Books by Subject
- 2013 SpringerBoison, Detlev; Masino, Susan.Adenosine and Metabolism--A Brief Historical Note / Bertil B. Fredholm -- Adenosine Metabolism, Adenosine Kinase, and Evolution / Jaoek Park and Radhey S. Gupta -- Adenosine and Energy Metabolism--Relationship to Brain Bioenergetics / Xuesong Chen, Liang Hui and Jonathan D. Geiger -- Adenosine and Autocrine Metabolic Regulation of Neuronal Activity / Masahito Kawamura Jr. and David N. Ruskin -- Physiologic and Metabolic Regulation of Adenosine: Mechanisms / Chris G. Dulla and Susan A. Masino -- The Double-Edged Sword: Gaining Adenosine at the Expense of ATP. How to Balance the Books / Stephanie zur Nedden, Alexander S. Doney and Bruno G. Frenguelli -- Downstream Pathways of Adenosine / Ana M. Sebastião, Sofia Cristóvão-Ferreira and Joaquim A. Ribeiro -- Astrocytic ATP Release / Dustin J. Hines and Philip G. Haydon -- Role of Striatal A2A Receptor Subpopulations in Neurological Disorders / Sergi Ferré, César Quiroz, Marco Orrú, Xavier Guitart and Seema Gulyani, et al. -- Sleep and Adenosine: Human Studies / Tarja Porkka-Heiskanen -- Adenosine and Other Purinergic Products in Circadian Timing / Christine Muheim and Steven A. Brown -- Adenosine in the Immune System / György Hask, Balázs Koscsó́ and Balázs Csóka -- The Bioenergetic Network of Adenosine in Hibernation, Sleep, and Thermoregulation / Kelly L. Drew and Tulasi R. Jinka -- Adenosine and Stroke / Felicita Pedata, Anna Maria Pugliese, Francesca Corti and Alessia Melani -- The Many Roles of Adenosine in Traumatic Brain Injury / Patrick M. Kochanek, Jonathan D. Verrier, Amy K. Wagner and Edwin K. Jackson -- Therapeutic Perspectives of Adenosine Receptor Compounds in Functional Restitution After Spinal Cord Injury / Kwaku D. Nantwi -- Adenosine and Pain / Jana Sawynok -- Symptomatic and Neuroprotective Effects of A2A Receptor Antagonists in Parkinson's Disease / Annalisa Pinna, Nicola Simola, Lucia Frau and Micaela Morelli -- Adenosine Receptors and Alzheimer's Disease / David Blum, Ursula Sandau, Cyril Laurent, Vânia Batalha and Antoine Leboucher, et al. -- Adenosine Receptors in Huntington's Disease / David Blum, Alberto Martire, Sylvie Burnouf, Bernard Sablonnière and Pierre Krystkowiak, et al. -- Adenosine and Multiple Sclerosis / Maria Victoria Sánchez-Gómez, Estibaliz González-Fernández, Rogelio O. Arellano and Carlos Matute -- Adenosinergic Perspectives on Schizophrenia: Opportunity for an Integrative Synthesis / Benjamin K. Yee, Philipp Singer and Detlev Boison -- The Role of Adenosine in the Ventral Striatal Circuits Regulating Behavioral Activation and Effort-Related Decision Making: Importance for Normal and Pathological Aspects of Motivation / John D. Salamone, Merce Correa, Patrick A. Randall, Eric J. Nunes and Marta Pardo, et al. -- Adenosine and Autism: Physiological Symptoms and Metabolic Opportunities / Julia Svedova, Inge-Marie Eigsti and Susan A. Masino -- Stress, Brain Adenosine Signaling, and Fatigue-Related Behavioral Processes / Traci N. Plumb, Sarah R. Sterlace, Kelly A. Cavanaugh and Thomas R. Minor -- Disruption of Adenosine Homeostasis in Epilepsy and Therapeutic Adenosine Augmentation / Detlev Boison -- Ketogenic Diet and Epilepsy: The Role of Adenosine / Jong M. Rho, Beth Zupec-Kania and Susan A. Masino -- Silk: A Biocompatible and Biodegradable Biopolymer for Therapeutic Adenosine Delivery / Eleanor M. Pritchard, Detlev Boison and David L. Kaplan -- Anatomical Distribution of Nucleoside System in the Human Brain and Implications for Therapy / Zsolt Kovács and Arpád Dobolyi.
- 2006 SpringerStevenson, R. Jan.
- 2012 SpringerGoryachev, Andrew B.; Goryanin, Igor I.Part 1. Multiscale biological networks: identification, modeling and analysis -- Modular Analysis of Biological Networks / Hans-Michael Kaltenbach and Jörg Stelling -- Modeling Signaling Networks Using High-throughput Phospho-proteomics / Camille Terfve and Julio Saez-Rodriguez -- An Integrated Bayesian Framework for Identifying Phosphorylation Networks in Stimulated Cells / Tapesh Santra, Boris Kholodenko and Walter Kolch -- Signaling Cascades: Consequences of Varying Substrate and Phosphatase Levels / Elisenda Feliu, Michael Knudsen and Carsten Wiuf -- Heterogeneous Biological Network Visualization System: Case Study in Context of Medical Image Data / Erno Lindfors, Jussi Mattila, Peddinti V. Gopalacharyulu, Antti Pesonen and Jyrki Lötjönen, et al. -- Evolution of the Cognitive Proteome: From Static to Dynamic Network Models / J. Douglas Armstrong and Oksana Sorokina -- Molecular Systems Biology of Sic1 in Yeast Cell Cycle Regulation Through Multiscale Modeling / Matteo Barberis -- Proteome-Wide Screens in Saccharomyces cerevisiae Using the Yeast GFP Collection / Yolanda T. Chong, Michael J. Cox and Brenda Andrews -- Unraveling the Complex Regulatory Relationships Between Metabolism and Signal Transduction in Cancer / Michelle L. Wynn, Sofia D. Merajver and Santiago Schnell -- Part 2. Cellular decision making: adaptation, differentiation and death -- The Cell as a Thermostat: How Much does it Know? / Dennis Bray -- Stem Cell Differentiation as a Renewal-Reward Process: Predictions and Validation in the Colonic Crypt / Kiran Gireesan Vanaja, Andrew P. Feinberg and Andre Levchenko -- A Dynamic Physical Model of Cell Migration, Differentiation and Apoptosis in Caenorhabditis elegans / Antje Beyer, Ralf Eberhard, Nir Piterman, Michael O. Hengartner and Alex Hajnal, et al. -- A Modular Model of the Apoptosis Machinery / E. O. Kutumova, I. N. Kiselev, R. N. Sharipov, I. N. Lavrik and Fedor A. Kolpakov -- An Ensemble Approach for Inferring Semi-quantitative Regulatory Dynamics for the Differentiation of Mouse Embryonic Stem Cells Using Prior Knowledge / Dominik Lutter, Philipp Bruns and Fabian J. Theis -- Cell Death and Life in Cancer: Mathematical Modeling of Cell Fate Decisions / Andrei Zinovyev, Simon Fourquet, Laurent Tournier, Laurence Calzone and Emmanuel Barillot -- Theoretical Aspects of Cellular Decision-Making and Information-Processing / Tetsuya J. Kobayashi and Atsushi Kamimura -- Zooming in on Yeast Osmoadaptation / Clemens Kühn and Edda Klipp -- Part 3. Spatial and temporal dymensions of intracellular dynamics -- Receptor Dynamics in Signaling / Verena Becker, Jens Timmer and Ursula Klingmüller -- A Systems-Biology Approach to Yeast Actin Cables / Tyler Drake, Eddy Yusuf and Dimitrios Vavylonis -- Modeling Morphodynamic Phenotypes and Dynamic Regimes of Cell Motion / Mihaela Enculescu and Martin Falcke -- Time-Structure of the Yeast Metabolism In vivo / Kalesh Sasidharan, Masaru Tomita, Miguel Aon, David Lloyd and Douglas B. Murray -- Coarse Graining Escherichia coli Chemotaxis: From Multi-flagella Propulsion to Logarithmic Sensing / Tine Curk, Franziska Matthäus, Yifat Brill-Karniely and Jure Dobnikar -- Self-Feedback in Actin Polymerization / Anders E. Carlsson -- Part 4. Computational tools, algorithms and theoretical methods for systems biology -- Global Optimization in Systems Biology: Stochastic Methods and Their Applications / Eva Balsa-Canto, J. R. Banga, J. A. Egea, A. Fernandez-Villaverde and G. M. de Hijas-Liste -- Mathematical Modeling of the Human Energy Metabolism Based on the Selfish Brain Theory / Matthias Chung and Britta Göbel -- Identification of Sensitive Enzymes in the Photosynthetic Carbon Metabolism / Renato Umeton, Giovanni Stracquadanio, Alessio Papini, Jole Costanza and Pietro Liò, et al. -- Formal Methods for Checking the Consistency of Biological Models / Allan Clark, Vashti Galpin, Stephen Gilmore, Maria Luisa Guerriero and Jane Hillston -- Global Parameter Identification of Stochastic Reaction Networks from Single Trajectories / Christian L. Müller, Rajesh Ramaswamy and Ivo F. Sbalzarini -- A Systems Biology View of Adaptation in Sensory Mechanisms / Pablo A. Iglesias -- Leveraging Modeling Approaches: Reaction Networks and Rules / Michael L. Blinov and Ion I. Moraru -- Part 5. Applications of systems biology in medicine, biotechnology and pharmaceutical industry -- Why and How to Expand the Role of Systems Biology in Pharmaceutical Research and Development / Robert D. Phair -- Multiscale Mechanistic Modeling in Pharmaceutical Research and Development / Lars Kuepfer, Jörg Lippert and Thomas Eissing -- Re-analysis of Bipolar Disorder and Schizophrenia Gene Expression Complements the Kraepelinian Dichotomy / Kui Qian, Antonio Di Lieto, Jukka Corander, Petri Auvinen and Dario Greco -- Bringing Together Models from Bottom-Up and Top-Down Approaches: An Application for Growth of Escherichia coli on Different Carbohydrates / Andeas Kremling -- A Differential Equation Model to Investigate the Dynamics of the Bovine Estrous Cycle / H. M. T. Boer, C. Stötzel, S. Röblitz and H. Woelders -- Reducing Systems Biology to Practice in Pharmaceutical Company Research; Selected Case Studies / N. Benson, L. Cucurull-Sanchez, O. Demin, S. Smirnov and P. van der Graaf -- System-Scale Network Modeling of Cancer Using EPoC / Tobias Abenius, Rebecka Jörnsten, Teresia Kling, Linnéa Schmidt and José Sánchez, et al. -- Early Patient Stratification and Predictive Biomarkers in Drug Discovery and Development / Daphna Laifenfeld, David A. Drubin, Natalie L. Catlett, Jennifer S. Park and Aaron A. Van Hooser, et al. -- Biomedical Atlases: Systematics, Informatics and Analysis / Richard A. Baldock and Albert Burger.
