Liver Glutamate Dehydrogenase Controls Whole-Body Energy Partitioning Through Amino Acid–Derived Gluconeogenesis and Ammonia Homeostasis
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Development of a System of High Ornithine and Citrulline Production by a Plant-Derived Lactic Acid Bacterium, Weissella Confusa K-28
Development of a system of high ornithine and citrulline production by a plant-derived lactic acid bacterium, Weissella confusa K-28 㸦᳜≀⏤᮶ங㓟⳦ :HLVVHOODFRQIXVD. ࠾ࡅࡿ ࢜ࣝࢽࢳࣥཬࡧࢩࢺࣝࣜࣥ㧗⏕⏘ࢩࢫࢸ࣒ࡢᵓ⠏㸧 Md Rakhimuzzaman Student ID: D164180 Supervisor: Prof. Masanori Sugiyama Department of Probiotic Science for Preventive Medicine Graduate School of Biomedical and Health Sciences Hiroshima University, Japan 2019 ABBREVIATIONS ADI arginine deiminase AUC area under curve BLAST basic local alignment search tool CK carbamate kinase dNTP deoxyribonucleotide triphosphate DDBJ DNA Data Bank of Japan EDTA ethylenediamine tetra-acetic acid EtOH ethanol EPS exopolysaccharide GABA gamma-aminobutyric acid GRAS generally recognized as safe HPLC high performance liquid chromatography LAB lactic acid bacteria Lb. Lactobacillus OD optical density OTC ornithine carbamoyltransferase PITC phenyl isothiocyanate TAE tris-acetate-ethylenediamine tetra-acetic acid TE tris-ethylenediamine tetra-acetic acid TEA triethylamine Tris tris(hydroxymethyl)aminomethane rDNA ribosomal deoxyribonucleic acid RT-PCR reverse transcription polymerase chain reaction CONTENTS INTRODUCTION 1-17 OBJECTIVES 18 MATERIALS AND METHODS 19-34 RESULTS 35-57 DISCUSSIONS 58-65 CONCLUSION 66-67 ACKNOWLEDGEMENTS 68 REFERENCES 69-84 INTRODUCTION Lactic acid bacteria (LAB) are an order of gram-positive, acid-tolerant, generally nonsporulating, non-respiring, either rod-shaped or spherical microorganisms. Since LAB lack the ability of synthesizing porphyrins (heme, and components of respiratory chains) (Pessione et al, 2010), the bacteria can not generate ATP without external heme supplementation (Pessione et al, 2010). The LAB strains can only obtain ATP by fermentation, usually they generate the ATP from some sugars. Because LAB do not use oxygen for energy production, the bacteria easily grow under anaerobic conditions, but they can also grow in presence of oxygen. -
Screening of a Composite Library of Clinically Used Drugs and Well
HHS Public Access Author manuscript Author ManuscriptAuthor Manuscript Author Pharmacol Manuscript Author Res. Author Manuscript Author manuscript; available in PMC 2017 November 01. Published in final edited form as: Pharmacol Res. 2016 November ; 113(Pt A): 18–37. doi:10.1016/j.phrs.2016.08.016. Screening of a composite library of clinically used drugs and well-characterized pharmacological compounds for cystathionine β-synthase inhibition identifies benserazide as a drug potentially suitable for repurposing for the experimental therapy of colon cancer Nadiya Druzhynaa, Bartosz Szczesnya, Gabor Olaha, Katalin Módisa,b, Antonia Asimakopoulouc,d, Athanasia Pavlidoue, Petra Szoleczkya, Domokos Geröa, Kazunori Yanagia, Gabor Töröa, Isabel López-Garcíaa, Vassilios Myrianthopoulose, Emmanuel Mikrose, John R. Zatarainb, Celia Chaob, Andreas Papapetropoulosd,e, Mark R. Hellmichb,f, and Csaba Szaboa,f,* aDepartment of Anesthesiology, The University of Texas Medical Branch, Galveston, TX, USA bDepartment of Surgery, The University of Texas Medical Branch, Galveston, TX, USA cLaboratory of Molecular Pharmacology, Department of Pharmacy, University of Patras, Greece dCenter of Clinical, Experimental Surgery & Translational Research, Biomedical Research Foundation of the Academy of Athens, Greece eNational and Kapodistrian University of Athens, School of Pharmacy, Athens, Greece fCBS Therapeutics Inc., Galveston, TX, USA Abstract Cystathionine-β-synthase (CBS) has been recently identified as a drug target for several forms of cancer. Currently no -
Metabolic Reprogramming in Prostate Cancer
