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https://www.readbyqxmd.com/read/28340346/the-upsides-and-downsides-of-organelle-interconnectivity
#1
REVIEW
Daniel E Gottschling, Thomas Nyström
Interconnectivity and feedback control are hallmarks of biological systems. This includes communication between organelles, which allows them to function and adapt to changing cellular environments. While the specific mechanisms for all communications remain opaque, unraveling the wiring of organelle networks is critical to understand how biological systems are built and why they might collapse, as occurs in aging. A comprehensive understanding of all the routes involved in inter-organelle communication is still lacking, but important themes are beginning to emerge, primarily in budding yeast...
March 23, 2017: Cell
https://www.readbyqxmd.com/read/28337996/protein-interaction-evolution-from-promiscuity-to-specificity-with-reduced-flexibility-in-an-increasingly-complex-network
#2
T Alhindi, Z Zhang, P Ruelens, H Coenen, H Degroote, N Iraci, K Geuten
A key question regarding protein evolution is how proteins adapt to the dynamic environment in which they function and how in turn their evolution shapes the protein interaction network. We used extant and resurrected ancestral plant MADS-domain transcription factors to understand how SEPALLATA3, a protein with hub and glue properties, evolved and takes part in network organization. Although the density of dimeric interactions was saturated in the network, many new interactions became mediated by SEPALLATA3 after a whole genome triplication event...
March 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28337802/the-snf1-activating-kinase-sak1-is-a-key-regulator-of-metabolic-adaptation-and-in-vivo-fitness-of-candida-albicans
#3
Bernardo Ramírez-Zavala, Austin Mottola, Julia Haubenreißer, Sabrina Schneider, Stefanie Allert, Sascha Brunke, Knut Ohlsen, Bernhard Hube, Joachim Morschhäuser
The metabolic flexibility of the opportunistic fungal pathogen Candida albicans is important for colonisation and infection of different host niches. Complex regulatory networks, in which protein kinases play central roles, link metabolism and other virulence-associated traits, such as filamentous growth and stress resistance, and thereby control commensalism and pathogenicity. By screening a protein kinase deletion mutant library that was generated in the present work using an improved SAT1 flipper cassette, we found that the previously uncharacterised kinase Sak1 is a key upstream activator of the protein kinase Snf1, a highly conserved regulator of nutrient stress responses that is essential for viability in C...
March 23, 2017: Molecular Microbiology
https://www.readbyqxmd.com/read/28337174/regulation-of-mammalian-physiology-by-interconnected-circadian-and-feeding-rhythms
#4
REVIEW
Florian Atger, Daniel Mauvoisin, Benjamin Weger, Cédric Gobet, Frédéric Gachon
Circadian clocks are endogenous timekeeping systems that adapt in an anticipatory fashion the physiology and behavior of most living organisms. In mammals, the master pacemaker resides in the suprachiasmatic nucleus and entrains peripheral clocks using a wide range of signals that differentially schedule physiology and gene expression in a tissue-specific manner. The peripheral clocks, such as those found in the liver, are particularly sensitive to rhythmic external cues like feeding behavior, which modulate the phase and amplitude of rhythmic gene expression...
2017: Frontiers in Endocrinology
https://www.readbyqxmd.com/read/28325815/neuropathic-pain-promotes-adaptive-changes-in-gene-expression-in-brain-networks-involved-in-stress-and-depression
#5
Giannina Descalzi, Vasiliki Mitsi, Immanuel Purushothaman, Sevasti Gaspari, Kleopatra Avrampou, Yong-Hwee Eddie Loh, Li Shen, Venetia Zachariou
Neuropathic pain is a complex chronic condition characterized by various sensory, cognitive, and affective symptoms. A large percentage of patients with neuropathic pain are also afflicted with depression and anxiety disorders, a pattern that is also seen in animal models. Furthermore, clinical and preclinical studies indicate that chronic pain corresponds with adaptations in several brain networks involved in mood, motivation, and reward. Chronic stress is also a major risk factor for depression. We investigated whether chronic pain and stress affect similar molecular mechanisms and whether chronic pain can affect gene expression patterns that are involved in depression...