- 2007 SpringerSeckbach, J.
- 2006 SpringerInderjit; Mukerji, K. G.
- 2006 SpringerFlindt, Rainer.
- Analysis of the WntD signaling pathway in inhibition of dorsal activity and in embryonic primordial germ cell guidance2011McElwain, Mark Allan; Kingsley, David M.; Nusse, Roeland; Schneider, David; Talbot, William S.Only a few signaling pathways control the majority of biological processes throughout animal development and homeostasis, indicating that each pathway regulates multiple processes. The Wnt family of secreted ligands is one interesting and important example of this paradigm. Evidence abounds that Wnt signaling impacts numerous biological events including embryonic patterning, stem cell self- renewal, cell proliferation, and tissue regeneration. While only a few Wnt proteins have been extensively characterized, it is likely that each family member signals to control a variety of critical biological processes; therefore, it is clear that by understanding the signaling mechanism used by a single Wnt protein, we can understand how many aspects of biology are regulated. WntD is one of 7 Wnt homologs encoded by the Drosophila genome. While most of these Wnt proteins likely signal through a pathway dependent on the [Beta]-catenin homolog Armadillo (Arm), WntD very likely utilizes an Arm-independent mechanism to control embryonic dorsal/ventral (D/V) patterning, migration of the primordial germ cells (PGC) to the embryonic gonad, and the innate immune response. It is therefore of great interest to identify genes involved in this signal transduction pathway and better characterize the effect WntD has on these important biological processes. To this end, a suppressor/enhancer deficiency screen based upon the role of WntD in D/V patterning was previously performed in the laboratory. From this screen, 30 strong candidates for suppressors and 13 strong candidates for enhancers were identified. Here, I present further characterization of two candidate WntD pathway members identified in the screen: Fz4, a likely WntD receptor and Dcerk, a lipid kinase. I show by both in vitro and in vivo assays that both Fz4 and Dcerk function in the WntD signal transduction pathway, and present evidence suggesting that this WntD-Fz4-Dcerk signaling cassette is utilized during both D/V patterning and PGC migration, yet another instance of a single signaling cascade mediating multiple developmental events. Interestingly, I show that both of these novel WntD signal transducers appear to act redundantly with a homologous protein: in both D/V patterning and PGC migration, WntD likely signals through Fz3 and Fz4 receptors to activate the lipid kinases Dcerk and Dmulk. I further show, in collaboration with the Saba Laboratory at Children's Hospital Oakland Research Institute, that these kinases are necessary for wild-type ceramide-1-phosphate (C1P) levels in the adult, and either is sufficient to increase embryonic C1P levels, suggesting that both Dcerk and Dmulk are bona fide ceramide kinases. My data linking WntD-ceramide kinase signaling to PGC migration is consistent with a model in which WntD signaling is responsible for generation of optimal levels of embryonic C1P, which is likely to be the long-undiscovered substrate that is formed into a gradient by the lipid phosphate phosphatases encoded by Wunen and Wunen2. Future experiments will be required to further test this model. Importantly, these results may suggest a mechanism for the regulation of a broad range of migratory cell types, including other cells that migrate to generate a specific tissue or organ during embryonic development, and immune cells that must travel long distances to fight off infections.
- Anatomy of the Australopithecus scapula and evolution of the human shoulder : insights from a new fossil specimen, KSD-VP-1/1g2011Melillo, Stephanie Marie; Hadly, Elizabeth Anne; Haile-Selassie, Yohannes; Klein, Richard G.Striding bipedalism is a mode of locomotion that defines our lineage. Bipedality freed the hands, arms and shoulders from the mechanical constraints of locomotion, an evolutionary innovation that has had an obvious impact on our species' fitness. As I will discuss in this dissertation, the shoulder blade (scapula) is shaped to optimize use of the upper limb in certain positions. Our closest living relatives (chimpanzees and gorillas) possess adaptations that likely increase efficiency in overhead use of the arms, as in forearm suspension or vertical climbing. The modern human shoulder, on the other hand, lacks such adaptations. This difference may reflect an evolutionary change in shape that occurred as our ancestors transitioned to a terrestrial way of life and became increasingly dexterous, eventually losing ancestral adaptations. On the other hand, recent discoveries suggest our lineage may have never possessed adaptations to suspension. Fossils from the shoulder of our early human ancestors are scarce. A recently discovered partial skeleton from Woranso-Mille (Afar Depression, Ethiopia), KSD-VP-1/1, preserves the oldest and most complete scapula of an adult Australopithecus afarensis individual. The intended contribution of this dissertation is to provide a comparative description of the new scapula (KSD-VP-1/1g) and to detail its implications for our understanding of anatomy and adaptation in the Australopithecus shoulder, and the evolutionary history of the modern human shoulder more generally.
- 2012 SpringerBoniolo, Giovanni.Deliberation and Democracy -- Plato Was Not So Far Wrong: Recalling Athenian Democracy -- A Reappraisal of the Medieval Approach Will Lead to Excellent Deliberators -- Beware of Those Who Think They Possess the Truth! -- Let Us Learn How to Deliberate before Deliberating! -- Between Ethics and Biomedicine.
- 2007 CRCnetBASEMacLeod, Norman.
- 2005 SpringerJones, Clara B.
- 2006 SpringerNoakes, David L. G.
- 2007 CRCnetBASECurry, Gordon B.; Humphries, C. J.The global biodiversity information facility (GBIF) / Meredith A. Lane and James. L. Edwards -- The European network for biodiversity information / Wouter Los and Cees H.J. Hof -- Networking taxonomic concepts--uniting without 'unitary-ism' / Walter G. Berendsohn and Mark Geoffrey -- Networking biological collections databases : building a European infrastructure / Malcolm J. Scoble and Walter G. Berendsohn -- A comparison between morphometric and artifical neural network approaches to the automated species recognition problem in systematics / Norman MacLeod, M. O'Neill, and Steven A. Walsh -- Automated extraction of biodiversity data from taxonomic descriptions / Gordon B. Curry and Richard J. Connor -- The grid and biodiversity informatics / Andrew C. Jones -- LIAS--an interactive database system from structured descriptive data of ascomycetes / Dagmar Triebel ... [et al.] -- Linking biodiversity databases : preparing species diversity information sources by assembling, merging and linking databases / Richard J. White -- Priority areas for rattan conservation on Borneo / Jacob Andersen Sterling ... [et al].
- v. 1-, 1949-Bertalanffy, Ludwig von.
- 2006 CRCnetBASEKnox, G. A.The southern ocean -- Phytoplankton and primary production -- Sea-ice microbial communities -- Zooplankton -- Krill -- Nekton -- Fish -- Seals -- Whales -- Birds -- Benthic communities -- The fast ice and ice shelves -- Ice-edge processes -- Decomposition and the roles of bacteria and protozoa -- Ecosystem dynamics -- Resource exploitation -- Ecosystem changes resulting from resource exploitation -- Management of living resources -- Ultraviolet radiation -- Global warming and Antarctic marine ecosystems -- Human impact.
- 2008 CRCnetBASEBels, V. L.; Godfrey, Matthew H.; Wyneken, Jeanette.How the turtle gets its shell / Scott F. Gilbert, Judith A. Cebra-Thomas, and Ann C. Burke -- Comparative ontogenetic and phylogenetic aspects of Chelonian chondro-osseous growth and skeletochronology / Melissa L. Snover and Anders G.J. Rhodin -- Evolution and structure of the turtle shell / Peter C.H. Pritchard -- Long bone allometry in tortoises and turtles / Gustavo A. Llorente ... [et al.] -- Evolution of locomotion in aquatic turtles / Sabine Renous ... [et al.] -- Hindlimb function in turtle locomotion : limb movements and muscular activation across taxa, environment, and ontogeny / Richard W. Blob, Angela R.V. Rivera, and Mark W. Westneat -- Cervical anatomy and function in turtles / Anthony Herrel, Johan Van Damme, and Peter Aerts -- Functional evolution of feeding behavior in turtles / Vincent Bels ... [et al.] -- The structure of cardiopulmonary systems of turtles : implications for behavior / Jeanette Wyneken -- Reproductive structures and strategies of turtles / Jeffrey D. Miller and Stephen A. Dinkelacker -- Mixed and uniform brood sex ratio strategy in turtles : the facts, the theory, and their consequences / Vincent Hulin ... [et al.] -- The physiology and anatomy of anoxia tolerance in the freshwater turtle brain / Sarah L. Milton -- The relationships of turtles with amniotes / Olivier Rieppel.
- 2014 SpringerEst, Art van der; Golbeck, John H."The volume is intended as an introduction to the physical principles governing the main processes that occur in photosynthesis, with emphasis on the light reactions and electron transport chain. A unique feature of the photosynthetic apparatus is the fact that the molecular structures are known in detail for essentially all of its major components. The availability of this data has allowed their functions to be probed at a very fundamental level to discover the design principles that have guided evolution. Other volumes on photosynthesis have tended to focus on single components or on a specific set of biophysical techniques, and the authors' goal is to provide new researchers with an introduction to the overall field of photosynthesis. The book is divided into sections, each dealing with one of the main physical processes in photosynthetic energy conversion. Each section has several chapters each describing the role that a basic physical property, such as charge or spin, plays in governing the process being discussed. The chapters proceed in an orderly fashion from a quantum mechanical description of early processes on an ultrafast timescale to a classical treatment of electron transfer and catalysis on a biochemical timescale culminating in evolutionary principles on a geological timescale."--Publisher's website.
- 2008 SpringerFuruichi, Takeshi; Thompson, Jo Myers.The bonobo's adaptive potential : social relations under captive conditions / Jeroen M.G. Stevens, Hilde Vervaecke and Linda Van Elsacker -- What does agonistic dominance imply in bonobos? / Tommaso Paoli and Elisabetta Palagi -- Social play in bonobos : not only an immature matter / Elisabetta Palagi and Tommaso Paoli -- Gestures and multimodal signaling in bonobos / Amy S. Pollick, Annette Jeneson and Frans B.M. de Waal -- Longitudinal structure of a unit-group of bonobos : male philopatry and possible fusion of unit-groups / Chie Hashimoto ... [et al.] -- Seasonal changes in fruit production and party size of bonobos at Wamba / Mbangi Mulavwa ... [et al.] -- Relationships among fruit abundance, ranging rate, and party size and composition of bonobos at Wamba / Takeshi Furuichi ... [et al.] -- Bonobo (Pan paniscus) density estimation in the SW-Salonga National Park, Democratic Republic of Congo : common methodology revisited / Meike Mohneke and Barbara Fruth -- Ecological factors influencing bonobo density and distribution in the Salonga National Park : applications for population assessment / Gay Edwards Reinartz ... [et al.] -- Range occupation and population estimates of bonobos in the Salonga National Park : application to large-scale surveys of bonobos in the Democratic Republic of Congo / Falk Grossmann ... [et al.] -- Traditional land-use practices for bonobo conservation / Jo Myers Thompson, Lubuta Mbokoso Nestor and Richard Bovundja Kabanda -- Human hunting and its impact on bonobos in the Salonga National Park, Democratic Republic of Congo / John A. Hart ... [et al.] -- The bonobos of the Lake Tumba-Lake Maindombe hinterland : threats and opportunities for population conservation / Bila-Isia Inogwabini ... [et al.] -- Changes in the status of bonobos, their habitat, and the situation of humans at Wamba in the Luo Scientific Reserve, Democratic Republic of Congo / Gen'ichi Idani ... [et al.] -- The conservation value of Lola ya Bonobo sanctuary / Claudine André ... [et al.].
