25 results on '"Sergey Tumanov"'
Search Results
2. Integrative processing of untargeted metabolomic and lipidomic data using MultiABLER
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Ian C.H. Lee, Sergey Tumanov, Jason W.H. Wong, Roland Stocker, and Joshua W.K. Ho
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Lipidomics ,Metabolomics ,Biological sciences research methodologies ,Biological sciences tools ,Science - Abstract
Summary: Mass spectrometry (MS)-based untargeted metabolomic and lipidomic approaches are being used increasingly in biomedical research. The adoption and integration of these data are critical to the overall multi-omic toolkit. Recently, a sample extraction method called Multi-ABLE has been developed, which enables concurrent generation of proteomic and untargeted metabolomic and lipidomic data from a small amount of tissue. The proteomics field has a well-established set of software for processing of acquired data; however, there is a lack of a unified, off-the-shelf, ready-to-use bioinformatics pipeline that can take advantage of and prepare concurrently generated metabolomic and lipidomic data for joint downstream analyses. Here we present an R pipeline called MultiABLER as a unified and simple upstream processing and analysis pipeline for both metabolomics and lipidomics datasets acquired using liquid chromatography-tandem mass spectrometry. The code is available via an open-source license at https://github.com/holab-hku/MultiABLER.
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- 2023
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3. AGPAT2 interaction with CDP-diacylglycerol synthases promotes the flux of fatty acids through the CDP-diacylglycerol pathway
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Hoi Yin Mak, Qian Ouyang, Sergey Tumanov, Jiesi Xu, Ping Rong, Feitong Dong, Sin Man Lam, Xiaowei Wang, Ivan Lukmantara, Ximing Du, Mingming Gao, Andrew J. Brown, Xin Gong, Guanghou Shui, Roland Stocker, Xun Huang, Shuai Chen, and Hongyuan Yang
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Science - Abstract
AGPATs (1-acylglycerol-3-phosphate O-acyltransferases) catalyze the acylation of lysophosphatidic acid to form phosphatidic acid (PA), a key step in the synthesis of all glycerolipids. Here, the authors show that AGPAT2 and CDP-DAG synthases (CDS1 and CDS2) form functional complexes that promote further conversion of PA along the CDP-DAG pathway of phospholipid synthesis.
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- 2021
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4. Therapeutic inhibition of MPO stabilizes pre-existing high risk atherosclerotic plaque
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Weiyu Chen, Sergey Tumanov, Stephanie M.Y. Kong, David Cheng, Erik Michaëlsson, André Bongers, Carl Power, Anita Ayer, and Roland Stocker
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Atherosclerosis ,Unstable plaque ,Myeloperoxidase (MPO) ,Myeloperoxidase inhibitor ,AZM198 ,Magnetic resonance imaging (MRI) ,Medicine (General) ,R5-920 ,Biology (General) ,QH301-705.5 - Abstract
Currently there are no established therapies to treat high-risk patients with unstable atherosclerotic lesions that are prone to rupture and can result in thrombosis, abrupt arterial occlusion, and a precipitous infarction. Rather than being stenotic, rupture-prone non-occlusive plaques are commonly enriched with inflammatory cells and have a thin fibrous cap. We reported previously that inhibition of the pro-inflammatory enzyme myeloperoxidase (MPO) with the suicide inhibitor AZM198 prevents formation of unstable plaque in the Tandem Stenosis (TS) mouse model of plaque instability. However, in our previous study AZM198 was administered to animals before unstable plaque was present and hence it did not test the significant unmet clinical need present in high-risk patients with vulnerable atherosclerosis. In the present study we therefore asked whether pharmacological inhibition of MPO with AZM198 can stabilize pre-existing unstable lesions in an interventional setting using the mouse model of plaque instability. In vivo molecular magnetic resonance imaging of arterial MPO activity using bis-5-hydroxytryptamide-DTPA-Gd and histological analyses revealed that arterial MPO activity was elevated one week after TS surgery, prior to the presence of unstable lesions observed two weeks after TS surgery. Animals with pre-existing unstable plaque were treated with AZM198 for one or five weeks. Both short- and long-term intervention effectively inhibited arterial MPO activity and increased fibrous cap thickness, indicative of a more stable plaque phenotype. Plaque stabilization was observed without AZM198 affecting the arterial content of Ly6B.2+- and CD68+-cells and MPO protein. These findings demonstrate that inhibition of arterial MPO activity converts unstable into stable atherosclerotic lesions in a preclinical model of plaque instability and highlight the potential therapeutic potency of MPO inhibition for the management of high-risk patients and the development of novel protective strategies against cardiovascular diseases.