March 21, 2017: Science Signaling
https://www.readbyqxmd.com/read/28325216/an-update-on-src-family-of-nonreceptor-tyrosine-kinases-biology
#6
J Espada, J Martín-Pérez
The members of the Src family of nonreceptor tyrosine kinases (SFKs) are implicated in multiple signaling processes that regulate key cellular functions, including proliferation, migration, differentiation, and survival. SFKs are activated by a large number of receptors for growth factors, cytokines, steroid hormones, G protein-coupled receptors, and also by adhesion proteins and other signaling partners. Through their common modular kinase an adapter protein domains, SFKs critically contribute to diversify different signal inputs, weaving a complex and dynamic network of cellular responses...
2017: International Review of Cell and Molecular Biology
https://www.readbyqxmd.com/read/28322823/generating-tissue-topology-through-remodeling-of-cell-cell-adhesions
#7
REVIEW
Katharine Goodwin, Celeste M Nelson
During tissue morphogenesis, cellular rearrangements give rise to a large variety of three-dimensional structures. Final tissue architecture varies greatly across organs, and many develop to include combinations of folds, tubes, and branched networks. To achieve these different tissue geometries, constituent cells must follow different programs that dictate changes in shape and/or migratory behavior. One essential component of these changes is the remodeling of cell-cell adhesions. Invasive migratory behavior and separation between tissues require localized breakdown of cadherin-mediated adhesions...
March 16, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/28321132/the-outcomes-of-health-promoting-communities-being-active-eating-well-initiative-a-community-based-obesity-prevention-intervention-in-victoria-australia
#8
K A Bolton, P Kremer, L Gibbs, E Waters, B Swinburn, A de Silva
OBJECTIVE: To evaluate the impact of the Health Promoting Communities: Being Active Eating Well (HPC:BAEW, 2007-2010) initiative which comprised of community-based multi-component interventions adapted to community context in five separate communities. The intervention aimed to promote healthy eating, physical activity and stronger, healthier communities. METHODS: A mixed method and multi-level quasi-experimental evaluation of the HPC:BAEW initiative captured process, impact and outcome data...
March 21, 2017: International Journal of Obesity: Journal of the International Association for the Study of Obesity
https://www.readbyqxmd.com/read/28320679/synchronization-of-coupled-reaction-diffusion-neural-networks-with-directed-topology-via-an-adaptive-approach
#9
Hao Zhang, Yin Sheng, Zhigang Zeng
This paper investigates the synchronization issue of coupled reaction-diffusion neural networks with directed topology via an adaptive approach. Due to the complexity of the network structure and the presence of space variables, it is difficult to design proper adaptive strategies on coupling weights to accomplish the synchronous goal. Under the assumptions of two kinds of special network structures, that is, directed spanning path and directed spanning tree, some novel edge-based adaptive laws, which utilized the local information of node dynamics fully are designed on the coupling weights for reaching synchronization...
March 15, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28320311/a-receptor-based-analysis-of-local-ecosystems-in-the-human-brain
#10
Skirmantas Janušonis
BACKGROUND: As a complex system, the brain is a self-organizing entity that depends on local interactions among cells. Its regions (anatomically defined nuclei and areas) can be conceptualized as cellular ecosystems, but the similarity of their functional profiles is poorly understood. The study used the Allen Human Brain Atlas to classify 169 brain regions into hierarchically-organized environments based on their expression of 100 G protein-coupled neurotransmitter receptors, with no a priori reference to the regions' positions in the brain's anatomy or function...