- 2005 NAP
- 2011Hellman, Andrew Bennett; Clandinin, Thomas R.; Goodman, Miriam Beth; Meyer, Tobias; Shen, Kang.The nervous system is comprised of a complex network of neurons that are connected by specialized structures called synapses. Each synapse contains a myriad of proteins that fulfill different functions, ranging from the release and reception of neurotransmitters to the maintenance and strengthening of the signals between neurons. Given the multitude of proteins present at the synapse, one question is how do they arrive and remain there? In my thesis, I use Caenorhabditis elegans to explore the cellular processes that contribute to the proper localization of important presynaptic proteins. In the first part of my thesis, I explored how presynaptic proteins are properly localized to the signal-sending process, called the axon, and excluded from the signal receiving process, called the dendrite. In the motor neuron DA9, synaptic vesicles localize in a stereotyped region of the axon, but in cdk-5 mutants, 40% of the vesicle material is mislocalized to the dendrite. Chan-Yen Ou, a postdoctoral fellow in the lab, isolated a mutant that suppressed cdk-5, suggesting that the gene acts downstream or parallel to cdk-5. I mapped this mutant to the unc-101 locus, which encodes the [Mu]-subunit of the AP1 complex. AP complexes are players in clathrin-mediated endocytosis, and the [Mu]-subunit is the cargo recognition molecule within the complex. The AP1 complex plays a well-established role at the trans-golgi network in the cell body, but we present three results that suggest UNC-101 also acts at presynapses. The first result is the strong localization of UNC-101 at the synapse. The second result is that disrupting synaptic vesicle endocytosis (SVE) using genetic mutations causes a v similar phenotype as unc-101 mutations; animals mutant for unc-57/endophilin, unc- 26/synaptojanin, or dyn-1/dynamin 1 also suppress the cdk-5 dendritic phenotype. The third result is that the transport of synaptic vesicles from the synaptic region towards the dendrite decreases in an unc-101; cdk-5 double mutant compared to the cdk-5 single mutant, suggesting that UNC-101 is preventing retrograde flow from the synapses. While these results suggest a synaptic role for UNC-101, they do not exclude the possibility that UNC-101 also acts at the cell body. Indeed, I also show that UNC-101 affects the localization of postsynaptic proteins, which may occur by sorting proteins at the cell body. Additionally, postsynaptic proteins are unaffected by unc-57, suggesting an SVE-independent role for unc-101. Thus, I provide evidence that the AP1 subunit UNC-101 acts at presynapses and contributes to the molecular polarity of the DA9 motor neuron. The second part of my thesis contains my findings regarding a new system that I established to study synapse formation: the AFD thermosensory neuron. I found that the synaptic pattern in AFD is highly stereotyped, and I also isolated a mutant from a forward genetic screen that I mapped to the tax-4 locus. tax-4 and tax-2 encode two subunits of a cyclic nucleotide-gated channel that is necessary for sensory activity in AFD. When the genes are mutated, the localization of multiple presynaptic proteins is disrupted. Interestingly, they are not all similarly affected. Clusters of synaptic vesicles and the active zone protein SYD-2/liprin-[Alpha] are dimmer and more numerous in tax-4 and tax-2 than wild-type animals. While SAD-1/SAD kinase clusters are also dimmer, there are fewer in tax-4 and tax-2 than wild-type animals. These results suggest that sensory activity can have different effects depending on the presynaptic vi protein. Thus, for the second part of my thesis, I describe the establishment of a new system to study synapse development, the results of a screen, and a link between neural activity and the localization of presynaptic proteins.
- 2009 SpringerGlass, Mogens L.; Wood, Stephen C.Overview of the respiratory system / S.C. Wood -- Control of respiration in aquatic vertebrates: Gas transport and gill function in water-breathing fish / S.F. Perry ... [et al.]. Patterns of acid-base regulation during exposure to hypercarbia in fishes / C.J. Brauner and D.W. Baker. Buoyancy control in aquatic vertebrates / B. Pelster. Gas exchange and control of respiration in air-breathing teleost fish / M.L. Glass and F.T. Rantin. Effects of temperature on cardiac function in teleost fish / A.L. Kalinin ... [et al.]. Physiological evidence indicates lungfish as a sister group to the land vertebrates / M.L. Glass. Aestivation in amphibians, reptiles, and lungfish / M.L. Glass, J. Amin-Naves, and G.S.F. da Silva -- Evolution of pulmonary mechaincs and respiratory control: Trade-offs in the evolution of the respiratory apparatus of chordates / S.F. Perry, W. Klein, and J.R. Codd. Environmental selection pressures shaping the pulmonary surfactant system of adult and developing lungs / S. Orgeig and C.B. Daniels. Midbrain structures and control of ventilation in amphibians / L.H. Gargaglioni and L.G.S. Branco. Comparative aspects of hypoxia tolerance of the ectothermic vertebrate heart / H. Gesser and J. Overgaard. Control of the heart and of cardiorespiratory interactions in ectothermic vertebrates / E.W. Taylor and T. Wang. The endocrine-paracrine control of the cardiovascular system / B. Tota and M.C. Cerra. Stoking the brightest fires of life among vertebrates / Raul K. Suarez and Kenneth C. Welch -- Respiratory physiology of birds : metabolic control: Prenatal development of cardiovascular regulation in avian species / J. Altimiras, D.A. Crossley II, and E. Villamor. Control of breathing in birds : implications for high-altitude flight / G.R. Scott and W.K. Milsom -- Mammalian and human physiology: Peripheral chemoreceptors in mammals : structure, function and transduction / P. Kumar. Central chemosensitivity in mammals / L.K. Hartzler and R.W. Putnam. Human exercise physiology / S. Volianitis and Niels H. Secher.
- 2009Spletter, Maria Lynn; Clandinin, Thomas R.; Luo, Liqun; McConnell, Susan K.; Shen, Kang.The brain is a complex organ formed from billions of neurons. There are thousands of types of neurons, each with a unique morphology, function, gene expression profile and pattern of connectivity. This structure poses a very interesting developmental challenge: how do neurons acquire unique identities and connect to specific partner neurons during development? The Drosophila antennal lobe presents an attractive genetic model system in which to investigate these questions. In the antennal lobe, olfactory receptor neuron (ORN) axons project to glomeruli where they synapse with their partner projection neuron (PN) dendrites. These connections are highly stereotyped, as ORNs expressing the same odorant receptor converge on the same glomerulus and all PNs of the same class send their dendrites to the same glomerulus. Cell surface molecules are known to be crucial to instructing this specific wiring during development, and a transcriptional code likely dictates which cells express a particular cell surface molecule. However, the identities of many of these cell surface molecules and transcription factors remain unknown, and it is possible that additional cell types also inform the specific wiring of PNs and ORNs. In this thesis, I present work that furthers our understanding of the development and function of the fly olfactory circuit. First, I discuss a detailed characterization of local interneurons in the antennal lobe, dramatically expanding our basic knowledge of the types of cells present during development as well as central to information processing in the antennal lobe. Second, I present my work on the transcription factor longitudinals lacking (lola) that plays a role both in fate determination and wiring specificity of olfactory projection neurons, the second order cells that relay olfactory information to higher brain centers. Finally, I present an analysis of the regulatory elements driving expression of the projection neuron marker GH146 as a first step in defining transcriptional regulatory modules and identifying factors that may direct fate and wiring decisions in PNs.
- v. 1-4, 1999-2002. Springer
- v. 5-, 2002- Springer
- Centrosomes, cilia and centriolar satellites : characterizing the role of Cep72 in centriolar satellite function2011Stowe, Timothy Richard; Kopito, Ron,; Nachury, Maxence; Nelson, W. J.; Stearns, Tim.Centrosomes and cilia are evolutionarily conserved organelles with important functions in cell signaling, organismal development and disease. Defects in centrosome and cilium function are associated with a set of phenotypically-related syndromes called ciliopathies. To discover new centrosome/cilium components, candidate genes were identified by virtue of their transcriptional upregulation in multiciliated tracheal epithelial cells and selected for further study based on their subcellular localization. Using this approach, Cep72 was identified as a component of centriolar satellites - poorly understood centrosome-associated structures defined by the protein PCM1. A subset of ciliopathy-associated proteins that includes BBS4, Cep290 and OFD1 associate with centriolar satellites, yet how this association affects their function is unknown. Cep72 was determined to be a PCM1-interacting protein and its association with centriolar satellites was characterized in detail. Cep72 was found to interact with Cep290 and overexpression/depletion experiments demonstrated that Cep72 facilitates recruitment of Cep290, but not BBS4, to centriolar satellites. Loss of satellites by depletion of PCM1 resulted in cytoplasmic disperal of BBS4 and redistribution of Cep72 and Cep290 from centriolar satellites to the centrosome. In contrast to the reported function of centriolar satellites in facilitating the localization of proteins to the centrosome, the effects of PCM1 depletion on Cep72 and Cep290 localization suggest that association with centriolar satellites can also restrict centrosomal localization for some proteins. During ciliogenesis, BBS4 transitions from centriolar satellites to the primary cilium, however regulation of this transition is not understood. Depletion of Cep72 or Cep290 prevented transition of BBS4 localization, causing BBS4 to remain localized to centriolar satellites in ciliated cells. Depletion of PCM1 or Cep72 in developing zebrafish embryos resulted in phenotypes consistent with centrosome/cilium defects, suggesting centriolar satellites influence cilium function during development. Given these results, we propose that centriolar satellites function in modulating the ciliary localization of BBS4 and possibly other ciliogenesis factors, via a mechanism that involves Cep290 as an effector of that regulation. The distribution of centriolar satellites around the centrosome during interphase requires microtubules and dynein. During the cellular stress response to misfolded proteins, protein aggregates are transported in a microtubule and dynein-dependent manner to structures surrounding the centrosome referred to as aggresomes. We observed PCM1-dependent recruitment of centriolar satellite proteins to aggresomes, which prompted further investigation of the potential involvement of PCM1 in aggresome formation. Depletion of PCM1 had modest effects on aggresome formation and cell viability in response to misfolded proteins. However the influence of PCM1 on centrosome function and microtubule organization could not be ruled out as possible explanation for these effects.