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- 2022
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5. Bilirubin deficiency renders mice susceptible to hepatic steatosis in the absence of insulin resistance
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Weiyu Chen, Sergey Tumanov, Daniel J. Fazakerley, James Cantley, David E. James, Louise L. Dunn, Taqi Shaik, Cacang Suarna, and Roland Stocker
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Bilirubin ,Insulin signaling ,Lipid oxidation ,F2-isoprostanes ,Vitamin E ,Medicine (General) ,R5-920 ,Biology (General) ,QH301-705.5 - Abstract
Background & aims: Plasma concentrations of bilirubin, a product of heme catabolism formed by biliverdin reductase A (BVRA), inversely associate with the risk of metabolic diseases including hepatic steatosis and diabetes mellitus in humans. Bilirubin has antioxidant and anti-inflammatory activities and may also regulate insulin signaling and peroxisome proliferator-activated receptor alpha (PPARα) activity. However, a causal link between bilirubin and metabolic diseases remains to be established. Here, we used the global Bvra gene knockout (Bvra–/–) mouse as a model of deficiency in bilirubin to assess its role in metabolic diseases. Approach & results: We fed mice fat-rich diets to induce hepatic steatosis and insulin resistance. Bile pigments were measured by LC-MS/MS, and hepatic lipids by LC-MS/MS (non-targeted lipidomics), HPLC-UV and Oil-Red-O staining. Oxidative stress was evaluated measuring F2-isoprostanes by GC-MS. Glucose metabolism and insulin sensitivity were verified by glucose and insulin tolerance tests, ex vivo and in vivo glucose uptake, and Western blotting for insulin signaling. Compared with wild type littermates, Bvra–/– mice contained negligible bilirubin in plasma and liver, and they had comparable glucose metabolism and insulin sensitivity. However, Bvra–/– mice exhibited an inflamed and fatty liver phenotype, accompanied by hepatic accumulation of oxidized triacylglycerols and F2-isoprostanes, in association with depletion of α-tocopherol. α-Tocopherol supplementation reversed the hepatic phenotype and observed biochemical changes in Bvra–/– mice. Conclusions: Our data suggests that BVRA deficiency renders mice susceptible to oxidative stress-induced hepatic steatosis in the absence of insulin resistance.
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- 2021
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6. 2-Imidazoline Nitroxide Derivatives of Cymantrene
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Kseniya Maryunina, Gleb Letyagin, Galina Romanenko, Artem Bogomyakov, Vitaly Morozov, Sergey Tumanov, Sergey Veber, Matvey Fedin, Evgeniya Saverina, Mikhail Syroeshkin, Mikhail Egorov, and Victor Ovcharenko
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manganeseorganic ,cymantrene ,nitroxide ,paramagnets ,Organic chemistry ,QD241-441 - Abstract
The 2-imidazoline nitroxide derivatives of cymantrene—2-(η5-cyclopentadienyl)tricarbonylmanganese(I)-4,4,5,5-tetramethyl-4,5-dihydro-1H-imidazole-3-oxide-1-oxyl (NNMn) and 2-(η5-cyclopentadienyl)tricarbonylmanganese(I)-4,4,5,5-tetramethyl-4,5-dihydro-1H-imidazole-1-oxyl (INMn) were synthesized. It was shown that NNMn and INMn exhibit a sufficiently high kinetic stability both in solids and in solutions under normal conditions. Their structural characteristics, magnetic properties and electrochemical behavior are close to Re(I) analogs. This opens the prospect of using paramagnetic cymantrenes as prototypes in the design of Re(I) half-sandwiched derivatives for theranostics, where therapy is combined with diagnostics by magnetic resonance imaging due to the contrast properties of nitroxide radicals.
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- 2022
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7. Genetic screening reveals phospholipid metabolism as a key regulator of the biosynthesis of the redox-active lipid coenzyme Q
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Anita Ayer, Daniel J. Fazakerley, Cacang Suarna, Ghassan J. Maghzal, Diba Sheipouri, Kevin J. Lee, Michelle C. Bradley, Lucía Fernández-del-Rio, Sergey Tumanov, Stephanie MY. Kong, Jelske N. van der Veen, Andrian Yang, Joshua W.K. Ho, Steven G. Clarke, David E. James, Ian W. Dawes, Dennis E. Vance, Catherine F. Clarke, René L. Jacobs, and Roland Stocker
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Coenzyme Q ,Mitochondria ,PEMT ,Insulin resistance ,S-adenosylmethionine ,S-adenosylhomocysteine ,Medicine (General) ,R5-920 ,Biology (General) ,QH301-705.5 - Abstract
Mitochondrial energy production and function rely on optimal concentrations of the essential redox-active lipid, coenzyme Q (CoQ). CoQ deficiency results in mitochondrial dysfunction associated with increased mitochondrial oxidative stress and a range of pathologies. What drives CoQ deficiency in many of these pathologies is unknown, just as there currently is no effective therapeutic strategy to overcome CoQ deficiency in humans. To date, large-scale studies aimed at systematically interrogating endogenous systems that control CoQ biosynthesis and their potential utility to treat disease have not been carried out. Therefore, we developed a quantitative high-throughput method to determine CoQ concentrations in yeast cells. Applying this method to the Yeast Deletion Collection as a genome-wide screen, 30 genes not known previously to regulate cellular concentrations of CoQ were discovered. In combination with untargeted lipidomics and metabolomics, phosphatidylethanolamine N-methyltransferase (PEMT) deficiency was confirmed as a positive regulator of CoQ synthesis, the first identified to date. Mechanistically, PEMT deficiency alters mitochondrial concentrations of one-carbon metabolites, characterized by an increase in the S-adenosylmethionine to S-adenosylhomocysteine (SAM-to-SAH) ratio that reflects mitochondrial methylation capacity, drives CoQ synthesis, and is associated with a decrease in mitochondrial oxidative stress. The newly described regulatory pathway appears evolutionary conserved, as ablation of PEMT using antisense oligonucleotides increases mitochondrial CoQ in mouse-derived adipocytes that translates to improved glucose utilization by these cells, and protection of mice from high-fat diet-induced insulin resistance. Our studies reveal a previously unrecognized relationship between two spatially distinct lipid pathways with potential implications for the treatment of CoQ deficiencies, mitochondrial oxidative stress/dysfunction, and associated diseases.
