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At least 307 records · Page 17
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

A Comparative Techno-Economic Analysis of Sustainable Methanol Synthesis Pathways from Biomass and CO2

The call to reduce global CO2 emissions is at the forefront of research and development in the transportation and petrochemical industries. A potential solution which intersects both sectors is the adoption and commercialization of more sustainable technologies for methanol production. Currently, methanol is gaining popularity as a possible fuel additive, and as a polymer precursor via established methanol-to-olefins routes which are increasing in capacity and utilization, putting methanol in the spotlight and global methanol production on the rise. At the same time, experimental and computational studies have surged, illuminating a wide array of novel process designs to introduce sustainable methanol into the market. However, with numerous competing pathways identified across a variety of fossil and non-fossil feedstocks, there is a need to harmonize the analyses of these pathways using a consistent techno-economic approach and compare them to current commercial pathways to better understand the benefits or limitations inherent to each technology. In this work we conduct a consistent comparative analysis of three sustainable methanol synthesis pathways versus a commercial baseline, with biomass, CO2, and natural gas as the carbon sources. The three sustainable pathways of interest are biomass gasification to syngas with subsequent catalytic conversion of syngas to methanol, indirect conversion of CO2 to syngas via electrolysis with subsequent catalytic conversion of syngas to methanol, and direct conversion of CO2 to methanol via electrolysis. To elucidate the challenges and opportunities in the path to commercialization of each sustainable pathway, we investigate five key process metrics: production cost, carbon efficiency, carbon intensity, energy efficiency, and technology readiness level (TRL).

biomass↗
DOE OSTI2023

Simulating the metabolic pathway dynamics of an organism

Disclosed herein are systems and methods for determining metabolic pathway dynamics using time series multiomics data. In one example, after receiving time series multiomics data comprising time-series metabolomics data associated a metabolic pathway and time-series proteomics data associated with the metabolic pathway, derivatives of the time series multiomics data can be determined. A machine learning model, representing a metabolic pathway dynamics model, can be trained using the time series multiomics data and the derivatives of the time series multiomics data, wherein the metabolic pathway dynamics model relates the time-series metabolomics data and time-series proteomics data to the derivatives of the time series multiomics data. The method can include simulating a virtual strain of the organism using the metabolic pathway dynamics model.

Costello, Zachary↗
DOE OSTI2023

Plasma-based global pathway analysis to understand the chemical kinetics of plasma-assisted combustion and fuel reforming

The Global Pathway Analysis (GPA) algorithm helps analyze the chemical kinetics of complex combustion systems by identifying important global reaction pathways connecting a source species to a sink species through various important intermediate species (i.e., hub species). Here, the present work aims to extend GPA algorithm to plasma-assisted combustion and fuel reforming systems to identify the dominant global pathways in such systems at various conditions. In addition, the present study extends the ability of GPA algorithm to identify reaction cycles involving the excitation of high-concentration species (e.g., O 2 , N 2 , and fuel) to their vibrational and electronic states and the subsequent de excitation to their ground state, based on their significance on the reactivity of plasma-assisted systems in terms of gas heating and radical production. Provisions are made in the GPA algorithm to evaluate the reactivity of identified re action pathways and cycles based on the element-flux transfer (i.e., dominance), heat release, and radical production rate. The newly developed Plasma-based Global Pathway Analysis (PGPA) algorithm is then used to analyze the plasma assisted combustion of ammonia and reforming of methane. The PGPA analyses elucidated the significance of vibrational-translational cycles on the reactivity of NH 3 /air mixtures. Further, analyses on the production of NO ascribed the early reforming of NH 3 to N 2 and H 2 in impeding the production of NO during plasma-assisted NH 3 ignition. Lastly, the enhanced reforming of CH 4 /N 2 mixtures using plasma has been attributed to electron impact dissociation of CH 4 when compared to thermal reforming. In contrast, conventional path-Flux analysis (PFA) was found to require significant manual effort and pre-analysis intuitions from expert knowledge, making it arduous to provide valuable in sights into plasma chemistry. The user-friendly and automated nature of PGPA thus provides a valuable tool for assessing the kinetics of plasma-assisted systems helpful in analyzing and, further, a foundation in reducing plasma-assisted chemistry, without the needs of expert knowledge.