- 2010Santé, Joshua Martin; Burkholder, William; Frydman, Judith; Nelson, W. J.; Stearns, Tim.The Chibby protein antagonizes Wnt/Beta-Catenin signaling, a prominent regulator pathway of development, via direct interaction with the transcriptional activator domain of Beta-Catenin. Chibby mutant mice have a defect in the formation of motile cilia in the airway epithelium. The centrosome is the major microtubule organizing center of animal cells and includes two centrioles, termed mother and the daughter based on their age and replicative history. The mother harbors subdistal and distal appendages, which, respectively, anchor the interphase microtubule array and are required for ciliation. Several lines of published evidence suggest a link between the primary cilium, a single, non-motile structure found on many cells, and Wnt/Beta-Catenin signaling. Based on this evidence I investigated Chibby, and related members of the Chibby protein family, to determine its role in centrosome and cilium structure and function. I report here that the Chibby family of proteins is associated physically and functionally with the centrioles of the centrosome in mammalian cells. The Chibby family consists of Chibby (Cby1), Nurit/Cby2, and the previously uncharacterized, Chibby3 (Cby3). Fluorescence microscopy revealed that Cby1 localized to the mother centriole of the centrosome, and that this localization was partially shared with Nurit/Cby2 and Cby3. Cby1 colocalizes at the mother centriole with phospho-Beta-Catenin, a modified form of Beta-Catenin that, in some contexts it is targeted for proteasome-mediated degradation. I also found that Cby1 partially colocalized with phospho-Beta-Catenin at a ring-like structure at the midbody during cytokinesis, where they might regulate abscission. The localization of Cby1 to the mother centriole was similar to that described for proteins for the distal appendages of the mother centriole. I found that Cby1 colocalized with, and exhibited cell cycle dynamics similar to, Cep164, a known distal appendage protein that is required for primary cilium formation. Consistent with a role for Cby1 in these centriolar structures, Cby1-/- mouse embryonic fibroblasts exhibited a strong reduction in primary cilium formation that could be complemented by expression of the wild-type Cby1 protein. Remarkably, overexpression of either GFP-tagged Beta-Catenin or GFP-Cby1 in hTERT-RPE1 cells resulted in fewer, but longer, cilia than controls suggesting that both of these proteins are important for structure and function of the primary cilium. In summary, I propose that Cby1 is associated with the distal appendages of the mother centriole, that defects in those structures are the likely cause of the failure of cilium formation in cells lacking Cby1, and that both primary and motile cilia display this requirement for Cby1.
- 2010Beaudry, Veronica Graciela; Attardi, Laura; Nelson, W. J.; Oro, Anthony; Sage, Julien.Desmosomes are multi-protein cell-cell adhesion junctions found throughout stratified squamous epithelia and the myocardium. These specialized adhesion complexes maintain the structural integrity of these tissues, which are continuously exposed to mechanical stress. Perturbations in desmosome structure and function lead to clinical symptoms associated with a variety of human skin and heart disorders. While the molecular basis for these phenotypes is mainly attributable to the role of the desmosome in resisting mechanical stress, emerging roles for this complex in cellular signaling, apoptosis, and tissue morphogenesis are accumulating. Understanding the molecular mechanisms of desmosome function in both normal tissue homeostasis and disease will bring new insights into these complex biological processes. Loss of cellular adhesion junctions is a common feature of epithelial cancer progression. However, the specific contribution of how desmosome function affects this disease has not been looked at in great detail. In the first two chapters, we examined the consequences of desmosome loss to tumor formation using mice deficient for the desmosomal protein Perp. In-depth analyses focusing on Perp's mechanism of action revealed new insights into the role of Perp and the desmosome in adhesion, apoptosis, and inflammation. In the second part of my thesis, we investigated the role of the desmosome in epithelial wound healing and in Ankyloblepharon Ectodermal Dysplasia and Cleft Lip/Palate (AEC), a human skin disease characterized by severe craniofacial abnormalities, skin erosions, and alopecia. We first showed that proper desmosome function is essential for efficient wound healing in vivo. Lastly, we investigated whether some of the clinical symptoms associated with AEC were attributable to defects in Perp function. We identified a subset of AEC derived p63 mutants that were capable of transactiving Perp expression, despite being previously characterized as inactive for other p63 target genes. Analysis of skin biopsies revealed disrupted Perp expression in a subset of AEC patients, further corroborating a role for Perp dysfunction in the pathogenesis of this disease. Together these studies have uncovered important roles for Perp and the desmosome in maintaining proper skin homeostasis and insights into the mechanisms of how Perp loss and desmosome disruption contributes to disease progression in a variety of contexts.
- 2006 ScienceDirectWilliams, R. J. P.; Silva, J. J. R. Fraústo da.1. The evolution of earth-the geochemical partner of the global ecosystem (5 billion years of history) -- 2. Basic chemistry of the ecosystem -- 3. Energy, order and disorder, and organised systems -- 4. Outline of biological chemical principles : components, pathways and controls -- 5. First steps in evolution of prokaryotes : anaerobic chemotypes four to three billion years ago -- 6. The evolution of protoaerobic and aerobic prokaryote chemotypes (three to two billion years ago) -- 7. Unicellular eukaryotes chemotypes (about one and a half billion years ago?) -- 8. Multi-cellular eukaryote chemotypes (from one billion years ago) -- 9. The evolution of chemotypes with nerves and a brain (0.5 billion years ago to today) -- 10. Evolution due to mankind : a completely novel chemotype (less than one hundred thousand years ago) -- 11. Conclusion : the inevitable factors in evolution
- 2010Hoh, Ramona Amy; Krasnow, Mark; Nachury, Maxence; Nelson, W. J.; Stearns, Tim.Multiciliated cells of the respiratory epithelium are unique in that they generate hundreds of modified centrioles called basal bodies per cell. Each basal body anchors a motile cilium at the cell apical surface, and coordinated beating of motile cilia is vital for protecting from airway infection and for respiratory function. We used mice expressing GFP from the promoter of a ciliated cell-specific gene, FOXJ1, to obtain sorted populations of ciliating cells for transcriptional analysis. In addition to successfully identifying candidates found in other proteomics and genomics studies of motile and nonmotile cilia, approximately half of the significantly upregulated genes identified here have not yet been linked to cilia, and of those a third of are currently uncharacterized. We identified several genes associated with human diseases. These include FTO, which has been linked to human obesity, and DYX1C1, which is a candidate gene for developmental dyslexia. Interestingly, FTO localizes to cilia and Dyx1c1-GFP localizes to cilia and centrosomes, establishing novel links between cilia and two genetic diseases with poorly understood cellular and molecular etiology. Finally, we identified a number of transcription factors that are differentially expressed in ciliating mouse tracheal epithelial cells, including the proto-oncogene c-myb. We show that C-myb is expressed specifically in ciliating cells, and that this expression is temporally restricted to early in the differentiation process. These results suggest a role for the leukemogenic transcription factor C-myb in ciliated cell differentiation.
- 2013 SpringerKramer, Achim; Merrow, Martha.Molecular and cellular basis of circadian clocks -- Molecular components of the mammalian circadian clock / Ethan D. Buhr and Joseph S. Takahashi -- The epigenetic language of circadian clocks / Saurabh Sahar and Paolo Sassone-Corsi -- Peripheral circadian oscillators in mammals / Steven A. Brown and Abdelhalim Azzi -- Cellular mechanisms of circadian pacemaking: beyond transcriptional loops / John S. O'Neill, Elizabeth S. Maywood, and Michael H. Hastings -- The clock in the brain: neurons, glia, and networks in daily rhythms / Emily Slat, G. Mark Freeman Jr., and Erik D. Herzog -- Circadian control of physiology and behavior -- Circadian clocks and metabolism / Biliana Marcheva, Kathryn M. Ramsey, Clara B. Peek, Alison Affinati, Eleonore Maury, and Joseph Bass -- The circadian control of sleep / Simon P. Fisher, Russell G. Foster, and Stuart N. Peirson -- Daily regulation of hormone profiles / Andries Kalsbeek and Eric Fliers -- Circadian clocks and mood-related behaviors / Urs Albrecht -- Chronopharmacology and chronotherapy -- Molecular clocks in pharmacology / Erik S. Musiek and Garret A. FitzGerald -- Cancer chronotherapeutics: experimental, theoretical,and clinical aspects / E. Ortiz-Tudela, A. Mteyrek, A. Ballesta, P.F. Innominato, and F. Lévi -- Pharmacological modulators of the circadian clock as potential therapeutic drugs: focus on genotoxic/anticancer therapy / Marina P. Antoch and Roman V. Kondratov -- Light and the human circadian clock / Till Roenneberg, Thomas Kantermann, Myriam Juda, Ceéline Vetter, and Karla V. Allebrandt -- Systems biology of circadian clocks -- Mathematical modeling in chronobiology / G. Bordyugov, P.O. Westermark, A. Korenčič, S. Bernard, and H. Herzel -- Mammalian circadian clock: the roles of transcriptional repression and delay / Yoichi Minami, Koji L. Ode, and Hiroki R. Ueda -- Genome-wide analyses of circadian systems / Akhilesh B. Reddy -- Proteomic approaches in circadian biology / Maria S. Robles and Matthias Mann.
- 2005 ScienceDirectYoung, Michael W.Genetic approaches to circadian clocks -- Tracking circadian control of gene activity -- Molecular cycles : clock protein rhythms -- Anatomical representation of neural clocks -- Mosaic circadian systems -- Peripheral circadian clocks -- Cell and tissue culture system -- Intercellular signaling -- Photoresponsive clocks -- Sleeping flies -- Circadian biology of populations -- Circadian clocks affecting noncircadian biology.Also available: Print – 2005
- 2009 CRCnetBASEValiente, Gabriel.
- 2010Dawson, Maureen M.; Dawson, Brian A.; Overfield, J.Communication skills in science -- Using scientific literature -- Essay writing -- Writing practical reports -- The project report -- Scientific posters -- Oral presentations -- Preparing a curriculum vitae and job application.
- 2006 SpringerCadotte, Marc William; Fukami, Tadashi; McMahon, Sean M.
- 2002 CRCnetBASEGould, Jay E.; Gould, Jay E.
