and address open issues in all aspects of computational biology. It is a forum for the presentation of work in databases, algorithms, interfaces, visualization, modeling, and other computational methods, as applied to biological problems, with emphasis on applications in data-rich areas of molecular biology. The PSB has been designed to be responsive to the need for critical mass in sub-disciplines within biocomputing. For that reason, it is the only meeting whose sessions are defined dynamically each year in response to specific proposals. PSB sessions are organized by leaders of research in biocomputing's "hot topics." In this way, the meeting provides an early forum for serious examination of emerging methods and approaches in this rapidly changing field."--Publisher's website.
Book
1 online resource (Article No. 13924) : digital, PDF file.
Microbial phototrophs, key primary producers on Earth, use H<sub>2</sub>O, H<sub>2</sub>, H<sub>2</sub>S and other reduced inorganic compounds as electron donors. Here we describe a form of metabolism linking anoxygenic photosynthesis to anaerobic respiration that we call ‘syntrophic anaerobic photosynthesis’. We show that photoautotrophy in the green sulfur bacterium Prosthecochloris aestaurii can be driven by either electrons from a solid electrode or acetate oxidation via direct interspecies electron transfer from a heterotrophic partner bacterium, Geobacter sulfurreducens. Photosynthetic growth of P. aestuarii using reductant provided by either an electrode or syntrophy is robust and light-dependent. In contrast, P. aestuarii does not grow in co-culture with a G. sulfurreducens mutant lacking a trans-outer membrane porin-cytochrome protein complex required for direct intercellular electron transfer. Syntrophic anaerobic photosynthesis is therefore a carbon cycling process that could take place in anoxic environments. Lastly, this process could be exploited for biotechnological applications, such as waste treatment and bioenergy production, using engineered phototrophic microbial communities.
Book
1 online resource (1.2 MB) : digital, PDF file.
Plant cell walls have three primary components, cellulose, hemicellulose, and lignin, the latter of which is a recalcitrant, aromatic heteropolymer that provides structure to plants, water and nutrient transport through plant tissues, and a highly effective defense against pathogens. Overcoming the recalcitrance of lignin is key to effective biomass deconstruction, which would in turn enable the use of biomass as a feedstock for industrial processes. Our understanding of lignin structure in the plant cell wall is hampered by the limitations of the available lignin forcefields, which currently only account for a single linkage between lignins and lack explicit parameterization for emerging lignin structures both from natural variants and engineered lignin structures. Since polymerization of lignin occurs via radical intermediates, multiple C-O and C-C linkages have been isolated , and the current force field only represents a small subset of lignin the diverse lignin structures found in plants. In order to take into account the wide range of lignin polymerization chemistries, monomers and dimer combinations of C-, H-, G-, and S-lignins as well as with hydroxycinnamic acid linkages were subjected to extensive quantum mechanical calculations to establish target data from which to build a complete molecular mechanics force field tuned specifically for diverse lignins. This was carried out in a GPU-accelerated global optimization process, whereby all molecules were parameterized simultaneously using the same internal parameter set. By parameterizing lignin specifically, we are able to more accurately represent the interactions and conformations of lignin monomers and dimers relative to a general force field. This new force field will enables computational researchers to study the effects of different linkages on the structure of lignin, as well as construct more accurate plant cell wall models based on observed statistical distributions of lignin that differ between disparate feedstocks, and guide further lignin engineering efforts.