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- 2021
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8. Acetate Recapturing by Nuclear Acetyl-CoA Synthetase 2 Prevents Loss of Histone Acetylation during Oxygen and Serum Limitation
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Vinay Bulusu, Sergey Tumanov, Evdokia Michalopoulou, Niels J. van den Broek, Gillian MacKay, Colin Nixon, Sandeep Dhayade, Zachary T. Schug, Johan Vande Voorde, Karen Blyth, Eyal Gottlieb, Alexei Vazquez, and Jurre J. Kamphorst
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acetate ,acetyl-CoA synthetase 2 ,cancer metabolism ,enzyme localization ,histone acetylation ,histone deacetylation ,hypoxia ,lipogenesis ,metabolite compartmentalization ,stable isotope tracing ,Biology (General) ,QH301-705.5 - Abstract
Acetyl-CoA is a key metabolic intermediate with an important role in transcriptional regulation. The nuclear-cytosolic acetyl-CoA synthetase 2 (ACSS2) was found to sustain the growth of hypoxic tumor cells. It generates acetyl-CoA from acetate, but exactly which pathways it supports is not fully understood. Here, quantitative analysis of acetate metabolism reveals that ACSS2 fulfills distinct functions depending on its cellular location. Exogenous acetate uptake is controlled by expression of both ACSS2 and the mitochondrial ACSS1, and ACSS2 supports lipogenesis. The mitochondrial and lipogenic demand for two-carbon acetyl units considerably exceeds the uptake of exogenous acetate, leaving it to only sparingly contribute to histone acetylation. Surprisingly, oxygen and serum limitation increase nuclear localization of ACSS2. We find that nuclear ACSS2 recaptures acetate released from histone deacetylation for recycling by histone acetyltransferases. Our work provides evidence for limited equilibration between nuclear and cytosolic acetyl-CoA and demonstrates that ACSS2 retains acetate to maintain histone acetylation.
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- 2017
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9. Triglycerides Promote Lipid Homeostasis during Hypoxic Stress by Balancing Fatty Acid Saturation
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Daniel Ackerman, Sergey Tumanov, Bo Qiu, Evdokia Michalopoulou, Michelle Spata, Andrew Azzam, Hong Xie, M. Celeste Simon, and Jurre J. Kamphorst
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Biology (General) ,QH301-705.5 - Abstract
Summary: Lipid droplets, which store triglycerides and cholesterol esters, are a prominent feature of clear cell renal cell carcinoma (ccRCC). Although their presence in ccRCC is critical for sustained tumorigenesis, their contribution to lipid homeostasis and tumor cell viability is incompletely understood. Here we show that disrupting triglyceride synthesis compromises the growth of both ccRCC tumors and ccRCC cells exposed to tumor-like conditions. Functionally, hypoxia leads to increased fatty acid saturation through inhibition of the oxygen-dependent stearoyl-CoA desaturase (SCD) enzyme. Triglycerides counter a toxic buildup of saturated lipids, primarily by releasing the unsaturated fatty acid oleate (the principal product of SCD activity) from lipid droplets into phospholipid pools. Disrupting this process derails lipid homeostasis, causing overproduction of toxic saturated ceramides and acyl-carnitines as well as activation of the NF-κB transcription factor. Our work demonstrates that triglycerides promote homeostasis by “buffering” specific fatty acids. : Tumors frequently experience hypoxia and serum limitation, which cause a harmful increase in fatty acid saturation. Studying kidney cancer, Ackerman et al. describe a protective role of lipid droplet-resident triglycerides: buffering of the cellular lipid saturation through exchange of mono-unsaturated fatty acids. Inhibiting triglyceride synthesis compromises solid tumor growth. Keywords: cancer metabolism, clear cell renal cell carcinoma, diglyceride acyltransferase, fatty acid saturation, hypoxia, lipid droplets, lipid homeostasis, lipidomics, stable isotope tracing, triglycerides
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- 2018
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10. Metabolic response of Candida albicans to phenylethyl alcohol under hyphae-inducing conditions.
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Ting-Li Han, Sergey Tumanov, Richard D Cannon, and Silas G Villas-Boas
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Medicine ,Science - Abstract
Phenylethyl alcohol was one of the first quorum sensing molecules (QSMs) identified in C. albicans. This extracellular signalling molecule inhibits the hyphal formation of C. albicans at high cell density. Little is known, however, about the underlying mechanisms by which this QSM regulates the morphological switches of C. albicans. Therefore, we have applied metabolomics and isotope labelling experiments to investigate the metabolic changes that occur in C. albicans in response to phenylethyl alcohol under defined hyphae-inducing conditions. Our results showed a global upregulation of central carbon metabolism when hyphal development was suppressed by phenylethyl alcohol. By comparing the metabolic changes in response to phenylethyl alcohol to our previous metabolomic studies, we were able to short-list 7 metabolic pathways from central carbon metabolism that appear to be associated with C. albicans morphogenesis. Furthermore, isotope-labelling data showed that phenylethyl alcohol is indeed taken up and catabolised by yeast cells. Isotope-labelled carbon atoms were found in the majority of amino acids as well as in lactate and glyoxylate. However, isotope-labelled carbon atoms from phenylethyl alcohol accumulated mainly in the pyridine ring of NAD(+)/NADH and NADP(-/)NADPH molecules, showing that these nucleotides were the main products of phenylethyl alcohol catabolism. Interestingly, two metabolic pathways where these nucleotides play an important role, nitrogen metabolism and nicotinate/nicotinamide metabolism, were also short-listed through our previous metabolomics works as metabolic pathways likely to be closely associated with C. albicans morphogenesis.
