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Biochemical Society Transactions

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https://www.readbyqxmd.com/read/29150528/autophagy-in-the-context-of-the-cellular-membrane-trafficking-system-the-enigma-of-atg9-vesicles
#1
REVIEW
Takeshi Noda
Macroautophagy is an intracellular degradation system that involves the de novo formation of membrane structures called autophagosomes, although the detailed process by which membrane lipids are supplied during autophagosome formation is yet to be elucidated. Macroautophagy is thought to be associated with canonical membrane trafficking, but several mechanistic details are still missing. In this review, the current understanding and potential mechanisms by which membrane trafficking participates in macroautophagy are described, with a focus on the enigma of the membrane protein Atg9, for which the proximal mechanisms determining its movement are disputable, despite its key role in autophagosome formation...
November 17, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29150527/transcriptional-regulators-of-redox-balance-and-other-homeostatic-processes-with-the-potential-to-alter-neurodegenerative-disease-trajectory
#2
REVIEW
Scott W Burnside, Giles E Hardingham
Diverse neurodegenerative diseases share some common aspects to their pathology, with many showing evidence of disruption to the brain's numerous homeostatic processes. As such, imbalanced inflammatory status, glutamate dyshomeostasis, hypometabolism and oxidative stress are implicated in many disorders. That these pathological processes can influence each other both up- and downstream makes for a complicated picture, but means that successfully targeting one area may have an effect on others. This targeting requires an understanding of the mechanisms by which homeostasis is maintained during health, in order to uncover strategies to boost homeostasis in disease...
November 17, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29150526/the-devil-is-in-the-domain-understanding-protein-recognition-of-multiple-rna-targets
#3
REVIEW
Glen R Gronland, Andres Ramos
RNA regulation provides a finely tuned and highly co-ordinated control of gene expression. Regulation is mediated by hundreds to thousands of multi-functional RNA-binding proteins which often interact with large sets of RNAs. In this brief review, we focus on a recent work that highlights how the proteins use multiple RNA-binding domains to interact selectively with the different RNA targets. Deconvoluting the molecular complexity of the RNA regulatory network is essential to understanding cell differentiation and function, and requires accurate models for protein-RNA recognition and protein target selectivity...
November 17, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29150525/distinct-rna-unwinding-mechanisms-of-dead-box-and-deah-box-rna-helicase-proteins-in-remodeling-structured-rnas-and-rnps
#4
REVIEW
Benjamin Gilman, Pilar Tijerina, Rick Russell
Structured RNAs and RNA-protein complexes (RNPs) fold through complex pathways that are replete with misfolded traps, and many RNAs and RNPs undergo extensive conformational changes during their functional cycles. These folding steps and conformational transitions are frequently promoted by RNA chaperone proteins, notably by superfamily 2 (SF2) RNA helicase proteins. The two largest families of SF2 helicases, DEAD-box and DEAH-box proteins, share evolutionarily conserved helicase cores, but unwind RNA helices through distinct mechanisms...
November 17, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29150524/breaking-the-scale-how-disrupting-the-karyoplasmic-ratio-gives-cancer-cells-an-advantage-for-metastatic-invasion
#5
REVIEW
Andrea Rizzotto, Eric C Schirmer
Nuclear size normally scales with the size of the cell, but in cancer this 'karyoplasmic ratio' is disrupted. This is particularly so in more metastatic tumors where changes in the karyoplasmic ratio are used in both diagnosis and prognosis for several tumor types. However, the direction of nuclear size changes differs for particular tumor types: for example in breast cancer, larger nuclear size correlates with increased metastasis, while for lung cancer smaller nuclear size correlates with increased metastasis...
November 17, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29127216/emerging-candidate-treatment-strategies-for-hutchinson-gilford-progeria-syndrome
#6
REVIEW
Charlotte Strandgren, Gwladys Revêchon, Agustín Sola Carvajal, Maria Eriksson
Hutchinson-Gilford progeria syndrome (HGPS, progeria) is an extremely rare premature aging disorder affecting children, with a disease incidence of ∼1 in 18 million individuals. HGPS is usually caused by a de novo point mutation in exon 11 of the LMNA gene (c.1824C>T, p.G608G), resulting in the increased usage of a cryptic splice site and production of a truncated unprocessed lamin A protein named progerin. Since the genetic cause for HGPS was published in 2003, numerous potential treatment options have rapidly emerged...