33 ADVANCED PROPULSION SYSTEMS↗
DOE OSTI2025

Metabolic engineering reveals the relative importance of different sugar catabolic pathways during consumption of plant biomass by Aspergillus niger

To evaluate the impact of individual sugar catabolic pathways on the physiology of A. niger when using plant biomass as a carbon source, key pathways converting plant biomass derived monomers were blocked. The resulting deletion mutants were analyzed using wheat bran and sugar beet pulp as substrates. On both substrates, the strongest affected single-pathway mutants were the pentose catabolic pathway (PCP) (Δ xkiA ) and glycolysis (Δ hxkA Δ glkA ) deficient mutants. On wheat bran, which is rich in pentose sugars, blocking the PCP by deletion of xkiA strongly impacted both growth and gene expression. However, the effect was even stronger in Δ hxkA Δ glkA and similar to a strain in which all pathways were blocked, highlighting the crucial role of glycolysis and/or carbon catabolite repression in A. niger physiology. These results demonstrate the complexity of A. niger metabolism during growth on plant biomass and provide insights into aspects to consider during metabolic engineering to obtain fungal cell factories.

aspergillus niger↗
DOE OSTI2020

Phylogenomics reveals convergent evolution of red-violet coloration in land plants and the origins of the anthocyanin biosynthetic pathway

The flavonoids, one of the largest classes of plant secondary metabolites, are found in lineages that span the land plant phylogeny and play important roles in stress responses and as pigments. Perhaps the most well-studied flavonoids are the anthocyanins that have human health benefits and help plants attract pollinators, regulate hormone production, and confer resistance to abiotic and biotic stresses. The canonical biochemical pathway responsible for the production of these pigments is well-characterized for flowering plants yet its conservation across deep divergences in land plants remains debated and poorly understood. Many early land plants such as mosses, liverworts, and ferns produce flavonoid pigments, but their biosynthetic origins and homologies to the anthocyanin pathway remain uncertain. We conducted phylogenetic analyses using full genome sequences representing nearly all major green plant lineages to reconstruct the evolutionary history of the anthocyanin biosynthetic pathway then test the hypothesis that genes in this pathway are present in early land plants. We found that the entire pathway was not intact until the most recent common ancestor of seed plants and that orthologs of many downstream enzymes are absent from seedless plants including mosses, liverworts, and ferns. Our results also highlight the utility of phylogenetic inference, as compared to pairwise sequence similarity, in orthology assessment within large gene families that have complex duplication-loss histories. Here, we suggest that the production of red-violet flavonoid pigments widespread in seedless plants, including the 3-deoxyanthocyanins, requires the activity of novel, as-yet discovered enzymes, and represents convergent evolution of red-violet coloration across land plants.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Relative Activities of the β-Ketoacyl-CoA and Acyl-CoA Reductases Influence the Product Profile and Flux in a Reversed β-Oxidation Pathway

The β-oxidation pathway, normally involved in the catabolism of fatty acids, can be functionally made to act as a fermentative, iterative, elongation pathway when driven by the activity of a trans-enoyl-CoA reductase (TER). Here, the terminal acyl-CoA reduction to alcohol can occur on substrates with varied chain lengths, leading to a broad distribution of fermentation products in vivo. Tight control of the average chain length and product profile is desirable, as the chain length greatly influences the molecular properties and the commercial value. Lacking a termination enzyme with a narrow chain length preference, we sought alternative factors that could influence the product profile and pathway flux in the iterative pathway. In this study, we reconstituted the reversed β-oxidation (R-βox) pathway in vitro with a purified tri-functional complex (FadBA) responsible for the thiolase, enoyl-CoA hydratase, and hydroxyacyl-CoA dehydrogenase activities, a TER, and an acyl-CoA reductase. Using this system, we determined the rate-limiting step of the elongation cycle and demonstrated that by controlling the ratio of these three enzymes and the ratio of NADH and NADPH, we can influence the average chain length of the alcohol product profile.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

A Pathway Analysis Framework for Evaluating the Economic and Environmental Viability of Biomass-Based Plastic Production