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- 2013
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11. Correction: Metabolic Response of to Phenylethyl Alcohol under Hyphae-Inducing Conditions.
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Ting-Li Han, Sergey Tumanov, Richard D. Cannon, and Silas G. Villas-Boas
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Medicine ,Science - Published
- 2013
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12. Destabilization of Atherosclerotic Plaque by Bilirubin Deficiency
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Weiyu Chen, Sergey Tumanov, Christopher P. Stanley, Stephanie M.Y. Kong, James Nadel, Niv Vigder, Darren L. Newington, Xiao Suo Wang, Louise L. Dunn, and Roland Stocker
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Physiology ,Cardiology and Cardiovascular Medicine - Abstract
Background: The rupture of atherosclerotic plaque contributes significantly to cardiovascular disease. Plasma concentrations of bilirubin—a byproduct of heme catabolism—inversely associate with risk of cardiovascular disease, although the link between bilirubin and atherosclerosis remains unclear. Methods: To assess the role of bilirubin in atherosclerotic plaque stability, we crossed Bvra −/− with Apoe −/− mice and used the tandem stenosis model of plaque instability. Human coronary arteries were obtained from heart transplant recipients. Analysis of bile pigments, heme metabolism, and proteomics were performed by liquid chromatography tandem mass spectrometry. MPO (myeloperoxidase) activity was determined by in vivo molecular magnetic resonance imaging, liquid chromatography tandem mass spectrometry analysis, and immunohistochemical determination of chlorotyrosine. Systemic oxidative stress was evaluated by plasma concentrations of lipid hydroperoxides and the redox status of circulating Prx2 (peroxiredoxin 2), whereas arterial function was assessed by wire myography. Atherosclerosis and arterial remodeling were quantified by morphometry and plaque stability by fibrous cap thickness, lipid accumulation, infiltration of inflammatory cells, and the presence of intraplaque hemorrhage. Results: Compared with Bvra +/+ Apoe −/− tandem stenosis littermates, Bvra −/− Apoe −/− tandem stenosis mice were deficient in bilirubin, showed signs of increased systemic oxidative stress, endothelial dysfunction, as well as hyperlipidemia, and had a higher atherosclerotic plaque burden. Heme metabolism was increased in unstable compared with stable plaque of both Bvra +/+ Apoe −/− and Bvra −/− Apoe −/− tandem stenosis mice and in human coronary plaques. In mice, Bvra deletion selectively destabilized unstable plaque, characterized by positive arterial remodeling and increased cap thinning, intraplaque hemorrhage, infiltration of neutrophils, and MPO activity. Proteomic analysis confirmed Bvra deletion enhanced extracellular matrix degradation, recruitment and activation of neutrophils, and associated oxidative stress in unstable plaque. Conclusions: Bilirubin deficiency, resulting from global Bvra deletion, generates a proatherogenic phenotype and selectively enhances neutrophil-mediated inflammation and destabilization of unstable plaque, thereby providing a link between bilirubin and cardiovascular disease risk.
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- 2023
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13. An improved method for the detection of myeloperoxidase chlorinating activity in biological systems using the redox probe hydroethidine
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Niv Vigder, Cacang Suarna, Leo Corcilius, James Nadel, Weiyu Chen, Richard Payne, Sergey Tumanov, and Roland Stocker
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Physiology (medical) ,Biochemistry - Abstract
Conversion of the redox probe hydroethidine (HE) to 2-chloroethidium (2-Cl-E
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- 2023
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14. Near-Infrared Autofluorescence (NIRAF) in Atherosclerotic Plaque Dissociates from Intraplaque Hemorrhage and Bilirubin
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Stocker, Weiyu Chen, James Nadel, Sergey Tumanov, and Roland
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bilirubin ,intraplaque hemorrhage (IPH) ,near-infrared autofluorescence (NIRAF) ,atherosclerosis - Abstract
Near-infrared autofluorescence (NIRAF) in unstable atherosclerotic plaque has been suggested as a novel imaging technology for high-risk atherosclerosis. Intraplaque hemorrhage (IPH) and bilirubin, derived from the subsequent degradation of heme, have been proposed as the source of NIRAF, although their roles and the underlying mechanism responsible for NIRAF remain unclear. To test the proposed role of bilirubin as the source of NIRAF in high-risk atherosclerosis, Biliverdin reductase a gene and apolipoprotein E gene double-knockout (Bvra−/−Apoe−/−) mice were subjected to the Western diet and tandem stenosis (TS) surgery, as a model of both bilirubin deficiency and plaque instability. Human coronary arteries containing atherosclerotic plaques were obtained from heart transplant recipients. The NIRAF was determined by in vivo fluorescence emission computed tomography, and ex vivo infrared imaging. The cholesterol content was quantified by HPLC with UV detection. In Bvra+/+Apoe−/− TS mice, the NIRAF intensity was significantly higher in unstable plaque than in stable plaque, yet the NIRAF in unstable plaque was undistinguishable in Bvra+/+Apoe−/− and littermate Bvra−/−Apoe−/− TS mice. Moreover, the unstable plaque in TS mice exhibited a lower NIRAF compared with highly cellular plaque that lacked most of the features of unstable plaque. In human coronary arteries, the NIRAF associated with cholesterol-rich, calcified lesions, rather than just cholesterol-rich lesions. The NIRAF in atherosclerotic plaque can be dissociated from IPH and bilirubin, such that the compositional meaning of an elevated NIRAF remains obscure.