- 2010Kawahara, Tiara Lynn Aiko; Chang, Howard Y.; Chua, Katrin Faye; Khavari, Paul A.; Sweet-Cordero, E. Alejandro.Aging is a degenerative process accompanied by tissue deterioration, decline in function and increased susceptibility to disease. It is now understood to be a genetically and environmentally regulated process, rather than simply the result of wear and tear. We developed a systematic approach to identify combinatorial cis-regulatory motifs that drive age-dependent gene expression across different tissues and organisms, and identified the transcription factor NF-[kappa]B as a candidate regulator of aging. Using multiple independent models, we show a role for NF-[kappa]B in regulating transcriptional programs of aging. First, we found that aged mice subjected to NF-[kappa]B blockade for two weeks exhibit reversion of the tissue characteristics and global gene expression programs to those of young mice. Next, we detected deregulated transcriptional activity of NF-[kappa]B in Sirt6-deficient mice, which exhibit premature aging-like symptoms. We show that Sirt6 interacts with the NF-[kappa]B RelA subunit and deacetylates histone H3 lysine 9 (H3K9) at NF-[kappa]B target gene promoters. Computational genomics analyses revealed increased activity of NF-[kappa]B-driven gene expression programs in multiple Sirt6-deficient tissues in vivo. Moreover, haploinsufficiency of RelA rescues the early lethality and degenerative syndrome of Sirt6-deficient mice, suggesting that hyperactive NF-[kappa]B-dependent transcription in the absence of Sirt6 promotes premature aging-like syndromes. Finally, we performed a genome-scale survey of RelA and Sirt6 location on chromatin in mouse embryonic fibroblasts (MEFs) via chromatin immunoprecipiation (ChIP)-on-chip to understand to what extent Sirt6 and RelA act coordinately to regulate gene expression. These results indicate that RelA and Sirt6 co-occupy the promoters of a large population of genes at sites less than 500kb apart and/or require RelA to enable binding of Sirt6. Expression analysis of these shared targets reveals direct regulation of 301 promoters, including genes such as Shc1 (encoding p66), Cdkn2a (encoding p16), Wnt2 and Jmjd3, which have been separately implicated in the aging process. We propose that hyperactive NF-[kappa]B signaling contributes to premature and normal aging.
- 2008 CRCnetBASEDunning, John B.
- 2002- WileyBonifacino, Juan S.ch. 1. Cell Culture -- ch. 2. Preparation and Isolation of Cells -- ch. 3. Subcellular Fractionation and Isolation of Organelles -- ch. 4. Microscopy -- ch. 5. Characterization of Cellular Proteins -- ch. 6. Electrophoresis and Immunoblotting -- ch. 7. Protein Labeling and Immunoprecipitation -- ch. 8. Cell Cycle Analysis -- ch. 9. Cell Adhesion -- ch. 10. Extracellular Matrix -- ch. 11. In Vitro Reconstitution -- ch. 12. Cell Motility -- ch. 13. Organelle Motility -- ch. 14. Signal Transduction: Protein Phosphorylation -- ch. 15. Protein Trafficking -- ch. 16. Antibodies as Cell Biological Tools -- ch. 17. Macromolecular Interactions in Cells -- ch. 18. Cellular Aging and Death -- ch. 19. Whole Organism and Tissue Analysis -- ch. 20. Expression and Introduction of Macromolecules into Cells -- ch. 21. Fluorescent Protein Technology -- ch. 22. Cell Biology of Chromosomes and Nuclei -- ch. 23. Stem Cells -- ch. 24. Lipids -- ch. 25. Nanotechnology -- ch. 26. Viruses -- ch. 27. RNA-Based Methods in Cell Biology -- Appendix 1. Useful Information and Data -- Appendix 2. Laboratory Stock Solutions and Equipment -- Appendix 3. Commonly Used Techniques -- Appendix. Suppliers.
- 2013 ScienceDirectPammi, V. S. Chandrasekhar; Srinivasan, Narayanan.This well-established international series examines major areas of basic and clinical research within neuroscience, as well as emerging and promising subfields.This volume explores interdisciplinary research on decision making taking a neural and behavioural approach *Leading authors review the state-of-the-art in their field of investigation, and provide their views and perspectives for future research *Chapters are extensively referenced to provide readers with a comprehensive list of resources on the topics covered *All chapters include comprehensive background information and are written in a clear form that is also accessible to the non-specialist.
- Developing a national registry of pharmacologic and biologic clinical trials : workshop report (2006)2006 NAP
- 2013 SpringerMelkikh, Alexey; Sutormina, Maria.Understanding the general laws of an effective system for the transport of substances in cells is an important goal of systems and synthetic biology and will help us to answer why the transport subsystem of a cell is arranged as it is. In addition, the construction of models for optimizing transport systems is of considerable importance in the early stages in the development of a functioning protocell. The aim of this book is to describe the latest techniques for the calculation of the optimal parameters of the transport subsystem of a cell at its maximum efficiency.
- 2009 SpringerBurbach, Johannes Peter Henri; Pasterkamp, R. Jeroen; Smidt, Marten P.Development of the dopamine systems in zebrafish / Jørn Schweitzer and Wolfgang Driever -- Dopamine systems in the forebrain / John W. Cave and Harriet Baker -- The role of Otx genes in progenitor domains of ventral midbrain / Antonio Simeone ... [et al.] -- Terminal differentiation of mesodiencephalic dopaminergic neurons : the role of Nurr1 and Pitx3 / Marten P. Smidt and J. Peter H. Burbach -- Foxa1 and Foxa2 transcription factors regulate differentiation of midbrain dopaminergic neurons / Siew-Lan Ang -- Transcriptional regulation of their survival : the engrailed homeobox genes / Horst H. Simon and Kambiz N. Alavian -- Neurotrophic support of midbrain dopaminergic neurons / Oliver von Bohlen und Halbach and Klaus Unsicker -- TGF in dopamine neuron development, maintenance, and neuroprotection / Eleni Roussa, Oliver von Bohlen und Halbach, and Kerstin Krieglstein -- Axon guidance in the dopamine system / Asheeta A. Prasad and R. Jeroen Pasterkamp -- Protocols for generating ES-cell-derived dopamine neurons / Sonja Kriks and Lorenz Studer -- Molecular and cellular determinants for generating ES-cell-derived dopamine neurons for cell therapy / -- Jan Pruszak and Ole Isacson.Also available: Print – 2009
- 2008 CRCnetBASEBlunt, John; Munro, Murray H. G.
- 2009 SpringerBruin, J.; Geest, L. P. S. van der.
- 2010 SpringerCerdà, Joan; Clark, Melody; Lubzens, Esther.Many organisms have evolved the ability to enter into and revive from a dormant state. They can survive for long periods in this state (often even months to years), yet can become responsive again within minutes or hours. This is often, but not necessarily, associated with desiccation. Preserving one 's body and reviving it in future generations is a dream of mankind. To date, however, we have failed to learn how cells, tissues or entire organisms can be made dormant or be effectively revived at ambient temperatures. In this book studies on organisms, ranging from aquatic cyanobacteria that produce akinetes to hibernating mammals, are presented, and reveal common but also divergent physiological and molecular pathways for surviving in a dormant form or for tolerating harsh environments. Attempting to learn the functions associated with dormancy and how they are regulated is one of the great future challenges. Its relevance to the preservation of cells and tissues is one of the key concerns of this book
- 2006 ScienceDirectMarkow, Therese Ann; O'Grady, Patrick M.
- 2006 SpringerEilenberg, Jørgen; Hokkanen, Heikki M. T.
- 2005 SpringerCrisafulli, Charles M.; Dale, Virginia H.; Swanson, Frederick J.Disturbance, survival, and succession : understanding ecological responses to the 1980 eruption of Mount St. Helens / Virginia H. Dale, Frederick J. Swanson and Charles M. Crisafulli -- Geological and ecological settings of Mount St. Helens before May 18, 1980 / Frederick J. Swanson, Charles M. Crisafulli and David K. Yamaguchi -- Physical events, environments, and geological-ecological interactions at Mount St. Helens : March 1980-2004 / Frederick J. Swanson and Jon J. Major -- Plant responses in forests of the tephra-fall zone / Joseph A. Antos and Donald B. Zobel -- Plant succession on the Mount St. Helens debris-avalanche deposit / Virginia H. Dale ... [et al.] -- Geomorphic change and vegetation development on the Muddy River mudflow deposit / Peter M. Frenzen ... [et al.] -- Proximity, microsites, and biotic interactions during early succession / Roger del Moral, David M. Wood and Jonathan H. Titus -- Remote sensing of vegetation responses during the first 20 years following the 1980 eruption of Mount St. Helens : a spatially and temporally stratified analysis / Rick Lawrence -- Arthropods as pioneers in the regeneration of life on the pyroclastic-flow deposits of Mount St. Helens / John S. Edwards and Patrick M. Sugg -- Posteruption arthropod succession on the Mount St. Helens volcano : the ground-dwelling beetle fauna (Coleoptera) / Robert R. Parmenter ... [et al.] -- Causes and consequences of herbivory on prairie lupine (Lupinus lepidus) in early primary succession / John G. Bishop ... [et al.] -- Responses of fish to the 1980 eruption of Mount St. Helens / Peter A. Bisson ... [et al.] -- Amphibian responses to the 1980 eruption of Mount St. Helens / Charles M. Crisafulli ... [et al.] -- Small-mammal survival and colonization on the Mount St. Helens volcano : 1980-2002 / Charles M. Crisafulli, James A. MacMahon and Robert R. Parmenter -- Mycorrhizae and Mount St. Helens : story of a symbiosis / Michael F. Allen ... [et al.] -- Patterns of decomposition and nutrient cycling across a volcanic disturbance gradient : a case study using rodent carcasses / Robert R. Parmenter -- Lupine effects on soil development and function during early primary succession at Mount St. Helens / Jonathan J. Halvorson, Jeffrey L. Smith and Ann C. Kennedy -- Response and recovery of lakes / Clifford N. Dahm ... [et al.] -- Ecological perspectives on management of the Mount St. Helens landscape / Virginia H. Dale, Frederick J. Swanson and Charles M. Crisafulli -- Overview of ecological responses to the eruption of Mount St. Helens : 1980-2005 / Charles M. Crisafulli, Frederick J. Swanson and Virginia H. Dale.
- 2005 SpringerCloudsley-Thompson, J. L.
- 2006 CRCnetBASEHerrel, Anthony; Rowe, Nick P.; Speck, Thomas.
- 2006 SpringerGranéli, Edna; Turner, Jefferson T.
- 2012 SpringerHawkins, A. D.; Popper, Arthur N.Part I. Introduction -- Part II. Sound Detection by Aquatic Animals -- Part III. Sound Production by Aquatic Animals -- Part IV. Physiological Effects of Sounds -- Part V. Anthropogenic Sounds and Behavior -- Part VI. Population Effects -- Part VII. Anthropogenic Sound Sources and Their Measurement -- Part VIII. Science, Regulation and Sound Exposure Criteria -- Part IX. Monitoring, Management and Mitigation -- Part X. Workshops and Concluding Remarks.
- 2016 SpringerHawkins, A. D.; Popper, Arthur N.The meeting of Aquatic Noise 2013 will introduce participants to the most recent research data, regulatory issues and thinking about effects of man-made noise and will foster critical cross-disciplinary discussion between the participants. Emphasis will be on the cross-fertilization of ideas and findings across species and noise sources. As with its predecessor, The Effects of Noise on Aquatic Life: 3rd International Conference will encourage discussion of the impact of underwater sound, its regulation and mitigation of its effects. With over 100 contributions from leading researchers, a wide range of sources of underwater sound will be considered.
- Elsevier's Encyclopaedic dictionary of medicine : in five languages, English, French, German, Italian, and Spanishpt. A-<D>, 1987-<90>Dorian, A. F.pt. A. General medicine -- pt. B. Anatomy -- pt. C. Biology, genetics and biochemistry -- pt. D. Therapeutic substances.