Plastic production from fossil feedstocks (e.g., naphtha, coal, and natural gas) is not sustainable and causes known environmental impacts such as global warming. A possible solution is to shift production pathways to use biomass, which is a sustainable feedstock that can sequester atmospheric carbon dioxide. This study presents an optimization-based pathway analysis framework for evaluating the carbon footprints of the production of mainstream plastics from biomass and fossil feedstocks. We use the modeling framework to quickly navigate complex interdependencies that exist between the production pathways of different plastics and to determine pathways of minimum production cost under a range of carbon pricing scenarios. The framework interprets carbon prices as an exogenous taxation scheme or an endogenous negative value perceived by producers. The proposed approach reveals the biomass feedstock quantities needed to displace fossil counterparts and the plastics and technologies that should be prioritized. The framework can also be used for evaluating system-wide trade-offs between production costs and carbon footprints that arise from pathway interdependencies. We also evaluate hidden environmental impacts associated with the large-scale use of biomass as a feedstock, such as land use and water eutrophication that results from a significant increase in fertilizer use. Therefore, it is important to highlight that there are trade-offs between decarbonization and other environmental issues. Here, the proposed framework provides an integrative platform for basic techno-economic and life-cycle data that can be used for analyzing diverse scenarios and determining necessary technology targets (e.g., yields, footprints, and costs) to achieve required levels of decarbonization.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRSDate not supplied

Future Pathways for Arctic Forest Fires

Wildfires are expected to become more common and more severe in the Arctic states due to climate change. Main cause for the fires is human activity, even in the boreal and Arctic forests. Therefore, activities such forest management and tourism, together with firefighting capacity and readiness, can have a significant impact on future wildfire risks and impacts. To assess the impacts of these factors we have created pathways for future wildfires up to 2050 for the Arctic states. We explore high and low fire activity and risk pathways for all the Arctic states and suggest most our best guess pathways for each state separately. The low activity and fire risk pathway assumes active fire suppression via population participation and official land management, efficient fuel treatments to reduce fire risk, and active firefighting. The high activity and fire risk pathway assumes the opposite due to lack of government and community response, with addition of lacking response to climate-driven changes to wildfire risks. In the Nordic countries, human ignition sources, such as timber extraction, tourism, summer cottages, and expanding wildland-urban intermix due to exurban growth may increase. In addition to these in Canada and Alaska, expansion of agriculture increases the likelihood of open burning of agricultural waste, increasing risk of the fire spreading to wildlands. Drier fuels due to climate change increase the risk of fires, and there is a growing risk of extreme heat conditions, creating favorable conditions for extreme wildfires from any ignition source. Throughout the Arctic lightning is expected to increase, increasing the risk of tundra (specifically grassland) fires, with potential to occur in hard-to-reach locations for firefighting. In short, policy actions and education play a crucial role in future wildfire management and adaptation.

Future↗
DOE OSTI2019

Linum Lignan and Associated Biochemical Pathways in Human Health and Plant Defense

This chapter primarily addresses formation of the plant-protecting and human health-protecting lignans found in flax seed coat tissue. Yet, the fundamentals of how plants in general biochemically produce their protective seed coats (protecting the embryo until germination) is very poorly understood at the molecular level, in spite of its massive evolutionary importance. Flax is no exception. Herein, we address the natural product molecular species produced from the “mixed” biochemical pathways to both the flax seed lignans and other metabolite classes associated with same, as well as what is known about their localization in situ and their biosynthesis (proteins and enzymes involved). The biosynthetic pathway known to this point to the plant defense lignans in leaf and stem tissue is also discussed. Discovery of the biochemical steps leading to flax seed coat lignan biosynthesis, with a particular emphasis on the genes, dirigent proteins (DPs), downstream pinoresinol lariciresinol reductases, and secoisolariciresinol dehydrogenase, is described. Advances made thus far from X-ray structural biology investigations, as well as MALDI TOF MS/MS and Ion Mobility metabolite imaging, of these biochemical processes to the lignan components in situ are also summarized. While the predominant health-protecting flax seed coat lignans are secoisolariciresinol glucoside (SDG) derived, they are essentially not present as such in this tissue. Instead, SDG exists in covalently linked form to other “mixed” biochemical pathway metabolites, of which there are currently 8 other distinct natural product entities known to be involved. The biosynthesis of other components, such as herbacetin diglucoside and hydroxymethyl glutaric acid, is also briefly discussed. What is known about the macromolecular structure of these lignan-containing mixed biochemical pathway metabolites to date during seed coat maturation is briefly summarized. Flaxseed, however, also contains other lignans, such as pinoresinol, isolariciresinol and matairesinol, albeit in tiny amount, which are released on alkali (base) treatment of flax seed or preparations thereof. The lignan yatein which, by comparison, accumulates in flax leaf and stem tissue appears to be involved in plant defense. What is known about its biochemical pathway and function is summarized. Interestingly, flax DPs are encoded by a 44-membered multi-gene family, of which only a few are of known biochemical/physiological function. Future research is urgently needed to ascertain the in vivo functions of this DP family, including probing the evolutionary ramifications of same and their relevance to successful evolutionary transition of aquatic plants to terrestrial vascular plant form.