November 10, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29101310/snare-phosphorylation-a-control-mechanism-for-insulin-stimulated-glucose-transport-and-other-regulated-exocytic-events
#7
REVIEW
Kamilla M E Laidlaw, Rachel Livingstone, Mohammed Al-Tobi, Nia J Bryant, Gwyn W Gould
Trafficking within eukaryotic cells is a complex and highly regulated process; events such as recycling of plasma membrane receptors, formation of multivesicular bodies, regulated release of hormones and delivery of proteins to membranes all require directionality and specificity. The underpinning processes, including cargo selection, membrane fusion, trafficking flow and timing, are controlled by a variety of molecular mechanisms and engage multiple families of lipids and proteins. Here, we will focus on control of trafficking processes via the action of the SNARE (soluble N-ethylmaleimide-sensitive factor attachment protein receptor) family of proteins, in particular their regulation by phosphorylation...
November 3, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29101309/biochemical-targets-of-drugs-mitigating-oxidative-stress-via-redox-independent-mechanisms
#8
REVIEW
Bernd Gesslbauer, Valery Bochkov
Acute or chronic oxidative stress plays an important role in many pathologies. Two opposite approaches are typically used to prevent the damage induced by reactive oxygen and nitrogen species (RONS), namely treatment either with antioxidants or with weak oxidants that up-regulate endogenous antioxidant mechanisms. This review discusses options for the third pharmacological approach, namely amelioration of oxidative stress by 'redox-inert' compounds, which do not inactivate RONS but either inhibit the basic mechanisms leading to their formation (i...
November 3, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29101308/impact-of-bacterial-srnas-in-stress-responses
#9
REVIEW
Erik Holmqvist, E Gerhart H Wagner
Bacterial life is harsh and involves numerous environmental and internal challenges that are perceived as stresses. Consequently, adequate responses to survive, cope with, and counteract stress conditions have evolved. In the last few decades, a class of small, non-coding RNAs (sRNAs) has been shown to be involved as key players in stress responses. This review will discuss - primarily from an enterobacterial perspective - selected stress response pathways that involve antisense-type sRNAs. These include themes of how bacteria deal with severe envelope stress, threats of DNA damage, problems with poisoning due to toxic sugar intermediates, issues of iron homeostasis, and nutrient limitation/starvation...
November 3, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29101307/combining-high-resolution-cryo-electron-microscopy-and-mutagenesis-to-develop-cowpea-mosaic-virus-for-bionanotechnology
#10
REVIEW
Yulia Meshcheriakova, Alex Durrant, Emma L Hesketh, Neil A Ranson, George P Lomonossoff
Particles of cowpea mosaic virus (CPMV) have enjoyed considerable success as nanoparticles. The development of a system for producing empty virus-like particles (eVLPs) of the virus, which are non-infectious and have the potential to be loaded with heterologous material, has increased the number of possible applications for CPMV-based particles. However, for this potential to be realised, it was essential to demonstrate that eVLPs were accurate surrogates for natural virus particles, and this information was provided by high-resolution cryo-EM studies of eVLPs...
November 3, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29079648/regulated-intramembrane-proteolysis-emergent-role-in-cell-signalling-pathways
#11
REVIEW
Aonghus J McCarthy, Caroline Coleman-Vaughan, Justin V McCarthy
Receptor signalling events including those initiated following activation of cytokine and growth factor receptors and the well-characterised death receptors (tumour necrosis factor receptor, type 1, FasR and TRAIL-R1/2) are initiated at the cell surface through the recruitment and formation of intracellular multiprotein signalling complexes that activate divergent signalling pathways. Over the past decade, research studies reveal that many of these receptor-initiated signalling events involve the sequential proteolysis of specific receptors by membrane-bound proteases and the γ-secretase protease complexes...
October 27, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29054926/biomolecular-coevolution-and-its-applications-going-from-structure-prediction-toward-signaling-epistasis-and-function
#12
REVIEW
Mehari B Zerihun, Alexander Schug
Evolution leads to considerable changes in the sequence of biomolecules, while their overall structure and function remain quite conserved. The wealth of genomic sequences, the 'Biological Big Data', modern sequencing techniques provide allows us to investigate biomolecular evolution with unprecedented detail. Sophisticated statistical models can infer residue pair mutations resulting from spatial proximity. The introduction of predicted spatial adjacencies as constraints in biomolecular structure prediction workflows has transformed the field of protein and RNA structure prediction toward accuracies approaching the experimental resolution limit...
October 20, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29054925/platelet-mitochondrial-dysfunction-and-the-correlation-with-human-diseases
#13
REVIEW
Li Wang, Qiang Wu, Zhijia Fan, Rufeng Xie, Zhicheng Wang, Yuan Lu
The platelet is considered as an accessible and valuable tool to study mitochondrial function, owing to its greater content of fully functional mitochondria compared with other metabolically active organelles. Different lines of studies have demonstrated that mitochondria in platelets have function far more than thrombogenesis regulation, and beyond hemostasis, platelet mitochondrial dysfunction has also been used for studying mitochondrial-related diseases. In this review, the interplay between platelet mitochondrial dysfunction and oxidative stress, mitochondrial DNA lesions, electron transfer chain impairments, mitochondrial apoptosis and mitophagy has been outlined...