- 2006 ScienceDirectRicard, Jacques.Also available: Print – 2006
- A fully searchable, working editorial site of articles by scientists and scientific historians in the fields of biochemistry and physiology, cell biology, developmental biology, ecology, evolution, genetics, immunology, molecular biology, neuroscience, microbiology and virology, plant science, structural biology, and science and society.
- 2008 SpringerMiller, Seumas; Selgelid, Michael J.
- 2013 SpringerJankowski, Roger.The primary nose and palate in evolution -- The primary nose and palate in human embryo development -- Parallels between evolution and development of the nose -- The seemingly simple formation of the secondary palate and nose in the human embryo -- The complex formation of the secondary palate and nose in evolution -- A theory of secondary palate formation -- Primary and secondary palates : primary and secondary nasal fossae -- Olfactory and respiratory nasal fossae -- Is the human ethmoid labyrinth a sinus? -- Understanding the anatomy of the human nose -- Formation of the paranasal air sinues -- The nose in midface development -- Reminder of the normal embryologic development of the human brain -- Phylogenetic origins of the visual and olfactory organs -- Lessons from midface malformations associated to holoprosencephaly -- The evo-devo scenario of nose and midface formation -- A help to teaching anatomy -- Medical hypothesis and perspectives -- Evolutionary and develomental (evo-devo) medicine.
- 2009 Cold Spring Harb Lab PressStewart, David J.; Stillman, Bruce; Witkowski, J. A.
- 2011Folse, Henry Joseph; Gordon, Deborah M.; Roughgarden, Joan; Tuljapurkar, Shripad.In the first chapter, we argue that an individual organism ought not to be defined in terms of genetic homogeneity, but rather by the evolutionary criteria of the alignment of fitness interests, the export of fitness due to interdependence for survival and reproduction, and adaptive functional organization. We consider how these concepts apply to various putative individual organisms, review the costs and benefits of intraorganismal genetic heterogeneity, and demonstrate that high relatedness is neither necessary nor sufficient for individuality. In the second chapter, we model the benefits and costs of genetic mosaicism for a long-lived tree in coevolution with a short-lived pest. We demonstrate benefits of mosaicism for trees at both the individual and population levels when somatic mutation introduces new defenses. In the third chapter, we develop a game theoretic model of the decision to reject or fuse with a potential partner in a colonial ascidian, based on weighing costs and benefits of fusion. We find that once fused, the interactions between cell lineages are cooperative in the soma, but competitive in the germline.
- 2008 SpringerPontarotti, Pierre.I. Modelization of Evolution -- Rate of Adaptation of Large Populations / Feng Yu and Alison Etheridge, p. 3-27 -- A Phylogenetic Mixture Model for Heterotachy / Andrew Meade and Mark Pagel, p. 29-41 -- II. Concepts in Evolutionary Biology -- Accelerated Evolution of Genes of Recent Origin / Macarena Toll-Riera, Jose Castresana and M. Mar Albà, p. 45-59 -- Life-Cycle Features of Tumour Cells / Jekaterina Erenpreisa and Mark S. Cragg, 61-71 -- General Evolutionary Regularities of Organic and Social Life / Valeria I. Mikhalevich, p. 73-94 -- Old and New Concepts in EvoDevo / Margherita Raineri, p. 95-114 -- III. Knowledge -- Overturning the Prejudices about Hydra and Metazoan Evolution / Hiroshi Shimizu, p. 117-134 -- The Search for the Origin of Cnidarian Nematocysts in Dinoflagellates / Jung Shan Hwang, Satoshi Nagai, Shiho Hayakawa, Yasuharu Takaku and Takashi Gojobori, p. 135-152 -- IV. Applied Evolutionary Biology -- A Possible Relationship Between the Phylogenetic Branch Lengths and the Chaetognath rRNA Paralog Gene Functionalities: Ubiquitous, Tissue-Specific or Pseudogenes / Roxane-Marie Barthélémy, Michel Grino, Pierre Pontarotti, Jean-Paul Casanova and Eric Faure, p. 155-164 -- Mode and Tempo of matK : Gene Evolution and Phylogenetic Implications / Khidir W. Hilu and Michelle M. Barthet, p. 165-179 -- Phylogeography and Conservation of the Rare South African Fruit Chafer Ichnestoma stobbiai (Coleoptera: Scarabaeidae) / Ute Kryger and Clarke H. Scholtz, p. 181-196 -- Nothing in Medicine Makes Sense Except in the Light of Evolution: A Review / Bernard Swynghedauw, p. 197-207 -- An Overview of Evolutionary Biology Concepts for Functional Annotation: Advances and Challenges / Anthony Levasseur and Pierre Pontarotti, p. 209-215.
- Evolutionary computation, machine learning, and data mining in bioinformatics : 5th European Conference, EvoBIO 2007, Valencia, Spain, April 11-13, 2007 : proceedings2007 SpringerMarchiori, Elena; Moore, Jason H.; Rajapakse, Jagath Chandana.
- 2012 SpringerSoyer, Orkun S.
- [v.1], 2014Orsay, Jonathan.
- [v.2], 2014Orsay, Jonathan.
- 2007 ScienceDirectOren, Aharon; Rainey, Fred A.Also available: Print – 2006
- Field manual of techniques in invertebrate pathology : application and evaluation of pathogens for control of insects and other invertebrate pests. 2nd ed.2007 SpringerKaya, Harry K.; Lacey, Lawrence A.
- Fluorescence spectroscopy in biology : advanced methods and their applications to membranes, proteins, DNA, and cells2005 SpringerFidler, V.; Hof, M.; Hutterer, R.Pt. 1. Fluorescence spectroscopy: basics and advanced approaches. Basics of fluorescence spectroscopy in biosciences / M. Hof, V. Fidler and R. Hutterer -- Pulse and phase fluorometries: an objective comparison / B. Valeur -- Non-exponential fluorescence of electronically coupled donors contains distance information / S. Kalinin, M. Isaksson and L.B.-Å. Johansson -- Fluorescence nanotomography: recent progress, constraints and opportunities / O.J. Rolinski and D.J.S. Birch -- Solvent relaxation as a tool for probing micro-polarity and -fluidity / J. Sýkora, R. Hutterer and M. Hof -- Total internal reflection fluorescence microscopy: applications in biophysics / N.L. Thompson and J.K. Pero -- Single molecule spectroscopy: basics and applications / J. Enderlein -- Pt. 2. Application of fluorescence spectroscopy to biological membranes. Raft microdomains in model membranes as revealed by fluorescence quenching / G. Duportail -- The lateral structure of lipid membranes as seen by fluorescence microscopy / L.A. Bagatolli -- Pt. 3. Application of fluorescence spectroscopy to protein studies. Protein dynamics and protein folding dynamics revealed by time-resolved fluorescence / A. Saxena, J.B. Upgaonkar and G. Krishnamoorthy -- Time-resolved fluorescence and two-photon FCS investigation of the interaction of HIV-1 nucleocapsid protein with hairpin loop oligonucleotides / J. Azoulay ... [et al.] -- Pt. 4. Application of fluorescence spectroscopy to DNA and drug delivery. Fluorescence techniques in non-viral gene therapy / N. Adjimatera, A.P. Neal and I.S. Blagbrough -- Fluorescence applications in targeted drug delivery / K. Bryl and M. Langner -- Pt. 5. Fluorescence spectroscopy in cells: FCS and quantum dots. Fluorescence correlations spectroscopy in cell biology / B. Brock -- Fluorescence quantum dots: properties and applications / M.R. Warnement and S.J. Rosenthal -- Heat stress of cancer cells: fluorescence imaging of structural changes with quantum dots 605 and alexa 488.
- 2008 SpringerWilliams, David M.; Ebach, Malte C.; Nelson, Gareth J.Introduction: Systematics, evolution, and classification -- Systematics as problem solving -- The archetype -- Ernest Haeckel and systematische phylogenie -- The German development of morphology: from Ernest Haeckel to Willie Hanning -- Pattern Cladistics -- Homologues and homology -- Discovering homologues -- Homology and systematics -- Homology and transformation -- Character conflict -- The analyses of relationships -- Biogeograhical relationships, evolution, and classification.
- Functional analyses of HPH1and HPH2 revealed roles in post-translational protein translocation and nutrient translocation and nutrient signaling2010Piña, Francisco Javier; Cyert, Martha S.; Mudgett, Mary Beth; Pringle, John R.; Simoni, Robert.Calcineurin is a Ca2+/calmodulin-dependent serine/threonine protein phosphatase conserved from yeast to mammals required for cell survival during environmental stress in yeast. It dephosphorylates several proteins located in different cellular compartments. Hph1 is a substrate of calcineurin that together with Hph2, its homolog, is also required for cellular adaptation to environmental stress. Hph1 and Hph2 are novel proteins of unknown function. Hph1 and Hph2 are tail-anchored integral ER-membrane proteins and have no identifiable homologs of in other organisms, except closely related yeast species. The goal of this work was to identify proteins that interact with Hph1 and Hph2 to help us identify their biological function. We show that Hph1 and Hph2 interact with the post-translational translocation machinery and are required for Vph1 stability, suggesting that they function in post-translational translocation at the ER. We have found several additional phenotypes for cells lacking HPH1 and HPH2 that overlap with the phenotypes observed for cells that have defects in vacuolar acidification. Hph1, but not Hph2, interacts with Vam6, a guanine-nucleotide-exchange factor, that regulates homotypic vacuolar fusion (through Ypt7) and TORC1 activation (through Gtr1). Interestingly, hph1[Delta] hph2[Delta] cells are resistant to rapamycin, further suggesting a role for these proteins in nutrient signaling. Structure-function analyses revealed that the coiled-coil motif is required for proper Hph1 localization and function, whereas the transmembrane domain is dispensable. This study has advanced our understanding of Hph1 and calcineurin function in regulating the cell's response to environmental stress and paves the way for a mechanistic understanding of Hph1 and Hph2 function in yeast.
- 2005 CRCnetBASEDighton, J.; Oudemans, Peter; White, James F.
- 2001 ScienceDirectCarlile, M. J.; Gooday, G. W.; Watkinson, Sarah C.The fungi as a major group of organisms -- Fungal diversity -- Fungal cells and vegetative growth -- Spores, dormancy and dispersal -- Genetic variation and evolution -- Saprotrophs and ecosystems -- Parasites and mutualistic symbionts -- Fungi and biotechnology -- Glossary of common mycological terms -- Classification of fungi.
- 2006 SpringerBurdyuzha, V.
- 2013 Springer ProtocolsRunning, Mark P.Remarkably, while G protein-coupled receptors (GPCRs) are highly prevalent in animals and yeast, very few candidate GPCRs have been identified in plants. In G Protein-Coupled Receptor Signaling in Plants: Methods and Protocols, experts in the field describe techniques used in the study of small GTPases and related proteins. Beginning with a chapter on bioinformatics approaches for GPCR discovery, this detailed volume continues with chapters on heterotrimeric G protein subunits, Rab-GTPases, as well as lipid modifications, including myristoylation, acylation, and prenylation. 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 on troubleshooting and avoiding known pitfalls. Practical and dependable, G Protein-Coupled Receptor Signaling in Plants: Methods and Protocols aims to aid further studies into the roles of small GTPases which will help elucidate numerous key processes in plants.
