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Protein turnover

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https://www.readbyqxmd.com/read/28214775/role-of-c-di-gmp-in-anammox-aggregation-and-systematic-analysis-of-its-turnover-protein-in-candidatus-jettenia-caeni
#1
Yongzhao Guo, Sitong Liu, Xi Tang, Fenglin Yang
The anaerobic ammonium oxidation (anammox) process has been recognized as a promising sewage treatment approach. Considering the susceptibility, it is meaningful to study the behaviors of anammox bacteria under the unfavorable conditions. Here, we found that anammox bacteria more probably tended to aggregation by the regulation of c-di-GMP against the unfavorable environmental stresses (low temperature, aerobic condition and low pH). Further using multiple protein sequence alignment, we systematically examined the functionality of thirteen genes encoding putative c-di-GMP metabolic enzymes in anammox organism Candidatus Jettenia caeni, revealing most of the predicted enzymes were predicted to be active...
February 12, 2017: Water Research
https://www.readbyqxmd.com/read/28213435/genetics-of-synucleinopathies
#2
Robert L Nussbaum
Parkinson's disease (PD), diffuse Lewy body disease (DLBD), and multiple system atrophy (MSA) constitute the three major neurodegenerative disorders referred to as synucleinopathies because both genetic and pathological results implicate the α-synuclein protein in their pathogenesis. PD and DLBD are recognized as closely related diseases with substantial clinical and pathological overlap. MSA, on the other hand, has a distinctive clinical presentation and neuropathological profile. In this review, we will summarize the evidence linking α-synuclein to these three disorders...
February 17, 2017: Cold Spring Harbor Perspectives in Medicine
https://www.readbyqxmd.com/read/28213157/presynaptic-protein-homeostasis-and-neuronal-function
#3
REVIEW
Yu-Chun Wang, Elsa Lauwers, Patrik Verstreken
Proteome integrity is maintained by a coordinated network of molecular chaperones, by protein degradation machineries and by their regulators. Numerous human pathologies are considered as diseases of compromised protein homeostasis (proteostasis), including neurodegeneration. These are characterized by the accumulation of neuronal protein aggregates and by synaptic defects followed by loss of connectivity and cell death. While this suggests that synaptic terminals are particularly sensitive to proteostasis imbalance, our understanding of protein turnover mechanisms and regulation at the synapse remains limited...
February 14, 2017: Current Opinion in Genetics & Development
https://www.readbyqxmd.com/read/28212453/bone-morphogenetic-protein-2-hybridized-with-nano-anchored-oligonucleotides-on-titanium-implants-enhances-osteogenic-differentiation-in-vivo
#4
Florian Böhrnsen, Jennifer Rublack, Nelia Aeckerle, Anne Foerster, Bernd Schwenzer, Judith Reichert, Dieter Scharnweber, Henning Schliephake
PURPOSE: Previous in vitro studies have shown that DNA oligonucleotides (ODN) can be successfully used as anchor strands for the binding and retarded release of biologically active recombinant human bone morphogenetic protein 2 (rhBMP-2). The aim of the present study was to test the hypothesis that rhBMP-2 bound to the surface of titanium implants through hybridization with nano-anchored ODN strands is biologically active and can enhance the induction of osteogenic markers in peri-implant bone in vivo...
February 17, 2017: International Journal of Oral & Maxillofacial Implants
https://www.readbyqxmd.com/read/28211118/transcriptional-and-cell-cycle-alterations-mark-aging-of-primary-human-adipose-derived-stem-cells
#5
Xiaoyin Shan, Cleresa Roberts, Eun Ji Kim, Ariana Brenner, Gregory Grant, Ivona Percec
Adult stem cells play a critical role in the maintenance of tissue homeostasis and prevention of aging. While the regenerative potential of stem cells with low cellular turnover, such as adipose-derived stem cells (ASC), is increasingly recognized, the study of chronological aging in ASCs is technically difficult, and remains poorly understood. Here, we employ our model of chronological aging in primary human ASCs to examine genome-wide transcriptional networks. We demonstrate first that the transcriptome of aging ASCs is distinctly more stable than that of age-matched fibroblasts, and further, that age-dependent modifications in cell cycle progression and translation initiation specifically characterize aging ASCs in conjunction with increased nascent protein synthesis and a distinctly shortened G1 phase...