October 20, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28939694/g-quadruplex-unwinding-helicases-and-their-function-in-vivo
#14
REVIEW
Markus Sauer, Katrin Paeschke
The concept that G-quadruplex (G4) structures can form within DNA or RNA in vitro has been long known and extensively discussed. In recent years, accumulating evidences imply that G-quadruplex structures form in vivo Initially, inefficient regulation of G-quadruplex structures was mainly associated with genome instability. However, due to the location of G-quadruplex motifs and their evolutionary conservation, different cellular functions of these structures have been postulated (e.g. in telomere maintenance, DNA replication, transcription, and translation)...
September 22, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28939693/mass-spectrometry-techniques-for-studying-the-ubiquitin-system
#15
REVIEW
Rachel E Heap, Megan S Gant, Frederic Lamoliatte, Julien Peltier, Matthias Trost
Post-translational control of proteins through covalent attachment of ubiquitin plays important roles in all eukaryotic cell functions. The ubiquitin system in humans consists of 2 E1, 35 E2 and >600 E3 ubiquitin ligases as well as hundreds of deubiquitylases, which reverse ubiquitin attachment. Moreover, there are hundreds of proteins with ubiquitin-binding domains that bind one of the eight possible polyubiquitin chains. Dysfunction of the ubiquitin system is associated with many diseases such as cancer, autoimmunity and neurodegeneration, demonstrating the importance of ubiquitylation...
September 22, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28939692/long-and-small-noncoding-rnas-during-oocyte-to-embryo-transition-in-mammals
#16
REVIEW
Petr Svoboda
Oocyte-to-embryo transition is a process during which an oocyte ovulates, is fertilized, and becomes a developing embryo. It involves the first major genome reprogramming event in life of an organism where gene expression, which gave rise to a differentiated oocyte, is remodeled in order to establish totipotency in blastomeres of an early embryo. This remodeling involves replacement of maternal RNAs with zygotic RNAs through maternal RNA degradation and zygotic genome activation. This review is focused on expression and function of long noncoding RNAs (lncRNAs) and small RNAs during oocyte-to-embryo transition in mammals...
September 22, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/29038349/correction-how-tetraspanins-shape-endothelial-and-leukocyte-nano-architecture-during-inflammation
#17
Jonas Franz, Marco Tarantola, Christoph Riethmüller
No abstract text is available yet for this article.
October 15, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28939695/oxidative-stress-and-endoplasmic-reticulum-er-stress-in-the-development-of-neonatal-hypoxic-ischaemic-brain-injury
#18
REVIEW
Claire Thornton, Ana A Baburamani, Anton Kichev, Henrik Hagberg
Birth asphyxia in term neonates affects 1-2/1000 live births and results in the development of hypoxic-ischaemic encephalopathy with devastating life-long consequences. The majority of neuronal cell death occurs with a delay, providing the potential of a treatment window within which to act. Currently, treatment options are limited to therapeutic hypothermia which is not universally successful. To identify new interventions, we need to understand the molecular mechanisms underlying the injury. Here, we provide an overview of the contribution of both oxidative stress and endoplasmic reticulum stress in the development of neonatal brain injury and identify current preclinical therapeutic strategies...
October 15, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28900017/omega-3-fatty-acids-and-inflammatory-processes-from-molecules-to-man
#19
REVIEW
Philip C Calder
Inappropriate, excessive or uncontrolled inflammation contributes to a range of human diseases. Inflammation involves a multitude of cell types, chemical mediators and interactions. The present article will describe nutritional and metabolic aspects of omega-6 (n-6) and omega-3 (n-3) fatty acids and explain the roles of bioactive members of those fatty acid families in inflammatory processes. Eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA) are n-3 fatty acids found in oily fish and fish oil supplements...
October 15, 2017: Biochemical Society Transactions
https://www.readbyqxmd.com/read/28900016/geometries-of-vasculature-bifurcation-can-affect-the-level-of-trophic-damage-during-formation-of-a-brain-ischemic-lesion
#20
REVIEW
Yaroslav R Nartsissov
Ischemic lesion is a common cause of various diseases in humans. Brain tissue is especially sensitive to this type of damage. A common reason for the appearance of an ischemic area is a stop in blood flow in some branch of the vasculature system. Then, a decreasing concentration gradient results in a low mean level of oxygen in surrounding tissues. After that, the biochemical ischemic cascade spreads. In this review, we examine these well-known events from a new angle. It is stressed that there is essential evidence to predict the formation of an ischemic micro-area at the base of vascular bifurcation geometries...
October 15, 2017: Biochemical Society Transactions
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