March 20, 2017: BMC Neuroscience
https://www.readbyqxmd.com/read/28318522/prognostic-stratification-and-healthcare-approach-in-patients-with-multiple-pathologies
#11
M Bernabeu-Wittel, B Barón-Franco, D Nieto-Martín, L Moreno-Gaviño, N Ramírez-Duque, M Ollero-Baturone
Polypathological patients constitute a prevalent, fairly homogeneous population, which is characterised by high clinical complexity, substantial vulnerability and significant resource consumption, in addition to high mortality and the need for comprehensive, coordinated care. It is particularly important to establish a reliable prognosis in these patients. It is also extremely useful for professionals involved in the decision-making process for patients and their families in vital planning and their preferences, for strategic health planning in management fields, and for clinical research, by facilitating their incorporation into clinical trials and other intervention studies...
March 16, 2017: Revista Clínica Española
https://www.readbyqxmd.com/read/28315308/target-specific-alterations-in-the-vip-inhibitory-drive-to-hippocampal-gabaergic-cells-after-status-epilepticus
#12
Linda Suzanne David, Lisa Topolnik
Status epilepticus (SE) is associated with complex reorganization of hippocampal circuits involving a significant loss of specific subtypes of GABAergic interneurons. While adaptive circuit plasticity may increase the chances for recruitment of surviving interneurons, the underlying mechanisms remain largely unknown. We studied the alterations in the inhibitory tone received by the hippocampal CA1 oriens/alveus (O/A) interneurons from the vasoactive intestinal peptide (VIP)- and calretinin (CR)-expressing interneurons using the pilocarpine-induced status epilepticus (SE) model of epilepsy...
March 15, 2017: Experimental Neurology
https://www.readbyqxmd.com/read/28314196/governance-and-management-dynamics-of-landscape-restoration-at-multiple-scales-learning-from-successful-environmental-managers-in-sweden
#13
Lucas Dawson, Marine Elbakidze, Per Angelstam, Johanna Gordon
Due to a long history of intensive land and water use, habitat networks for biodiversity conservation are generally degraded in Sweden. Landscape restoration (LR) is an important strategy for achieving representative and functional green infrastructures. However, outcomes of LR efforts are poorly studied, particularly the dynamics of LR governance and management. We apply systems thinking methods to a series of LR case studies to analyse the causal structures underlying LR governance and management in Sweden...
March 14, 2017: Journal of Environmental Management
https://www.readbyqxmd.com/read/28302069/bioinformatics-identification-of-new-targets-for-improving-low-temperature-stress-tolerance-in-spring-and-winter-wheat
#14
Alain B Tchagang, François Fauteux, Dan Tulpan, Youlian Pan
BACKGROUND: Phenotypic studies in Triticeae have shown that low temperature-induced protective mechanisms are developmentally regulated and involve dynamic acclimation processes. Understanding these mechanisms is important for breeding cold-resistant wheat cultivars. In this study, we combined three computational techniques for the analysis of gene expression data from spring and winter wheat cultivars subjected to low temperature treatments. Our main objective was to construct a comprehensive network of cold response transcriptional events in wheat, and to identify novel cold tolerance candidate genes in wheat...
March 16, 2017: BMC Bioinformatics
https://www.readbyqxmd.com/read/28300762/an-approach-to-automated-fusion-system-design-and-adaptation
#15
Alexander Fritze, Uwe Mönks, Christoph-Alexander Holst, Volker Lohweg
Industrial applications are in transition towards modular and flexible architectures that are capable of self-configuration and -optimisation. This is due to the demand of mass customisation and the increasing complexity of industrial systems. The conversion to modular systems is related to challenges in all disciplines. Consequently, diverse tasks such as information processing, extensive networking, or system monitoring using sensor and information fusion systems need to be reconsidered. The focus of this contribution is on distributed sensor and information fusion systems for system monitoring, which must reflect the increasing flexibility of fusion systems...