www.nature.com/bjc REVIEW ARTICLE Metabolic reprogramming in prostate cancer Fahim Ahmad 1,2, Murali Krishna Cherukuri2 and Peter L. Choyke1 Although low risk localised prostate cancer has an excellent prognosis owing to effective treatments, such as surgery, radiation, cryosurgery and hormone therapy, metastatic prostate cancer remains incurable. Existing therapeutic regimens prolong life; however, they are beset by problems of resistance, resulting in poor outcomes. Treatment resistance arises primarily from tumour heterogeneity, altered genetic signatures and metabolic reprogramming, all of which enable the tumour to serially adapt to drugs during the course of treatment. In this review, we focus on alterations in the metabolism of prostate cancer, including genetic signatures and molecular pathways associated with metabolic reprogramming. Advances in our understanding of prostate cancer metabolism might help to explain many of the adaptive responses that are induced by therapy, which might, in turn, lead to the attainment of more durable therapeutic responses. British Journal of Cancer https://doi.org/10.1038/s41416-021-01435-5 BACKGROUND Several tools have been designed to assess metabolism without Cellular metabolism involves complex biochemical processes disturbing the system. Advances in nuclear magnetic resonance through which specific nutrients are consumed. Carbohydrates, and mass spectroscopy have helped to quantify the carbon influx fatty acids and amino acids are the main source of nutrients for of the central metabolic pathways (e.g. TCA cycle, glycolysis and energy homeostasis and macromolecular synthesis. They are the pentose phosphate pathway) in mammalian systems, and this main constituent of core metabolic pathways that can be approach has been instrumental in demonstrating that the classified as anabolic, catabolic or waste producing (Fig. -
Comparison of Control Materials Containing Animal and Human Enzymes 579
Gruber, Hundt, Klarweinf and Möllfering: Comparison of control materials containing animal and human enzymes 579 J. Clin. Chem. Clin. Biochem. Vol. 15,1977, pp. 579-582 Comparison of Control Materials Containing Animal and Human Enzymes Comparison of Enzymes of Human and Animal Origin, III By W. Gruber, D. Hundt, M. Klarweinf and A Mollering Boehringer Mannheim GmbH, Biochemica Werk Tutzing (Received February 7/May 31,1977) Summary: Highly purified enzymes of diagnostic interest from human and animal organs, dissolved in pooled human serum and in bovine serum albumin solution, were compared with respect to their response to alterations in routine clinical chemical assay conditions. Their response to changes in temperature, substrate concentration and pH-value was the same. In addition, the storage stability in each matrix was identical in the lyophilized and the reconstituted state, whereas some enzymes were remarkably less stable in the pooled human serum than in bovine serum albumin. This better stability, the better availability and decreased infectious nature of the material lead to the conclusion that animal enzymes in bovine serum albumin matrix are the material of choice for the quality control of enzyme activity determinations in clinical chemistry. Vergleichende Untersuchungen an Kontrollproben, aufgestockt mit tierischen und humanen Enzymen. Vergleich humaner und tierischer Enzyme, III. Mitteilung Zusammenfassung: Hoch gereinigte humane und tierische Enzyme von diagnostischem Interesse, gelöst in gepooltem Humanserum und in Rinderserumalbumin-Lösung wurden in Bezug auf ihr Verhalten gegenüber Änderungen der Reaktionsbedingungen bei klinisch-chemischen Routine-Methoden verglichen. Ihre Aktivitätsänderung bei Ver- änderung der Reaktionstemperatur, der Substrat-Konzentrationen und des pH-Wertes waren gleich. -
Asparaginase and Glutaminase Activities of Micro-Organisms