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- 2023
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15. Completeness theorem for the system of eigenfunctions of the complex Schrödinger operator Lc,α=−d2/dx2+cxα
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Sergey Tumanov
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symbols.namesake ,Transcendental equation ,Operator (physics) ,Dirichlet boundary condition ,Completeness (order theory) ,Applied Mathematics ,symbols ,Gödel's completeness theorem ,Eigenfunction ,Schrödinger's cat ,Analysis ,Mathematics ,Mathematical physics - Abstract
The completeness of the system of eigenfunctions of the complex Schrodinger operator L c = − d 2 / d x 2 + c x 2 / 3 on the semi-axis in L 2 ( R + ) with Dirichlet boundary conditions is proved for all c: | arg c | π / 2 + θ 0 , where π / 10 θ 0 π / 2 is determined as the only solution of a certain transcendental equation.
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- 2022
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16. AGPAT2 interaction with CDP-diacylglycerol synthases promotes the flux of fatty acids through the CDP-diacylglycerol pathway
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Ping Rong, Shuai Chen, Mingming Gao, Hongyuan Yang, Ivan Lukmantara, Xiaowei Wang, Qian Ouyang, Roland Stocker, Guanghou Shui, Feitong Dong, Sergey Tumanov, Xun Huang, Jiesi Xu, Andrew J. Brown, Xin Gong, Hoi Yin Mak, Sin Man Lam, and Ximing Du
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Science ,General Physics and Astronomy ,Phosphatidic Acids ,Multienzyme complexes ,General Biochemistry, Genetics and Molecular Biology ,Article ,Cell Line ,chemistry.chemical_compound ,Mice ,Lipid droplet ,Lysophosphatidic acid ,Animals ,Humans ,Phospholipids ,CDS1 ,Cytidine Diphosphate Diglycerides ,Multidisciplinary ,Chemistry ,Lipogenesis ,Fatty Acids ,Lipid metabolism ,General Chemistry ,Phosphatidic acid ,Metabolism ,Lipid Droplets ,Metabolic syndrome ,Biosynthetic Pathways ,carbohydrates (lipids) ,Mechanisms of disease ,Biochemistry ,Liver ,Diacylglycerol Cholinephosphotransferase ,lipids (amino acids, peptides, and proteins) ,Flux (metabolism) ,Biogenesis ,Acyltransferases ,Oleic Acid - Abstract
AGPATs (1-acylglycerol-3-phosphate O-acyltransferases) catalyze the acylation of lysophosphatidic acid to form phosphatidic acid (PA), a key step in the glycerol-3-phosphate pathway for the synthesis of phospholipids and triacylglycerols. AGPAT2 is the only AGPAT isoform whose loss-of-function mutations cause a severe form of human congenital generalized lipodystrophy. Paradoxically, AGPAT2 deficiency is known to dramatically increase the level of its product, PA. Here, we find that AGPAT2 deficiency impairs the biogenesis and growth of lipid droplets. We show that AGPAT2 deficiency compromises the stability of CDP-diacylglycerol (DAG) synthases (CDSs) and decreases CDS activity in both cell lines and mouse liver. Moreover, AGPAT2 and CDS1/2 can directly interact and form functional complexes, which promote the metabolism of PA along the CDP-DAG pathway of phospholipid synthesis. Our results provide key insights into the regulation of metabolic flux during lipid synthesis and suggest substrate channelling at a major branch point of the glycerol-3-phosphate pathway., AGPATs (1-acylglycerol-3-phosphate O-acyltransferases) catalyze the acylation of lysophosphatidic acid to form phosphatidic acid (PA), a key step in the synthesis of all glycerolipids. Here, the authors show that AGPAT2 and CDP-DAG synthases (CDS1 and CDS2) form functional complexes that promote further conversion of PA along the CDP-DAG pathway of phospholipid synthesis.