dirigent proteins, lignin, Linum, flax, structure ↗
DOE OSTI2014

Kirenol inhibits adipogenesis through activation of the Wnt/β-catenin signaling pathway in 3T3-L1 adipocytes

Highlights: • Kirenol inhibits the adipogenic transcription factors and lipogenic enzymes. • Kirenol stimulates the Wnt/β-catenin signaling pathway components. • Kirenol inhibits adipogenesis through activation of the Wnt/β-catenin signaling pathway. - Abstract: Kirenol, a natural diterpenoid compound, has been reported to possess anti-oxidant, anti-inflammatory, anti-allergic, and anti-arthritic activities; however, its anti-adipogenic effect remains to be studied. The present study evaluated the effect of kirenol on anti-adipogenesis through the activation of the Wnt/β-catenin signaling pathway. Kirenol prevented intracellular lipid accumulation by down-regulating key adipogenesis transcription factors [peroxisome proliferator-activated receptor γ (PPARγ), CCAAT/enhancer binding proteins α (C/EBPα), and sterol regulatory element binding protein-1c (SREBP-1c)] and lipid biosynthesis-related enzymes [fatty acid synthase (FAS) and acetyl-CoA carboxylase (ACC)], as well as adipocytokines (adiponectin and leptin). Kirenol effectively activated the Wnt/β-catenin signaling pathway, in which kirenol up-regulated the expression of low density lipoprotein receptor related protein 6 (LRP6), disheveled 2 (DVL2), β-catenin, and cyclin D1 (CCND1), while it inactivated glycogen synthase kinase 3β (GSK3β) by increasing its phosphorylation. Kirenol down-regulated the expression levels of PPARγ and C/EBPα, which were up-regulated by siRNA knockdown of β-catenin. Overall, kirenol is capable of inhibiting the differentiation and lipogenesis of 3T3-L1 adipocytes through the activation of the Wnt/β-catenin signaling pathway, suggesting its potential as natural anti-obesity agent.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

Apelin-13 upregulates Egr-1 expression in rat vascular smooth muscle cells through the PI3K/Akt and PKC signaling pathways

Previous studies have shown that Apelin-13 upregulates early growth response factor-1 (Egr-1) via the extracellular signal-regulated protein kinase (ERK) signaling pathway. Apelin-13 induces proliferation and migration of vascular smooth muscle cells (VSMCs) as well as the upregulation of osteopontin (OPN) via the upregulation of Egr-1. This study was designed to further explore the activity of Apelin-13 in VSMCs by investigating members of the mitogen-activated protein kinase (MAPK) family, in particular Jun kinase (JNK) and p38 mitogen-activated protein kinase (P38). We also examined whether the phosphatidylinositol 3 kinase (PI3K)/protein kinase B (Akt) and protein kinase C (PKC) signaling pathways were involved in the regulation of Egr-1 by Apelin-13. We treated rat aortic VSMCs with Apelin-13 and examined the expression of JNK, p-JNK, P38, and p-P38 to investigate whether Apelin-13-mediated increases in Egr-1 occurred through the JNK and P38 signaling pathways. We then pretreated VSMCs with the Gi protein inhibitor pertussis toxin (PTX) and the Gq inhibitor YM254890, added Apelin-13 and looked for changes in Egr-1 expression. Finally, we pretreated with the PI3K inhibitor LY294002 and the PKC inhibitor GF109203X, and treated with Apelin-13. Our results showed that JNK and P38 did not participate in Apelin-13-mediated increase in Egr-1. Instead, Apelin-13 upregulation of Egr-1 was mediated by a PTX-sensitive Gi protein. Apelin-13 did increase ERK phosphorylation through the PI3K/Akt and PKC signaling pathways, resulting in changes in Egr-1 expression. These data provide important targets for future studies to modulate vascular remodeling. - Highlights: • Apelin-13 mediates Egr-1 upregulation in vascular smooth muscle cells via ERK1/2. • The underlying mechanisms are unknown, but exclude Jnk or p38 pathway activation. • Apelin-13 binds to Gi, activating the PI3K/Akt and PKC signaling cascades. • Consequent ERK phosphorylation results in increased Egr-1 expression. • These novel targets may be potential therapies for vascular remodeling diseases.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