Journal of General MicrobiologjI (1973),76,85-99 85 Printed in Great Britain Asparaginase and Glutaminase Activities of Micro-organisms By A. IMADA, S. IGARASI, K. NAKAHAMA AND M. ISONO Microbiological Research Laboratories, Central Research Dillision, Takeda Chemical Industries, JlisB, Osaka, Japan (Received 14 September 1972; revised 28 November 1972) SUMMARY L-Asparaginase and L-glutaminase activities were detected in many micro- organisms and the distribution of these activities was found to be related to the classification of micro-organisms. Among 464 bacteria, the activities occurred in many Gram-negative bacteria and in a few Gram-positive bacteria. Most members of the family Enterobacteri- aceae possessed L-asparaginase. L-Asparaginase and L-glutaminase occurred together in a large proportion of pseudomonads. Among Gram-positive bacteria many strains of Bacillus pumilus showed strong L-asparaginase activity. Amidase activities were also observed in several strains in other families. L-Asparaginase activity was not detected in culture filtrates of 261 strains of species of the genera Streptomyces and Nocardia, but L-asparaginase and L- glutaminase were detected when these organisms were sonicated. The amidase activities in culture filtrates of 4158 fungal strains were tested. All the strains of Fusarium species formed L-asparaginase. Organisms of the genera Hjyomyces and Nectria, which are regarded as the perfect stage of the genus Fusarium, also formed L-asparaginase. Several Penicillium species formed L-asparaginase. Two organisms of the family Moniliaceae formed L-glutaminase together with L-asparaginase, and a few ascomycetous fungi formed L-asparaginase or L-glutaminase. Among I 326 yeasts, L-asparaginase or L-glutaminase occurred frequently in certain serological groups of yeasts : VI (Hansenula) group, Cryptococcus group and Rhodotorula group. -
Normalization of Γ-Glutamyl Transferase Levels Is Associated With
Ma et al. BMC Gastroenterol (2021) 21:215 https://doi.org/10.1186/s12876-021-01790-w RESEARCH ARTICLE Open Access Normalization of γ-glutamyl transferase levels is associated with better metabolic control in individuals with nonalcoholic fatty liver disease Qianqian Ma1, Xianhua Liao1, Congxiang Shao1, Yansong Lin1, Tingfeng Wu1, Yanhong Sun2, Shi‑Ting Feng3, Junzhao Ye1* and Bihui Zhong1* Abstract Background: The normalization of liver biochemical parameters usually refects the histological response to treat‑ ment for nonalcoholic fatty liver disease (NAFLD). Researchers have not clearly determined whether diferent liver enzymes exhibit various metabolic changes during the follow‑up period in patients with NAFLD. Methods: We performed a retrospective analysis of patients with NAFLD who were receiving therapy from January 2011 to December 2019. Metabolism indexes, including glucose levels, lipid profles, uric acid levels and liver bio‑ chemical parameters, were measured. Magnetic resonance imaging‑based proton density fat fraction (MRI‑PDFF) and liver ultrasound were used to evaluate steatosis. All patients received recommendations for lifestyle modifcations and guideline‑recommended pharmacological treatments with indications for drug therapy for metabolic abnormalities. Results: Overall, 1048 patients with NAFLD were included and received lifestyle modifcation recommendations and pharmaceutical interventions, including 637 (60.7%) patients with abnormal GGT levels and 767 (73.2%) patients with abnormal ALT levels. Patients with concurrent ALT and GGT abnormalities presented higher levels of metabo‑ lism indexes and higher liver fat content than those in patients with single or no abnormalities. After 12 months of follow‑up, the cumulative normalization rate of GGT was considerably lower than that of ALT (38% vs. -
Development of a Phage Display Library for Discovery of Antigenic Brucella Peptides Jeffrey Williams Iowa State University