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- 2021
17. Barocycler-Based Concurrent Multiomics Method To Assess Molecular Changes Associated with Atherosclerosis Using Small Amounts of Arterial Tissue from a Single Mouse
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Mark P. Hodson, Phillip J. Robinson, Roland Stocker, Peter G. Hains, Jihan Talib, and Sergey Tumanov
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Proteomics ,Apolipoprotein E Gene ,Pathology ,medicine.medical_specialty ,Lysis ,Metabolite ,Analytical Chemistry ,Mice ,chemistry.chemical_compound ,Apolipoproteins E ,Tissue Lysis ,Metabolomics ,Tandem Mass Spectrometry ,medicine ,Animals ,Chromatography, High Pressure Liquid ,Mice, Knockout ,Principal Component Analysis ,Chemistry ,Hydrophilic interaction chromatography ,Arteries ,Atherosclerosis ,Omics ,Lipids ,Pathophysiology ,Mice, Inbred C57BL ,Disease Models, Animal ,Metabolome ,Hydrophobic and Hydrophilic Interactions - Abstract
Atherosclerosis is a complex, multifactorial disease characterized by the buildup of plaque in the arterial wall. Apolipoprotein E gene deficient (Apoe-/-) mice serve as a commonly used tool to elucidate the pathophysiology of atherosclerosis because of their propensity to spontaneously develop arterial lesions. To date, however, an integrated omics assessment of atherosclerotic lesions in individual Apoe-/- mice has been challenging because of the small amount of diseased and nondiseased tissue available. To address this current limitation, we developed a multiomics method (Multi-ABLE) based on the proteomic method called accelerated Barocycler lysis and extraction (ABLE) to assess the depth of information that can be obtained from arterial tissue derived from a single mouse by splitting ABLE to allow for a combined proteomics-metabolomics-lipidomics analysis (Multi-ABLE). The new method includes tissue lysis via pressure cycling technology (PCT) in a Barocycler, followed by proteomic analysis of half the sample by nanoLC-MS and sequential extraction of lipids (organic extract) and metabolites (aqueous extract) combined with HILIC and reversed phase chromatography and time-of-flight mass spectrometry on the other half. Proteomic analysis identified 845 proteins, 93 of which were significantly altered in lesion-containing arteries. Lipidomic and metabolomic analyses detected 851 lipid and 362 metabolite features, which included 215 and 65 identified lipids and metabolites, respectively. The Multi-ABLE method is the first to apply a concurrent multiomics pipeline to cardiovascular disease using small (
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- 2019
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18. Effect of free fatty acids and lipolysis on Sauvignon Blanc fermentation
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Sergey Tumanov, Farhana R. Pinu, Silas G. Villas-Boas, and David R. Greenwood
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0301 basic medicine ,chemistry.chemical_classification ,biology ,Chemistry ,Linoleic acid ,010401 analytical chemistry ,food and beverages ,Fatty acid ,Horticulture ,biology.organism_classification ,01 natural sciences ,Yeast ,0104 chemical sciences ,03 medical and health sciences ,chemistry.chemical_compound ,030104 developmental biology ,biology.protein ,Lipolysis ,Fermentation ,Food science ,Lipase ,Aroma ,Winemaking - Abstract
Background and Aims The volatile thiols, such as 3‐mercaptohexanol, 3‐mercaptohexyl acetate and 4‐mercapto‐4‐methylpentan‐2‐one, are major aroma compounds responsible for the distinctive tropical notes (passionfruit and grapefruit) in New Zealand Sauvignon Blanc wines. Previously, it was observed that traces of linoleic acid in grape juice can significantly affect the development of these volatile thiols and other aroma compounds in wine. Here, we examined the effect of the fatty acids commonly found in Sauvignon Blanc grape juice as well as juice lipid lipolysis on the development of aroma compounds in the resulting wines. Methods and Results Experiments were performed to increase the total free fatty acid concentration in grape juice through juice treatment with acidic lipase from Aspergillus niger and through co‐cultured fermentations with non‐Saccharomyces lipase‐secreting yeasts. We observed a significant reduction in the production of 3‐mercaptohexyl acetate in fermented wines upon supplementation with linoleic acid and lipase. Supplementation with lipase increased the concentration of 3‐mercaptohexanol and all ethyl esters detected, while reducing the development of acetate esters. Co‐cultured fermentations also affected the development of many classes of aroma compounds. Conclusions This study demonstrated that the aroma profile of wines could be effectively manipulated by altering the amount of free unsaturated fatty acids in grape juice through lipolytic enzyme supplementation or co‐fermentation with non‐Saccharomyces lipolytic yeast species. Significance of the Study The key findings of this study may lead to new winemaking strategies through the manipulation of the lipid component of grape juice.
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- 2018
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19. Comprehensive lipidome profiling of Sauvignon blanc grape juice
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David R. Greenwood, Silas G. Villas-Boas, Yuri Zubenko, Vadim V. Shmanai, Marc Greven, and Sergey Tumanov
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Wine ,chemistry.chemical_classification ,food and beverages ,Fatty acid ,Saccharomyces cerevisiae ,General Medicine ,Shotgun lipidomics ,Lipidome ,Biology ,Gas Chromatography-Mass Spectrometry ,Yeast ,Water based ,Analytical Chemistry ,chemistry ,Yeasts ,Lipid content ,Fermentation ,Lipidomics ,Vitis ,Food science ,Food Science - Abstract
This study presents a comprehensive lipidome analysis of Sauvignon blanc grape juice by combining GC-MS based fatty acid profiling with shotgun lipidomics strategy. We observed that despite grape juice being a water based matrix it contains a diverse range of lipid species, including common saturated and unsaturated free and intact fatty acids as well as odd-numbered and hydroxy fatty acids. Based on GC-MS quantitative data, we found that the total lipid content of grape juice could be as high as 2.80 g/L. The majority of lipids were present in the form of complex lipids with relatively small amount of free fatty acids (15%). Therefore we concluded that the lipidome should be considered an important component of grape juice with the potential to impact on fermentation processes as well as on the sensorial properties of fermented products. This work serves as a hypothesis generating tool, the results of which justify follow-up studies to explore the influence of the grape juice lipidome and lipid metabolism in yeast on the aroma profile of wine.