- Genetic studies of endocrine function and metabolic regulation by the corpora cardiaca cells in Drosophila melanogaster2011Bustamante, Erika Liliana; Clandinin, Thomas R.; Fuller, Margaret T.; Kim, Seung K.; Tsao, Philip.In humans, the hormones insulin and glucagon are the principal regulators of blood sugar homeostasis. In the fruit fly, Drosophila melanogaster, the regulation of circulating sugar levels is similarly controlled by insulin-like and glucagon-like factors. Insulin signaling in Drosophila has been studied intensively; by contrast, relatively little is known about the genetic regulation of Drosophila Adipokinetic hormone (Akh), the polypeptide with glucagon-like functions, and the corpora cardiaca (CC) cells that produce Akh. Here I describe the use of an enhancer trap screen that led to the identification of a novel regulator of CC function, the homeodomain transcription factor unplugged (unpg). Knocking down unpg in the CC cells results in decreased Akh transcript levels and reduced circulating glucose and trehalose. I also describe the identification of a number of enhancer traps that are capable of driving GFP expression in the CC cells, suggesting a role for the associated genes in CC cell function. As in human diabetes, insulin deficiency in the fruit fly elevates circulating glucose levels and impairs triglyceride regulation. Reduced insulin signaling in Drosophila also increases expression of the adipokine Akh, a phenotype reminiscent of the excessive glucagon signaling that accompanies human diabetes. Thus, it remains unclear if insulin deficiency or adipokine excess is the primary basis for diabetic phenotypes in flies lacking insulin-producing cells. Here I show that simultaneous targeted ablation of cells producing Drosophila insulin and adipokinetic hormone results in hypoglycemia. Mutation of the gene encoding the Akh receptor (Akhr) reduces circulating glucose levels in adult Drosophila lacking insulin, arguing that excessive Akh signaling is the basis for hyperglycemia in insulin-deficient flies. Simultaneous attenuation of insulin and Akh synthesis also produced hypoglycemic flies. Similar approaches revealed triglyceride imbalance from insulin deficiency requires Akh. Thus adipokines like Akh, not insulin, may be the principal hormonal regulators of glucose and lipid balance in some non-mammalian animal classes and states of insulin deficiency.
- 2005 SpringerMauricio, Rodney.
- 2009 SpringerKole, Chittaranjan; Nene, Vishvanath.
- 2008 SpringerHunter, Wayne; Kole, Chittaranjan.Honeybee / D. Schlipalius, P.R. Ebert, G.J. Hunt -- Bumblebee / L. Wilfert, P. Schmid-Hempel, J. Gadau -- The jewel wasp - Nasonia / J. Gadau ... [et al.] -- Silkworm / Y. Yasukochi, H. Fujii, M.R. Goldsmith -- Pea aphid / J.A. Brisson, G.K. Davis -- Mosquito / D.W. Severson -- Hessian fly / J.J. Stuart, M.-S. Chen, M.O. Harris -- Tick / A.J. Ullmann, J.J. Stuart, C.A. Hill.
- 2008 SpringerKocher, Thomas D.; Kole, Chittaranjan.
- 2011Sorrells, Shawn Fletcher; Barres, Ben A.; Dhabhar, Firdaus; Sapolsky, Robert M.; Wyss-Coray, Tony.Glucocorticoids (GCs) are stress hormones that are well-known for their potent and pleiotropic anti-inflammatory effects. In the injured CNS, their anti-inflammatory properties could be particularly beneficial due to the often detrimental effects of excessive inflammation in the brain. In more recent years, however, it has become clear that GCs do not always decrease inflammation and can even augment aspects of the immune response. The research presented in this doctoral dissertation describes the impact of this increased inflammatory response in the CNS using animal models of excitotoxicity and hypoxia/ischemia. Specifically, both exogenous GC treatments and the endogenously released GCs post-injury were found to increase immune cell activation (both in phenotype and in p65 nuclear translocation) in both rat and mouse models of excitotoxic hippocampal neuron death and in a mouse MCAO stroke model. These increased inflammatory responses are likely to be mediated by an unexpected GC-suppression of several anti-inflammatory cytokines including CX3CL1 and CD22 and failure of GCs to activate some of their normal anti-inflammatory targets like IkBa, IL-1ra, and MKP-1. Furthermore, these GC-augmented inflammatory responses are necessary for GCs to make more neurons die from either of these injuries. Taken together, this work demonstrates that cellular inflammation is not kept in check by GCs in the forebrain; instead, GCs worsen hippocampal and cortical neuron death, at least in part, by increasing the neurotoxicity of CNS inflammation.
- 2005 SpringerAxford, John S.Also available: Print – 2005
- 2008 SpringerBarrett, Gary W.; Feldhamer, George A.The golden mouse : a levels-of-organization perspective / Gary W. Barrett -- The golden mouse : taxonomy and natural history / George A. Feldhamer and Donald W. Linzey -- Population ecology of the golden mouse / Robert K. Rose -- Community ecology of the golden mouse / Cory C. Christopher and Guy N. Cameron -- Ecosystem ecology of the golden mouse / Steven W. Seagle -- Landscape ecology of the golden mouse / Jerry O. Wolff and Gary W. Barrett -- Relative abundance and conservation : is the golden mouse a rare species? / George A. Feldhamer and Anita T. Morzillo -- The golden mouse : a model of energetic efficiency / John D. Peles and Gary W. Barrett -- Nesting ecology of the golden mouse : an oikos engineer / Thomas M. Luhring and Gary W. Barrett -- Ectoparasites, bots, and vector-borne diseases associated with the golden mouse / Lance A. Durden -- Aesthetic landscapes of the golden mouse / Terry L. Barrett and Gary W. Barrett -- Future challenges and research opportunities : what do we really know? / Gary W. Barrett and George A. Feldhamer.
- 2008 CRCnetBASEEllison, D. Hank.
- 2013 SpringerWatson, Ronald R.Research and clinical application of vitamin D has increased dramatically over the past decade stimulated by novel health promotion discoveries and documentation. This book brings together key researchers with their views focusing on the health promotion role of vitamin D. Such information is vital to clinicians, users of vitamin D supplements of all ages and those interested in public policy. The authors document and define many of the key health related roles of vitamin D. Its traditional application in bone and muscle health as well as therapy of arthritis is expanded and clarified with new research. A better understanding of the effects of vitamin D inadequacy is modelled using problems ranging from infant growth retardation to chronic kidney and periodontal disease. Uniquely the vitamin?s role in resistance and treatment of infectious diseases is shown in examples ranging from HIV/AIDS to tuberculosis. Mechanistic understanding of vitamin D's actions is enhanced by looking into its effects on immune modulation and inflammation. Expansion of the role of sunlight in stimulating vitamin D production is discussed relative to the reduction in a variety of cancers. Clearly vitamin D is like a two edged sword with great benefits but also some risks. This book provides carefully defined examples of both situations.
- 2007 SpringerNarins, Peter M.Hearing and sound communication in amphibians : prologue and prognostication / Peter M. Narins and Albert S. Feng -- An integrated phylogeny of Amphibia / David Cannatella -- The behavioral ecology of anuran communication / Kentwood D. Wells and Joshua J. Schwartz -- Call production and neural basis of vocalization / Wolfgang Walkowiak -- Recognition and localization of acoustic signals / H. Carl Gerhardt and Mark A. Bee -- Pathways for sound transmission to the inner ear in amphibians / Matthew J. Mason -- Anatomy, physiology, and function of auditory end organs in the frog inner ear / Dwayne D. Simmons, Sebastiaan W.F. Meenderink and Pantelis N. Vassilakis -- Central auditory pathways in anuran amphibians : the anatomical basis of hearing and sound communication / Walter Wilczynski and Heike Endepols -- Function of the amphibian central auditory system / Gary J. Rose and David M. Gooler -- Plasticity in the auditory system across metamorphosis / Andrea Megela Simmons and Seth S. Horowitz -- Sound processing in real-world environments / Albert S. Feng and Johannes Schul.
- 2007 SpringerAlemseged, Zeresenay; Behrensmeyer, Anna K.; Bobe, René.Approaches to the analysis of faunal change during the East African Pliocene / A.K. Behrensmeyer, R. Bobe, and Z. Alemseged -- Environmental hypotheses of Pliocene human evolution / R. Potts -- African Pliocene and Pleistocene cercopithecid evolution and global climatic change / S.R. Frost -- Patterns of change in the Plio-Pleistocene carnivorans of eastern Africa : implications for hominin evolution / M.E. Lewis and L. Werdelin-- Stratigraphic variation in Suidae from the Shungura Formation and some coeval deposits / H.B.S. Cooke -- Patterns of abundance and diversity in late Cenozoic bovids from the Turkana and Hadar Basins, Kenya and Ethiopia / R. Bobe, A.K. Behrensmeyer, G.G. Eck, and J.M. Harris -- Comparability of fossil data and its significance for the interpretation of hominin environments : a case study in the lower Omo Valley, Ethiopia / Z. Alemseged, R. Bobe, and D. Geraads -- The effects of collection strategy and effort on faunal recovery : a case study of the American and French collections from the Shungura Formation, Ethiopia / G.G. Eck -- Serengeti micromammals and their implications for Olduvai paleoenvironments / D.N. Reed -- Taphonomy and paleoecological context of the upper Laetolil Beds (localities 8 and 9), Laetoli in northern Tanzania / C. Musiba, C. Magori, M. Stoller, T. Stein, S. Branting, M. Vogt, R. Tuttle, B. Hallgrímsson, S. Killindo, F. Mizambwa, F. Ndunguru, and A. Mabulla -- The paleoecology of the upper Laetolil Beds at Laetoli : a reconsideration of the large mammal evidence / D.F. Su and T. Harrison -- Fauna, taphonomy, and ecology of the Plio-Pleistocene Chiwondo Beds, northern Malawi / O. Sandrock, O. Kullmer, F. Schrenk, Y.M. Juwayeyi, and T.G. Bromage-- Investigating faunal evidence for hominin paleoecology in East Africa / A.K. Behrensmeyer, Z. Alemseged, and R. Bobe.
- 2006 SpringerBull, Alan T.; Hawksworth, D. L.