Selenomethionine promoted hippocampal neurogenesis via the PI3K-Akt-GSK3β-Wnt pathway in a mouse model of Alzheimer's disease

The maintenance of neural system integrity and function is the ultimate goal for the treatment of neurodegenerative disease such as Alzheimer's disease (AD). Neurogenesis plays an integral role in the maintenance of neural and cognitive functions, and its dysfunction is regarded as a major cause of cognitive impairment in AD. Moreover, the induction of neurogenesis by targeting endogenous neural stem cells (NSCs) is considered as one of the most promising treatment strategies. Our previous studies demonstrated that selenomethionine (Se-Met) was able to reduce β-amyloid peptide (Aβ) deposition, decrease Tau protein hyperphosphorylation and markedly improve cognitive functions in triple transgenic (3xTg) AD mice. In this study, we reported that the therapeutic effect of Se-Met on AD could also be due to neurogenesis modulation. By using the cultured hippocampal NSCs from 3xTg AD mice, we discovered that Se-Met (1–10 μM) with low concentration could promote NSC proliferation, while the one with a high concentration (50,100 μM) inhibiting proliferation. In subsequent studies, we also found that Se-Met activated the signaling pathway of PI3K/Akt, and thereby inhibited the GSK3β activity, which would further activated the β-catenin/Cyclin-D signaling pathway and promote NSC proliferation. Besides, after the induction of Se-Met, the number of neurons differentiated from NSCs significantly increased, and the number of astrocytes decreased. After a 90-day treatment with Se-Met (6 μg/mL), the number of hippocampal neurons in 4-month-old AD mice increased significantly, while the one of astrocyte saw a sharp drop. Thus, Se-Met treatment promoted NSCs differentiation into neurons, and subsequently repaired damaged neural systems in AD mice. Being consistent with our in vitro studies, Se-Met acts through the PI3K-Akt- GSK3β-Wnt signaling pathway in vivo. This study provides an unparalleled evidence that selenium (Se) compounds are, to some extent, effective in promoting neurogenesis, and therefore we propose a novel mechanism for Se-Met treatment in AD. - Highlights: • It's the first time to evidence that a selenium (Se) compounds is effective in promoting neurogenesis. • Selenomethionine promotes neural stem cell proliferation and differentiation into neurons. • Selenomethionine activates the PI3K-Akt-GSK3β signaling pathway. • Selenomethionine activates the Wnt signaling pathway.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

WNT/β-catenin pathway modulates the TNF-α-induced inflammatory response in bronchial epithelial cells

In this study, TNF-α was found to activate the WNT/β-catenin pathway in BEAS-2B human bronchial epithelial cells. Levels of phospho-LRP6, Dvl-2, and phospho-GSK-3β were elevated, while that of Axin was reduced by TNF-α treatment. Nuclear translocation of β-catenin and the reporter activity of a β-catenin-responsive promoter were increased by TNF-α treatment. Under the same experimental conditions, TNF-α activated the NF-κB signaling, which includes the phosphorylation and degradation of IκB and nuclear translocation and target DNA binding of NF-κB, and it was found that an inhibitor of NF-κB activation, JSH-23, inhibited TNF-α-induced Wnt signaling as well as NF-κB signaling. It was also found that recombinant Wnt proteins induced NF-κB nuclear translocations and its target DNA binding, suggesting that Wnt signaling and NF-κB signaling were inter-connected. TNF-α-induced modulations of IκB and NF-κB as well as pro-inflammatory cytokine expression were significantly suppressed by the transfection of β-catenin siRNA compared to that of control siRNA. Transfection of a β-catenin expression plasmid augmented the TNF-α-induced modulations of IκB and NF-κB as well as pro-inflammatory cytokine expression. These results clearly demonstrated that the WNT/β-catenin pathway modulates the inflammatory response induced by TNF-α, suggesting that this pathway may be a useful target for the effective treatment of bronchial inflammation. - Highlights: • TNF-α activated the WNT/β-catenin pathway in bronchial epithelial cells. • TNF-α-induced WNT/β-catenin pathway was inhibited by NF-κB inhibitor. • Wnt proteins induced nuclear translocation and target DNA binding of NF-κB. • TNF-α-induced NF-κB signaling was suppressed by β-catenin knock-down. • TNF-α-induced NF-κB signaling was augmented by ectopic β-catenin expression.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