Iowa State University Capstones, Theses and Graduate Theses and Dissertations Dissertations 2018 Development of a phage display library for discovery of antigenic Brucella peptides Jeffrey Williams Iowa State University Follow this and additional works at: https://lib.dr.iastate.edu/etd Part of the Microbiology Commons Recommended Citation Williams, Jeffrey, "Development of a phage display library for discovery of antigenic Brucella peptides" (2018). Graduate Theses and Dissertations. 16896. https://lib.dr.iastate.edu/etd/16896 This Thesis is brought to you for free and open access by the Iowa State University Capstones, Theses and Dissertations at Iowa State University Digital Repository. It has been accepted for inclusion in Graduate Theses and Dissertations by an authorized administrator of Iowa State University Digital Repository. For more information, please contact [email protected]. Development of a phage display library for discovery of antigenic Brucella peptides by Jeffrey Williams A thesis submitted to the graduate faculty in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE Major: Microbiology Program of Study Committee: Bryan H. Bellaire, Major Professor Steven Olsen Steven Carlson The student author, whose presentation of the scholarship herein was approved by the program of study committee, is solely responsible for the content of this thesis. The Graduate College will ensure this thesis is globally accessible and will not permit alterations after a degree is conferred. Iowa State University -
Amino Acid Degradation; Urea Cycle
Amino acid degradation; urea cycle Kristina Mlinac Jerković [email protected] In animals, amino acids undergo oxidative degradation in three different metabolic circumstances: 1. During the normal synthesis and degradation of cellular proteins, some amino acids that are released from protein breakdown and are not needed for new protein synthesis undergo oxidative degradation. 2. When a diet is rich in protein and the ingested amino acids exceed the body’s needs for protein synthesis, the surplus is catabolized; amino acids cannot be stored. 3. During starvation or in uncontrolled diabetes mellitus, when carbohydrates are either unavailable or not properly utilized, cellular proteins are used as fuel. Metabolic fates of amino groups - The metabolism of nitrogen-containing molecules such as proteins and nucleic acids differs significantly from that of carbohydrates and lipids. - Whereas the latter molecules can be stored and mobilized as needed for biosynthetic reactions or for energy generation, there is no nitrogen-storing molecule (one exception to this rule is storage protein in seeds). - Organisms must constantly replenish their supply of usable nitrogen to replace organic nitrogen that is lost in catabolism. For example, animals must have a steady supply of amino acids in their diets to replace the nitrogen excreted as urea, uric acid, and other nitrogenous waste products. - Since excess dietary amino acids are neither stored for future use nor excreted, they are converted to common metabolic intermediates such as pyruvate, oxaloacetate, acetyl-CoA, and α-keto-glutarate. - Consequently, amino acids are also precursors of glucose, fatty acids, and ketone bodies and are therefore metabolic fuels. -
Characterization of the Scavenger Cell Proteome in Mouse and Rat Liver
Biol. Chem. 2021; 402(9): 1073–1085 Martha Paluschinski, Cheng Jun Jin, Natalia Qvartskhava, Boris Görg, Marianne Wammers, Judith Lang, Karl Lang, Gereon Poschmann, Kai Stühler and Dieter Häussinger* Characterization of the scavenger cell proteome in mouse and rat liver + https://doi.org/10.1515/hsz-2021-0123 The data suggest that the population of perivenous GS Received January 25, 2021; accepted July 4, 2021; scavenger cells is heterogeneous and not uniform as previ- published online July 30, 2021 ously suggested which may reflect a functional heterogeneity, possibly relevant for liver regeneration. Abstract: The structural-functional organization of ammonia and glutamine metabolism in the liver acinus involves highly Keywords: glutaminase; glutamine synthetase; liver specialized hepatocyte subpopulations like glutamine syn- zonation; proteomics; scavenger cells. thetase (GS) expressing perivenous hepatocytes (scavenger cells). However, this cell population has not yet