March 16, 2017: Sensors
https://www.readbyqxmd.com/read/28298493/deubiquitinating-enzymes-ubp2-and-ubp15-regulate-endocytosis-by-limiting-ubiquitination-and-degradation-of-arts
#16
Hsuan-Chung Ho, Jason A MacGurn, Scott D Emr
Endocytic downregulation of cell-surface proteins is a fundamental cellular process for cell survival and adaptation to environmental stimuli. Ubiquitination of cargo proteins serves as the sorting signal for downstream trafficking, and relies on the Rsp5-ART (arrestin-related trafficking adaptors) ubiquitin ligase adaptor network in yeast. Hence, proper regulation of the abundance and activity of these ligase-adaptor complexes is critical for maintenance of optimal plasma membrane (PM) protein composition...
March 15, 2017: Molecular Biology of the Cell
https://www.readbyqxmd.com/read/28298429/speciation-network-in-laurasiatheria-retrophylogenomic-signals
#17
Liliya Doronina, Gennady Churakov, Andrej Kuritzin, Jingjing Shi, Robert Baertsch, Hiram Clawson, Juergen Schmitz
Rapid species radiation due to adaptive changes or occupation of new ecospaces challenges our understanding of ancestral speciation and the relationships of modern species. At the molecular level, rapid radiation with successive speciations over short time periods - too short to fix polymorphic alleles - is described as incomplete lineage sorting. Incomplete lineage sorting leads to random fixation of genetic markers and hence random signals of relationships in phylogenetic reconstructions. The situation is further complicated when you consider that the genome is a mosaic of ancestral and modern incompletely sorted sequence blocks that leads to reconstructed affiliations to one or the other relatives depending on the fixation of their shared ancestral polymorphic alleles...
March 15, 2017: Genome Research
https://www.readbyqxmd.com/read/28293236/interferon-lambda-modulating-immunity-in-infectious-diseases
#18
REVIEW
Mohammedyaseen Syedbasha, Adrian Egli
Interferon lambdas (IFN-λs; IFNL1-4) modulate immunity in the context of infections and autoimmune diseases, through a network of induced genes. IFN-λs act by binding to the heterodimeric IFN-λ receptor (IFNLR), activating a STAT phosphorylation-dependent signaling cascade. Thereby hundreds of IFN-stimulated genes are induced, which modulate various immune functions via complex forward and feedback loops. When compared to the well-characterized IFN-α signaling cascade, three important differences have been discovered...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28292312/comprehensive-discovery-of-subsample-gene-expression-components-by-information-explanation-therapeutic-implications-in-cancer
#19
Shirley Pepke, Greg Ver Steeg
BACKGROUND: De novo inference of clinically relevant gene function relationships from tumor RNA-seq remains a challenging task. Current methods typically either partition patient samples into a few subtypes or rely upon analysis of pairwise gene correlations that will miss some groups in noisy data. Leveraging higher dimensional information can be expected to increase the power to discern targetable pathways, but this is commonly thought to be an intractable computational problem. METHODS: In this work we adapt a recently developed machine learning algorithm for sensitive detection of complex gene relationships...
March 15, 2017: BMC Medical Genomics
https://www.readbyqxmd.com/read/28287488/characterization-of-industrial-coolant-fluids-and-continuous-ageing-monitoring-by-wireless-node-enabled-fiber-optic-sensors
#20
Alexandros El Sachat, Anastasia Meristoudi, Christos Markos, Andreas Sakellariou, Aggelos Papadopoulos, Serafim Katsikas, Christos Riziotis
Environmentally robust chemical sensors for monitoring industrial processes or infrastructures are lately becoming important devices in industry. Low complexity and wireless enabled characteristics can offer the required flexibility for sensor deployment in adaptable sensing networks for continuous monitoring and management of industrial assets. Here are presented the design, development and operation of a class of low cost photonic sensors for monitoring the ageing process and the operational characteristics of coolant fluids used in an industrial heavy machinery infrastructure...
March 11, 2017: Sensors
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