February 17, 2017: Stem Cells
https://www.readbyqxmd.com/read/28210224/skin-mucus-of-gilthead-sea-bream-sparus-aurata-l-protein-mapping-and-regulation-in-chronically-stressed-fish
#6
Jaume Pérez-Sánchez, Genciana Terova, Paula Simó-Mirabet, Simona Rimoldi, Ole Folkedal, Josep A Calduch-Giner, Rolf E Olsen, Ariadna Sitjà-Bobadilla
The skin mucus of gilthead sea bream was mapped by one-dimensional gel electrophoresis followed by liquid chromatography coupled to high resolution mass spectrometry using a quadrupole time-of-flight mass analyzer. More than 2,000 proteins were identified with a protein score filter of 30. The identified proteins were represented in 418 canonical pathways of the Ingenuity Pathway software. After filtering by canonical pathway overlapping, the retained proteins were clustered in three groups. The mitochondrial cluster contained 59 proteins related to oxidative phosphorylation and mitochondrial dysfunction...
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28202692/localization-of-phosphorylated-connexin-43-by-serial-section-immunogold-electron-microscopy
#7
Rachael P Norris, Valentina Baena, Mark Terasaki
Gap junction turnover occurs by the internalization of both plasma membranes of a gap junction plaque to form a double membrane-enclosed vesicle, or connexosome. Phosphorylation has a key role in regulation, but further progress requires clearly distinguishing gap junctions and connexosomes and precisely localizing proteins to them. We examined by electron microscopy serial sections of mouse preovulatory ovarian follicles collected with an automated tape collecting ultramicrotome (ATUM). We found connexosomes may form from adjacent cell bodies, from thin cell processes, or from the same cell...
February 15, 2017: Journal of Cell Science
https://www.readbyqxmd.com/read/28195333/arabidopsis-e3-ubiquitin-ligase-plant-u-box13-pub13-regulates-chitin-receptor-lysin-motif-receptor-kinase5-lyk5-protein-abundance
#8
Dehua Liao, Yangrong Cao, Xun Sun, Catherine Espinoza, Cuong T Nguyen, Yan Liang, Gary Stacey
Long-chain chitooligosaccharides are fungal microbe-associated molecular patterns (MAMPs) that are recognized by LYSIN MOTIF RECEPTOR KINASE5 (LYK5), inducing the formation of a complex with CHITIN ELICITOR RECEPTOR KINASE1 (CERK1). Formation of this complex leads to activation of the CERK1 intracellular kinase domain and induction of plant innate immunity in Arabidopsis. We found that addition of chitooctaose induced LYK5 protein accumulation as a result of de novo gene expression and the inhibition of LYK5 protein degradation...
February 14, 2017: New Phytologist
https://www.readbyqxmd.com/read/28195199/pemafibrate-a-novel-selective-peroxisome-proliferator-activated-receptor-alpha-modulator-improves-the-pathogenesis-in-a-rodent-model-of-nonalcoholic-steatohepatitis
#9
Yasushi Honda, Takaomi Kessoku, Yuji Ogawa, Wataru Tomeno, Kento Imajo, Koji Fujita, Masato Yoneda, Toshiaki Takizawa, Satoru Saito, Yoji Nagashima, Atsushi Nakajima
The efficacy of peroxisome proliferator-activated receptor α-agonists (e.g., fibrates) against nonalcoholic fatty liver disease (NAFLD)/nonalcoholic steatohepatitis (NASH) in humans is not known. Pemafibrate is a novel selective peroxisome proliferator-activated receptor α modulator that can maximize the beneficial effects and minimize the adverse effects of fibrates used currently. In a phase-2 study, pemafibrate was shown to improve liver dysfunction in patients with dyslipidaemia. In the present study, we first investigated the effect of pemafibrate on rodent models of NASH...
February 14, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28193857/mass-spectrometry-based-cross-linking-study-shows-that-the-psb28-protein-binds-to-cytochrome-b559-in-photosystem-ii
#10
Daniel A Weisz, Haijun Liu, Hao Zhang, Sundarapandian Thangapandian, Emad Tajkhorshid, Michael L Gross, Himadri B Pakrasi
Photosystem II (PSII), a large pigment protein complex, undergoes rapid turnover under natural conditions. During assembly of PSII, oxidative damage to vulnerable assembly intermediate complexes must be prevented. Psb28, the only cytoplasmic extrinsic protein in PSII, protects the RC47 assembly intermediate of PSII and assists its efficient conversion into functional PSII. Its role is particularly important under stress conditions when PSII damage occurs frequently. Psb28 is not found, however, in any PSII crystal structure, and its structural location has remained unknown...