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- 2015
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20. Pyruvate carboxylation enables growth of SDH-deficient cells by supporting aspartate biosynthesis
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Alexei Vazquez, Vinay Bulusu, Elaine D. MacKenzie, Stewart Fleming, Sergey Tumanov, Gabriela Kalna, Karen Blyth, Eyal Gottlieb, David Stevenson, Douglas Strathdee, Colin Nixon, Francesca Schiavi, Gillian M. Mackay, Simone Cardaci, Jurre J. Kamphorst, Liang Zheng, and Niels J. F. van den Broek
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Male ,Mice, 129 Strain ,Immunoblotting ,Carboxylic Acids ,Mice, Nude ,macromolecular substances ,Kidney ,Article ,chemistry.chemical_compound ,Pyruvic Acid ,Extracellular ,Animals ,Humans ,Metabolomics ,Carcinoma, Renal Cell ,Cells, Cultured ,Cell Line, Transformed ,Cell Proliferation ,Pyruvate Carboxylase ,Mice, Knockout ,Aspartic Acid ,Mice, Inbred BALB C ,biology ,Cell growth ,Succinate dehydrogenase ,Kidney metabolism ,Cell Biology ,Kidney Neoplasms ,Pyruvate carboxylase ,Cell biology ,Citric acid cycle ,Mice, Inbred C57BL ,Succinate Dehydrogenase ,Cell Transformation, Neoplastic ,Biochemistry ,chemistry ,Cell culture ,biology.protein ,RNA Interference ,Pyruvic acid - Abstract
Succinate dehydrogenase (SDH) is a hetero-tetrameric nuclear-encoded complex responsible for the oxidation of succinate to fumarate in the tricarboxylic acid (TCA) cycle. Loss-of-function mutations in any of the SDH genes are associated with cancer formation. However, the impact of SDH loss on cell metabolism and the mechanisms enabling growth of SDH-defective cells are largely unknown. Here, we generated Sdhb-ablated kidney mouse cells and employed comparative metabolomics and stable isotope-labelling approaches to identify nutritional requirements and metabolic adaptations to SDH loss. We found that lack of SDH activity commits cells to consume extracellular pyruvate, which sustains Warburg-like bioenergetic features. We further demonstrated that pyruvate carboxylation diverts glucose-derived carbons into aspartate biosynthesis, thus sustaining cell growth. By identifying pyruvate carboxylase as an essential gene for the proliferation and tumorigenic capacity of SDH-deficient cells, this study revealed a metabolic vulnerability for potential future treatment of SDH-associated malignancies.
- Published
- 2015
21. Chemicals eluting from disposable plastic syringes and syringe filters alter neurite growth, axogenesis and the microtubule cytoskeleton in cultured hippocampal neurons
- Author
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Sergey Tumanov, Tet Woo Lee, Johanna M. Montgomery, Nigel P. Birch, and Silas G. Villas-Boas
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Bisphenol A ,Neurite ,Dibutyl phthalate ,Neurogenesis ,Hippocampal formation ,Hippocampus ,Microtubules ,Biochemistry ,Palmitic acid ,Mice ,Cellular and Molecular Neuroscience ,chemistry.chemical_compound ,Phenols ,Polymer chemistry ,Neurites ,medicine ,Animals ,Benzhydryl Compounds ,Axon ,Disposable Equipment ,Cells, Cultured ,Cytoskeleton ,Syringe ,Syringes ,Axons ,Dibutyl Phthalate ,medicine.anatomical_structure ,chemistry ,Biophysics ,Stearic acid ,Plastics ,Filtration - Abstract
Cultures of dissociated hippocampal neurons are often used to study neuronal cell biology. We report that the development of these neurons is strongly affected by chemicals leaching from commonly used disposable medical-grade syringes and syringe filters. Contamination of culture medium by bioactive substance(s) from syringes and filters occurred with multiple manufacturing lots and filter types under normal use conditions and resulted in changes to neurite growth, axon formation and the neuronal microtubule cytoskeleton. The effects on neuronal morphology were concentration dependent and significant effects were detected even after substantial dilution of the contaminated medium. Gas chromatography-mass spectrometry analyses revealed many chemicals eluting from the syringes and filters. Three of these chemicals (stearic acid, palmitic acid and 1,2-ethanediol monoacetate) were tested but showed no effects on neurite growth. Similar changes in neuronal morphology were seen with high concentrations of bisphenol A and dibutyl phthalate, two hormonally active plasticisers. Although no such compounds were detected by gas chromatography–mass spectrometry, unknown plasticisers in leachates may affect neurites. This is the first study to show that leachates from laboratory consumables can alter the growth of cultured hippocampal neurons. We highlight important considerations to ensure leachate contamination does not compromise cell biology experiments.
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- 2015
- Full Text
- View/download PDF
22. Russia–EU Relations, or How the Russians Really View the EU
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Ekaterina Romanova, Sergey Tumanov, and Alexander Gasparishvili
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business.industry ,Near abroad ,Geography, Planning and Development ,Development ,Public opinion ,Geopolitics ,Politics ,Economy ,Foreign policy ,Political science ,Political Science and International Relations ,European Neighbourhood Policy ,media_common.cataloged_instance ,Popular opinion ,European union ,business ,media_common - Abstract
The recent history and the current state of relations between Russia and the European Union (EU) reflect the geopolitical competition between the two powers over their contested neighbourhood – Ukraine, Belarus and Moldova. Although prioritizing the EU as its major trade and political partner, Russia is also conscious of its strategic interests in the ‘near abroad’. While there is little discrimination in the political discourse of Russian elites in relation to the European Neighbourhood Policy (ENP), in reality, as popular opinion indicates, those neighbours who openly show their allegiances to the EU – Ukraine, Georgia and Moldova – have been increasingly categorized as hostile and unfriendly towards Russia. Public opinion remains strikingly congruent with and reflective of government foreign policy preferences.