The Arabidopsis endoplasmic reticulum associated degradation pathways are involved in the regulation of heat stress response

Abstracts: The Cytosolic Protein Response (CPR) in the cytosol and the Unfolded Protein Response (UPR) and ER-associated degradation (ERAD) in the endoplasmic reticulum are major pathways of the cellular proteostasis network. However, despite years of effort, how these protein quality control systems coordinated in vivo remains largely unknown, particularly in plants. In this study, the roles of two evolutionarily conserved ERAD pathways (DOA10 and HRD1) in heat stress response were investigated through reverse genetic approaches in Arabidopsis. Phenotypic analysis of the mutants showed that the two ERAD pathways additively play negative roles in heat tolerance, which was demonstrated by higher survival rate and lower electrolyte leakage in the loss of function mutants compared to the wild type plants. Importantly, gene expression analysis revealed that the mutant plants showed elevated transcriptional regulation of several downstream genes, including those encoding CPR and UPR marker genes, under both basal and heat stress conditions. Finally, multiple components of ERAD genes exhibited rapid response to increasing temperature. Taken together, our data not only unravels key insights into the crosstalk between different protein quality control processes, but also provides candidate genes to genetically improve plant heat tolerance in the future. - Highlights: • ERAD pathways cooperatively regulate plant thermotolerance. • ERAD pathways cooperatively regulate UPR and CPR. • ERAD components gene expression are upregulated by heat stress.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

Carbonyl cyanide 3-chlorophenylhydrazone (CCCP) suppresses STING-mediated DNA sensing pathway through inducing mitochondrial fission

Besides its important role in innate immune response to DNA virus infection, the regulatory function of STING in autoimmunity and cancer is emerging. Recently, multiple mechanisms regulating the activity of the STING pathway have been revealed. Previous study showed that carbonyl cyanide 3-chlorophenylhydrazone (CCCP), the protonophore, inhibited STING-mediated IFN-β production via disrupting mitochondrial membrane potential (MMP). However, how MMP dissipation leads to the suppression of the STING pathway remains unknown. Here, we show that CCCP inhibits activation of STING and its downstream signaling molecules, TBK1 and IRF3, but not STING translocation to the perinuclear region. We found that CCCP impairs the interaction between STING and TBK1 and concomitantly triggers mitochondria fission. Importantly, the knockout of the crucial mitochondria fission regulator Drp1 restored the STING activity, indicating that CCCP down-modulates the STING pathway through DRP1-mediated mitochondria fragmentation. Our findings highlight the coupling of the STING signaling platform to mitochondria dynamics. - Highlights: • CCCP inhibits IFN-β production induced by various types of the STING pathway activators. • CCCP suppresses the phosphorylation of STING, TBK1, and IRF3 via disrupting the association of STING and TBK1. • The mitochondria fission mediator DRP1 is essential for CCCP-induced suppression of the STING pathway.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2018

TNF-α induces expression of the circadian clock gene Bmal1 via dual calcium-dependent pathways in rheumatoid synovial cells