February 13, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28192730/inducible-turnover-of-optineurin-regulates-t-cell-activation
#11
Angela Montecalvo, Simon C Watkins, Jordan Orange, Lawrence P Kane
Optineurin (Optn) is an adaptor protein with homology to NF-κB essential modulator (NEMO), the regulatory subunit of the IκB kinase (IKK) complex. Dysregulation of Optn has been linked to neurodegenerative, autoimmune and bone diseases. Optn shares a high degree of homology with NEMO, but is not part of the same high-molecular weight complex containing IKKα and IKKβ. Despite its homology with NEMO and the fact that it has been the subject of extensive study in several cell types, there are no published studies addressing the role of Optn during T cell activation...
February 10, 2017: Molecular Immunology
https://www.readbyqxmd.com/read/28188928/the-papain-like-cysteine-proteinases-nbcysp6-and-nbcysp7-are-highly-processive-enzymes-with-substrate-specificities-complementary-to-nicotiana-benthamiana-cathepsin-b
#12
Melanie Paireder, Stefan Tholen, Andreas Porodko, Martin L Biniossek, Bettina Mayer, Marko Novinec, Oliver Schilling, Lukas Mach
The tobacco-related plant Nicotiana benthamiana is gaining interest as a versatile host for the production of monoclonal antibodies and other protein therapeutics. However, the susceptibility of plant-derived recombinant proteins to endogenous proteolytic enzymes limits their use as biopharmaceuticals. We have now identified two previously uncharacterized N. benthamiana proteases with high antibody-degrading activity, the papain-like cysteine proteinases NbCysP6 and NbCysP7. Both enzymes are capable of hydrolysing a wide range of synthetic substrates, although only NbCysP6 tolerates basic amino acids in its specificity-determining S2 subsite...
February 7, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28188530/quantitative-proteomics-using-silac
#13
Kian Kani
The ability to enumerate all of the proteins in a cell is quickly becoming a reality. Quantitative proteomics adds an extra dimension to proteome-wide discovery experiments by enabling differential measurements of protein concentrations, characterization of protein turnover, increased stringency of co-immunoprecipitation reactions, as well as many other intriguing applications. One of the most widely used techniques that enable relative protein quantitation is stable isotope labeling by amino acids in cell culture (SILAC) (Ong et al...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28186644/population-pharmacokinetics-and-pharmacodynamics-of-linezolid-induced-thrombocytopenia-in-hospitalized-patients
#14
Yasuhiro Tsuji, Nicholas H G Holford, Hidefumi Kasai, Chika Ogami, Young-A Heo, Yoshitsugu Higashi, Akiko Mizoguchi, Hideto To, Yoshihiro Yamamoto
AIMS: Thrombocytopenia is among the most important adverse effects of linezolid treatment. Linezolid-induced thrombocytopenia incidence varies considerably but has been associated with impaired renal function. We investigated the pharmacodynamic mechanism (myelosuppression or enhanced platelet destruction) and the role of impaired renal function in the development of thrombocytopenia. METHODS: The pharmacokinetics of linezolid were described with a two-compartment distribution model with first-order absorption and elimination...
February 10, 2017: British Journal of Clinical Pharmacology
https://www.readbyqxmd.com/read/28185068/physiological-roles-of-macrophages
#15
REVIEW
Siamon Gordon, Luisa Martinez-Pomares
Macrophages are present in mammals from midgestation, contributing to physiologic homeostasis throughout life. Macrophages arise from yolk sac and foetal liver progenitors during embryonic development in the mouse and persist in different organs as heterogeneous, self-renewing tissue-resident populations. Bone marrow-derived blood monocytes are recruited after birth to replenish tissue-resident populations and to meet further demands during inflammation, infection and metabolic perturbations. Macrophages of mixed origin and different locations vary in replication and turnover, but are all active in mRNA and protein synthesis, fulfilling organ-specific and systemic trophic functions, in addition to host defence...