- Published
- 2011
- Full Text
- View/download PDF
23. Fish oil supplements in New Zealand are highly oxidised and do not meet label content of n-3 PUFA
- Author
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Manohar L. Garg, Wayne S. Cutfield, Sergey Tumanov, Benjamin B. Albert, David Cameron-Smith, Paul L. Hofman, José G. B. Derraik, and Silas G. Villas-Boas
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chemistry.chemical_classification ,Multidisciplinary ,Docosahexaenoic Acids ,Fatty acid ,Oxidation reduction ,Biology ,Fish oil ,Eicosapentaenoic acid ,Corrigenda ,chemistry ,Eicosapentaenoic Acid ,Docosahexaenoic acid ,Dietary Supplements ,Food Quality ,Humans ,Food science ,Food quality ,Oxidation-Reduction ,N 3 pufa ,Food Analysis ,New Zealand - Abstract
We evaluated the quality and content of fish oil supplements in New Zealand. All encapsulated fish oil supplements marketed in New Zealand were eligible for inclusion. Fatty acid content was measured by gas chromatography. Peroxide values (PV) and anisidine values (AV) were measured and total oxidation values (Totox) calculated. Only 3 of 32 fish oil supplements contained quantities of eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA) that were equal or higher than labelled content, with most products tested (69%) containing
- Published
- 2015
- Full Text
- View/download PDF
24. Global metabolic response of Enterococcus faecalis to oxygen
- Author
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Carla Portela, Gregory M. Cook, Kathleen F. Smart, Silas G. Villas-Boas, Sergey Tumanov, and Universidade do Minho
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Cellular respiration ,Biology ,medicine.disease_cause ,Microbiology ,Enterococcus faecalis ,chemistry.chemical_compound ,medicine ,Metabolomics ,Anaerobiosis ,Mode of action ,Molecular Biology ,Science & Technology ,Fatty acid metabolism ,Fatty Acids ,Vitamin K 2 ,Metabolism ,Gene Expression Regulation, Bacterial ,Articles ,biology.organism_classification ,Aerobiosis ,3. Good health ,Up-Regulation ,Oxygen ,Metabolic pathway ,chemistry ,Biochemistry ,Transcriptome ,Oxidative stress ,Bacteria - Abstract
Oxygen and oxidative stress have become relevant components in clarifying the mechanism that weakens bacterial cells in parallel to the mode of action of bactericidal antibiotics. Given the importance of oxidative stress in the overall defense mechanism of bacteria and their apparent role in the antimicrobial mode of action, it is important to understand how bacteria respond to this stress at a metabolic level. The aim of this study was to determine the impact of oxygen on the metabolism of the facultative anaerobe Enterococcus faecalis using continuous culture, metabolomics and 13C-enrichment of metabolic intermediates. When E. faecalis was rapidly transitioned from anaerobic to aerobic growth, cellular metabolism was directed towards intracellular glutathione production and glycolysis was upregulated two-fold, which increased the supply of critical metabolite precursors (e.g. glycine and glutamate) for sulfur metabolism and glutathione biosynthesis as well as reducing power for cellular respiration in the presence of haemin. The ultimate metabolic response of E. faecalis to an aerobic environment was the upregulation of fatty acid metabolism and benzoate degradation, which was linked to important changes in the bacterial membrane composition as evidenced by changes in membrane fatty acid composition and the reduction of membrane-associated demethylmenaquinone. These key metabolic pathways associated with the response of E. faecalis to oxygen may represent potential new targets to increase the susceptibility of this bacterium to bactericidal drugs., This work was funded by the HRC (Health and Research Council of New Zealand) and the FCT (Portuguese Foundation for Science and Technology), with grant reference SFRH/BD/47016/2008.
- Published
- 2014
25. Prejudice in the former Soviet Union
- Author
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Joseph Hraba, Louk Hagendoorn, Sergey Tumanov, and Carolyn S. Dunham
- Subjects
Cultural Studies ,Tatar ,Sociology and Political Science ,Ukrainian ,media_common.quotation_subject ,Ethnic group ,language.human_language ,Anthropology ,Law ,language ,Soviet union ,Psychology ,Prejudice ,Social psychology ,media_common - Abstract
Research in the United States and Europe has focused on the prejudice of majority groups towards minority groups, the implication somehow being that majority groups were more prejudiced than minority groups. In the former Soviet Union, ethnic environments were more complex; the same ethnic group could be a majority in one region but a minority in others. Using a sample of 1,459 first‐ and fourth‐year university students from eight regions of the former USSR, this study focuses on Russian, Tatar and Ukrainian respondents (n = 821) to test the hypothesis that the status of an ethnic group (majority/minority) or in‐group bias explains members’ prejudice. According to in‐group bias, all ethnic groups are equally prejudiced, minority and majority alike, whereas group status posits that groups in a majority position are more prejudiced. Findings show that group status has greater impact on prejudice than does in‐group bias. This applies, however, only to Russians. Interpretations of the findings rest o...
- Published
- 1997
- Full Text
- View/download PDF
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