Highlights: • TNF-α induces over-expression of Bmal1 in rheumatoid synovial cells. • This over-expression was induced through dual calcium dependent pathways. • These dual pathways were regulated by p300/CBP histone acetyltransferases. • Ca{sup 2+} influx-p300/CBP pathway may provide a novel therapeutic strategy for RA. Tumor necrosis factor (TNF)-α is responsible for expressions of several clock genes and affects joint symptoms of rheumatoid arthritis (RA) with diurnal fluctuation. We tried to determine the mechanism involved in over-expression of Bmal1, induced by TNF-α, in primary cultured rheumatoid synovial cells. Cells were incubated with intra-cellular Ca{sup 2+} chelator BAPTA-AM, calcineurin inhibitor FK506 and p300/CBP (CREB binding protein) inhibitor C646, respectively, or transfected with p300 and CBP small interfering RNA (siRNA) before stimulation with TNF-α. Oscillation phase and amplitude of Bmal1, transcriptional activator Rorα, transcriptional repressor Rev-erbα, and histone acetyltransferases (p300 and Cbp) were evaluated by quantitative real-time PCR. As results, TNF-α did not influence the oscillation phase of Rev-erbα, while enhanced those of Rorα, resulting in over-expression of Bmal1. When Ca{sup 2+} influx was inhibited by BAPTA-AM, TNF-α-mediated up-regulation of Rorα was cancelled, however, that of Bmal1 was still apparent. When we further explored another pathway between TNF-α and Bmal1, TNF-α suppressed the expression of Rev-erbα in the absence of Ca{sup 2+} influx, as well as those of p300 and Cbp genes. Finally, actions of TNF-α, in increasing Bmal1/Rorα and decreasing Rev-erbα, were cancelled by C646 treatment or silencing of both p300 and Cbp. In conclusion, we determined a novel role of TNF-α in inducing Bmal1 via dual calcium dependent pathways; Rorα was up-regulated in the presence of Ca{sup 2+} influx and Rev-erbα was down-regulated in the absence of that. Results proposed that inhibition of p300/CBP could be new therapeutic targets for RA.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2018

ATF3 mediates the inhibitory action of TNF-α on osteoblast differentiation through the JNK signaling pathway

Highlights: • TNF-α downregulated osteogenic markers, but upregulated the expression of ATF3. • Inhibition of ATF3 reversed the inhibition of osteoblast differentiation by TNF-α. • Overexpression of ATF3 enhances the inhibition of osteoblast differentiation by TNF-α. • ATF3 mediates the inhibitory action of TNF-α on osteoblast differentiation via JNK signaling pathway. Tumor necrosis factor (TNF)-α, which is a proinflammatory cytokine, inhibits osteoblast differentiation under diverse inflammatory conditions. Activating transcription factor 3 (ATF3), which is a member of the ATF/cAMP response element-binding protein family of transcription factors, has been implicated in the regulation of cell proliferation and differentiation. However, the precise interactions between ATF3 and the TNF-α signaling pathway in the regulation of osteoblast differentiation remain unclear. In this study, we examined the role of ATF3 in the TNF-α-mediated inhibition of osteoblast differentiation and investigated the signaling pathways involved. The treatment of cells with TNF-α downregulated osteogenic markers, but significantly upregulated the expression of Atf3. The inhibition of Atf3 by small interfering RNAs rescued osteogenesis, which was inhibited by TNF-α. Conversely, the enforced expression of Atf3 enhanced the TNF-α-mediated inhibition of osteoblast differentiation, as revealed by the measurement of osteogenic markers and alkaline phosphatase staining. Mechanistically, TNF-α-induced Atf3 expression was significantly suppressed by the inhibition of the c-Jun N-terminal kinase (JNK) pathway. Furthermore, the overexpression of Atf3 did not affect the rescue effect that inhibiting TNF-α expression using a JNK inhibitor had on alkaline phosphatase activity and mineralization. Taken together, these results indicate that ATF3 mediates the inhibitory action of TNF-α on osteoblast differentiation and that the TNF-α-activated JNK pathway is responsible for the induction of Atf3 expression.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2018

RNA-Seq analysis of global transcriptomic changes suggests a roles for the MAPK pathway and carbon metabolism in cell wall maintenance in a Saccharomyces cerevisiae FKS1 mutant

FKS1 encodes a β-1,3-glucan synthase, which is a key player in cell wall assembly in Saccharomyces cerevisiae. Here we analyzed the global transcriptomic changes in the FKS1 mutant to establish a correlation between the changes in the cell wall of the FKS1 mutant and the molecular mechanism of cell wall maintenance. These transcriptomic profiles showed that there are 1151 differentially expressed genes (DEGs) in the FKS1 mutant. Through KEGG pathway analysis of the DEGs, the MAPK pathway and seven pathways involved in carbon metabolism were significantly enriched. We found that the MAPK pathway is activated for FKS1 mutant survival and the synthesis of cell wall components are reinforced in the FKS1 mutant. Our results confirm that the FKS1 mutant has a β-1,3-glucan defect that affects the cell wall and partly elucidate the molecular mechanism responsible for cell wall synthesis. Our greater understanding of these mechanisms helps to explain how the FKS1 mutant survives, has useful implications for the study of similar pathways in other fungi, and increases the theoretical foundation for the regulation of the cell wall in S. cerevisiae.

60 APPLIED LIFE SCIENCES↗