February 9, 2017: Pflügers Archiv: European Journal of Physiology
https://www.readbyqxmd.com/read/28184230/bicarbonate-induced-redox-proteome-changes-in-arabidopsis-suspension-cells
#16
Zepeng Yin, Kelly Balmant, Sisi Geng, Ning Zhu, Tong Zhang, Craig Dufresne, Shaojun Dai, Sixue Chen
Climate change as a result of increasing atmospheric CO2 affects plant growth and productivity. CO2 is not only a carbon donor for photosynthesis but also an environmental signal that can perturb cellular redox homeostasis and lead to modifications of redox-sensitive proteins. Although redox regulation of protein functions has emerged as an important mechanism in several biological processes, protein redox modifications and how they function in plant CO2 response remain unclear. Here a new iodoTMTRAQ proteomics technology was employed to analyze changes in protein redox modifications in Arabidopsis thaliana suspension cells in response to bicarbonate (mimic of elevated CO2) in a time-course study...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28183851/monitoring-multiple-myeloma-by-next-generation-sequencing-of-v-d-j-rearrangements-from-circulating-myeloma-cells-and-cell-free-myeloma-dna
#17
Anna Oberle, Anna Brandt, Minna Voigtlaender, Benjamin Thiele, Janina Radloff, Anita Schulenkorf, Malik Alawi, Nuray Akyüz, Manuela März, Christopher T Ford, Artus Krohn-Grimberghe, Mascha Binder
Recent studies suggest that circulating tumor cells and cell-free DNA may represent powerful non-invasive tools for disease monitoring in patients with solid and hematological malignancies. Here, we conducted a pilot study in 27 myeloma patients to explore the clonotypic V(D)J rearrangement for monitoring of circulating myeloma cells (cmc-V(D)J) and cell-free myeloma DNA (cfm-V(D)J). Next-generation sequencing was used to define the myeloma V(D)J rearrangement and for subsequent peripheral blood tracking after treatment initiation...
February 9, 2017: Haematologica
https://www.readbyqxmd.com/read/28178994/doxycycline-attenuates-breast-cancer-related-inflammation-by-decreasing-plasma-lysophosphatidate-concentrations-and-inhibiting-nf-%C3%AE%C2%BAb-activation
#18
Xiaoyun Tang, Xianyan Wang, Yuan Y Zhao, Jonathan M Curtis, David N Brindley
BACKGROUND: We previously discovered that tetracyclines increase the expression of lipid phosphate phosphatases at the surface of cells. These enzymes degrade circulating lysophosphatidate and therefore doxycycline increases the turnover of plasma lysophosphatidate and decreases its concentration. Extracellular lysophosphatidate signals through six G protein-coupled receptors and it is a potent promoter of tumor growth, metastasis and chemo-resistance. These effects depend partly on the stimulation of inflammation that lysophosphatidate produces...
February 8, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28178232/synthetic-vulnerabilities-of-mesenchymal-subpopulations-in-pancreatic-cancer
#19
Giannicola Genovese, Alessandro Carugo, James Tepper, Frederick Scott Robinson, Liren Li, Maria Svelto, Luigi Nezi, Denise Corti, Rosalba Minelli, Piergiorgio Pettazzoni, Tony Gutschner, Chia-Chin Wu, Sahil Seth, Kadir Caner Akdemir, Elisabetta Leo, Samirkumar Amin, Marco Dal Molin, Haoqiang Ying, Lawrence N Kwong, Simona Colla, Koichi Takahashi, Papia Ghosh, Virginia Giuliani, Florian Muller, Prasenjit Dey, Shan Jiang, Jill Garvey, Chang-Gong Liu, Jianhua Zhang, Timothy P Heffernan, Carlo Toniatti, Jason B Fleming, Michael G Goggins, Laura D Wood, Alessandro Sgambato, Abbas Agaimy, Anirban Maitra, Charles W M Roberts, Huamin Wang, Andrea Viale, Ronald A DePinho, Giulio F Draetta, Lynda Chin
Malignant neoplasms evolve in response to changes in oncogenic signalling. Cancer cell plasticity in response to evolutionary pressures is fundamental to tumour progression and the development of therapeutic resistance. Here we determine the molecular and cellular mechanisms of cancer cell plasticity in a conditional oncogenic Kras mouse model of pancreatic ductal adenocarcinoma (PDAC), a malignancy that displays considerable phenotypic diversity and morphological heterogeneity. In this model, stochastic extinction of oncogenic Kras signalling and emergence of Kras-independent escaper populations (cells that acquire oncogenic properties) are associated with de-differentiation and aggressive biological behaviour...
February 16, 2017: Nature
https://www.readbyqxmd.com/read/28178186/exogenous-pthrp-repairs-the-damaged-fracture-healing-of-pthrp-mice-and-accelerates-fracture-healing-of-wild-mice
#20
Yinhe Wang, Xin Fang, Chun Wang, Congzhu Ding, Hua Lin, Anlong Liu, Lei Wang, Yang Cao
Bone fracture healing is a complicated physiological regenerative process initiated in response to injury and is similar to bone development. To demonstrate whether an exogenous supply of parathyroid hormone-related protein (PTHrP) helps in bone fracture healing, closed mid-diaphyseal femur fractures were created and stabilized with intramedullary pins in eight-week-old wild-type (WT) PTHrP+/+ and PTHrP+/- mice. After administering PTHrP for two weeks, callus tissue properties were analyzed at one, two, and four weeks post-fracture (PF) by various methods...
February 6, 2017: International Journal of Molecular Sciences
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