- 2010Piccione, Emily C.; Kuo, Calvin Jay; Mitchell, Beverly S.; Sweet-Cordero, E. Alejandro; Wong, Albert J.The epidermal growth factor receptor (EGFR) is essential to multiple physiologic and neoplastic processes via signaling by its tyrosine kinase domain and subsequent activation of transcription factors. We identified a novel splice variant of the EGFR called mini-LEEK (mLEEK) which represents a deletion of exons 2-22 but maintains the open reading frame and generates a novel glycine codon at the junction. This variant deletes the extracytoplasmic domain, transmembrane region, and most of the tyrosine kinase domain of the EGFR. mLEEK is localized to the nucleus in most cells and since it contains a previously characterized strong transactivation domain, we hypothesized that mLEEK functions to regulate transcription. Microarray studies revealed upregulation of several molecular chaperone proteins, including GRP78 (also known as BiP) and GRP94, in response to mLEEK expression. Overexpression of mLEEK resulted in increased transcription from GRP78 and GRP94 luciferase reporter plasmids as well as an increase in endogenous GRP78 and GRP94 protein levels, suggesting a direct effect on transcription. Furthermore, mLEEK utilizes the cis-regulatory ER stress response element (ERSE) found in both the GRP78 and GRP94 promoters to activate transcription as mutation of the ERSE elements in the GRP78 promoter abolishes the activation of transcription by mLEEK. Chromatin immunoprecipitation experiments demonstrate that mLEEK physically interacts in a complex with the ERSE-containing region of the GRP78 promoter. Additionally, mLEEK co-precipitates with ATF6, a transcription factor known to be part of the ERSE-mediated activation of chaperones. Molecular chaperone transcription is induced as a downstream effector of the unfolded protein response (UPR). The UPR is a mechanism that increases the cellular capacity for protein folding. Cellular demands for protein folding increase upon physiological conditions that create endoplasmic reticulum (ER) stress. Interestingly, mLEEK specifically upregulates molecular chaperones required for the UPR and does not activate other arms of the UPR. Splicing of XBP1 precursor mRNA, which is uniquely triggered upon ER stress, was reduced in cells overexpressing mLEEK. Another molecular readout for UPR induction is the activation of CHOP transcription. Cells overexpressing mLEEK demonstrated reduced activation of CHOP transcription in the presence of ER stress inducing agents. Moreover, knockdown of mLEEK results in enhanced sensitivity to ER stress. Collectively, these data suggest that expression of mLEEK and the subsequent upregulation molecular chaperones primes cells to accommodate the increased need for protein folding upon ER stress and prevents induction of the UPR. mLEEK is also essential for cell viability, as mLEEK knockdown lead to reduced viability and increased activation of caspases. We found that mLEEK is present at the RNA and protein level in a high percentage of tumors relative to normal tissue. Preliminary data suggest that mLEEK expression does not lead to transformation of NIH3T3 cells. The potential contribution of mLEEK to tumorigenesis will be revisited in the future using knockdown strategies that were subsequently developed. Other preliminary data have shown that mLEEK is secreted into the media and taken up by neighboring cells, leading to increased GRP94 transcription in recipient cells. Collectively, our work describes the discovery and characterization of a novel EGFR variant. These findings reveal an unexpected function for an EGFR variant and represent a new mechanism for the upregulation of molecular chaperones required for the UPR that could be exploited for therapeutic purposes. Our findings also suggest a potential role for mLEEK in cancer and a novel method of cell communication mediated by a secreted protein. These possibilities await future studies.
- 2008 SpringerHeine, Holger.Evolution of resistance genes in plants / Shunyuan Xiao, Wenming Wang, Xiaohua Yang -- The path less explored: innate immune reactions in Cnidarians / Thomas C. G. Bosch -- Bug versus bug : humoral immune responses in Drosophila melanogaster / Deniz Ertürk-Hasdemir ... [et al.] -- Cellular immune responses in Drosophila melanogaster / Adrienne Ivory, Katherine Randle, Louisa Wu -- Immune reactions in the vertebrates' closest relatives, the urochordates / Konstantin Khalturin, Ulrich Kürn, Thomas C. G. Bosch -- Innate immune system of the zebrafish, Danio rerio / Con Sullivan, Carol H. Kim -- Toll-like receptors in the mammalian innate immune system / Andrei E. Medvedev, Stefanie N. Vogel -- NLRs : a cytosolic armory of microbial sensors linked to human diseases / Mathias Chamaillard -- Antimicrobial peptides as first-line effector molecules of the human innate immune system / Regine Gläser, Jürgen Harder, Jens-Michael Schröder -- The complement system in innate immunity / K. R. Mayilyan ... [et al.].
- 2010 SpringerThany, Steeve Herve.Identification of cholinergic synaptic transmission in the insect nervous system / Steeve Hervé Thany, Hélène Tricoire-Leignel, and Bruno Lapied -- The evolution of pentameric ligand-gated ion channels / Joseph A. Dent -- Diversity of insect nicotinic acetylcholine receptor subunits / Andrew K. Jones and David B. Sattelle -- Identification of critical elements determining toxins and insecticide affinity, ligand binding domains, and channel properties / Hélène Tricoire-Leignel and Steeve Hervé Thany -- Electrophysiological studies and pharmacological properties of insect native nicotinic acetylcholine receptors / Steeve Hervé Thany -- Characterisation of insect nicotinic acetylcholine receptors by heterologous expression / Neil S. Millar and Stuart J. Lansdell -- Neonicotinoid insecticides : historical evolution and resistance mechanisms / Steeve Hervé Thany -- Ecotoxicity of neonicotinoid insecticides to bees / Axel Decourtye and James Devillers -- State of the art on insect nicotinic acetylcholine receptor function in learning and memory / Monique Gauthier.Also available: Print – 2010
- Integration of sensory and reward information during perceptual decision-making in lateral intraparietal cortex (LIP)2011Rorie, Alan E.; Knutson, Brian; Moore, Tirin; Newsome, William T.; Shenoy, Krishna V.The work presented in this dissertation primarily focuses on decision-related activity in the lateral intraparietal area (LIP) and, secondarily, the dorsolateral prefrontal cortex (DLPFC). In Chapter 1 we review the previous independent investigations indicating that these areas are separately modulated by sensory information, value information and choice appropriate to represent decisions. We argue that when both sensory and value information must be simultaneously integrated to make choices, it is unknown, if, how and when these areas integrate these factors. We present a behavioral paradigm in which animal subjects must combine sensory and value information, on a trial-to-trial basis, to make optimal choices. This paradigm is based on a well-known motion discrimination task; however, in our task the magnitude of the reward associated with each option varies from trial to trial. On some trials both options are worth equally large or small rewards. On other trials one option's reward is greater than that of the other. In Chapter 2, we demonstrate that in the unequal reward conditions subjects' choices are consistently biased towards the greater magnitude option. Additionally, we will show that this bias is independent of the motion stimulus strength and its magnitude is nearly optimal. In Chapter 3, we observe that single neurons in cortical area LIP consistently, simultaneously and dynamically represent both sensory and value information. We will argue that this representation supports an integrator model of decision making, in which sensory information is accumulated until the decision is resolved by a threshold crossing. Our results support an interpretation of this model in which value information adjusts the likelihood of a threshold crossing by iv raising or lowering the accumulator's initial state. In Chapter 4, we present a preliminary comparison between LIP and DLPFC activity, under identical conditions, suggesting they play fundamentally different roles in decision making. In Chapter 5, we discuss future lines of research.
- 2010Ouyang, Zhengqing; Feldman, Marcus W.; Petrov, Dmitri A.; Wong, Wing Tak.High-throughput genomics has been increasingly generating the massive amount of genome-wide data. With proper modeling methodologies, we can expect to archive a more comprehensive understanding of the regulatory mechanisms of biological systems. This work presents integrative approaches for the modeling and analysis of gene regulatory systems. In mammals, gene expression regulation is combinatorial in nature, with diverse roles of regulators on target genes. Microarrays (such as Exon Arrays) and RNA-Seq can be used to quantify the whole spectrum of RNA transcripts. ChIP-Seq is being used for the identification of transcription factor (TF) binding sites and histone modification marks. RNA interference (RNAi), coupled with gene expression profiles, allow perturbations of gene regulatory systems. Our approaches extract useful information from those genome-wide measurements for effectively modeling the logic of gene expression regulation. We present a predictive model for the prediction of gene expression from ChIP-Seq signals, based on quantitative modeling of regulator-gene association strength, principal component analysis, and regression-based model selection. We demonstrate the combinatorial regulation of TFs, and their power for explaining genome-wide gene expression variation. We also illustrate the roles of covalent histone modification marks on predicting gene expression and their regulation by TFs. We present a dynamical model of gene expression profiling, and derive the perturbed behaviors of the ordinary differential equation (ODE) system. Based on that, we present a regularized multivariate regression method for inferring the gene regulatory network of a stable cell type. We model the sparsity and stability of the network by a regularization approach. We applied the approaches to both a simulation data set and the RNAi perturbation data in mouse embryonic stem cells.
- 2006 SpringerKönig, Helmut; Varma, A.
- Introducing biological rhythms : a primer on the temporal organization of life, with implications for health, society, reproduction and the natural environment2006 SpringerKoukkari, Willard L.; Sothern, Robert B.The study of biological rhythms -- General features of rhythms : terminology and characteristics -- Physical and biological time -- Photoperiodism -- Biological oscillators and timers : models and mechanisms -- Tidal and lunar rhythms -- Sexuality and reproduction -- Natural resources and agriculture -- Veterinary medicine -- Society -- Clinical medicine -- Autorhythmometry -- Chronobiometry : analyzing for rhythms.
- 2003 WileyPrasad, Paras N.ch. 1. Introduction -- ch. 2. Fundamentals of Light and Matter -- ch. 3. Basics of Biology -- ch. 4. Fundamentals of Light-Matter Interactions -- ch. 5. Principles of Lasers, Current Laser Technology, and Nonlinear -- ch. 6. Photobiology -- ch. 7. Bioimaging: Principles and Techniques -- ch. 8. Bioimaging: Applications -- ch. 9. Biosensors -- ch. 10. Microarray Technology for Genomics and Proteomics -- ch. 11. Flow Cytometry -- ch. 12. Light-Activated Therapy: Photodynamic Therapy -- ch. 13. Tissue Engineering with Light -- ch. 14. Laser Tweezers and Laser Scissors -- ch. 15. Nanotechnology for Biophotonics: Bionanophotonics -- ch. 16. Biomaterials for Photonics.
- 2007 SpringerBarbieri, Marcello.
- 2008 ScienceDirectAllen, Terence D.Also available: Print – 2008
- 2006 CRCnetBASEKohen, Amnon; Limbach, Hans-Heinrich.
- 2014 CRCnetBASEBisen, Prakash S.Microscopy -- Microtome -- pH and Buffers -- Spectrophotometer -- Centrifugation -- Radiation Biology -- Chromatography -- Separation Technology -- Histochemical Techniques -- Cytogenetics -- Biomolecules -- Enzymology -- Membranes -- Photosynthesis and Respiration -- Microbiology -- Soil Biology -- Virology -- Immunochemical Methods -- Genetic Engineering -- Molecular Biology -- Biosensors -- Enzyme Immobilization -- Plant Tissue Culture -- Animal Cell Science and Technology -- Bioprocess Engineering -- Environmental Biology -- Bioinformatics
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