been char- acterized extensively regarding expression of other genes and Introduction potential subpopulations. This was investigated in the present study by proteome profiling of periportal GS-negative and There is a sophisticated structural-functional organization in perivenous GS-expressing hepatocytes from mouse and rat. the liver acinus with regard to ammonium and glutamine Apart from established markers of GS+ hepatocytes such as metabolism (Frieg et al. 2021; Gebhardt and Mecke 1983; glutamate/aspartate transporter II (GLT1) or ammonium Häussinger 1983, 1990). Periportal hepatocytes express en- transporter Rh type B (RhBG), we identified novel scavenger zymes required for urea synthesis such as the rate-controlling cell-specific proteins like basal transcription factor 3 (BTF3) enzyme carbamoylphosphate synthetase 1 (CPS1) and liver- and heat-shock protein 25 (HSP25). -
Protein Metabolism and It's Disorders
Protein Metabolism and it’s Disorders (Course : M.Sc. Zoology) Course Code: ZOOL 4008 (Biochemistry and Metabolism), Semester –II Dr. Shyam Babu Prasad Assistant Professor Department of Zoology Mahatma Gandhi Central University (MGCU), Motihari-845401 (Bihar) Email: [email protected] Important facts of the Protein Metabolism •Proteins metabolism referred as synthesis of protein from Amino acids (Anabolism) and breakdown of proteins (Catabolism). •In the Unit II, we discussed the synthesis (Anabolism) of various form of the proteins from different amino acids. • Here we mainly focused on the Catabolism of the protein, which is integral part of metabolism of the nitrogen-containing molecules. • Nitrogen enters in to the body in various form of compounds that is present in food, the most important is amino acids (as dietary food). • During Protein/amino acid metabolism (Catabolism), Nitrogen leaves the body as urea, ammonia, and in form of other derivatives. • The Catabolism of the protein depends on the amino acid pool and protein turnover (the rate of protein synthesis and degradation is equal). • The amino acids present in through out of the body (cells, blood, and the extracellular fluids etc) is called amino acid pools. It is maintained by following factors as represented in below diagram: Body protein Dietary degradation Protein 400gm/day 600gm/day Supplied Amino acid pool Depleted Synthesis of Remaining Synthesis of Glucose, Synthesis of amino acids Nitrogen containing Glycogen, the Body burned as compound like Ketone Proteins -
Structures, Functions, and Mechanisms of Filament Forming Enzymes: a Renaissance of Enzyme Filamentation
Structures, Functions, and Mechanisms of Filament Forming Enzymes: A Renaissance of Enzyme Filamentation A Review By Chad K. Park & Nancy C. Horton Department of Molecular and Cellular Biology University of Arizona Tucson, AZ 85721 N. C. Horton ([email protected], ORCID: 0000-0003-2710-8284) C. K. Park ([email protected], ORCID: 0000-0003-1089-9091) Keywords: Enzyme, Regulation, DNA binding, Nuclease, Run-On Oligomerization, self-association 1 Abstract Filament formation by non-cytoskeletal enzymes has been known for decades, yet only relatively recently has its wide-spread role in enzyme regulation and biology come to be appreciated. This comprehensive review summarizes what is known for each enzyme confirmed to form filamentous structures in vitro, and for the many that are known only to form large self-assemblies within cells. For some enzymes, studies describing both the in vitro filamentous structures and cellular self-assembly formation are also known and described. Special attention is paid to the detailed structures of each type of enzyme filament, as well as the roles the structures play in enzyme regulation and in biology. Where it is known or hypothesized, the advantages conferred by enzyme filamentation are reviewed. Finally, the similarities, differences, and comparison to the SgrAI system are also highlighted. 2 Contents INTRODUCTION…………………………………………………………..4 STRUCTURALLY CHARACTERIZED ENZYME FILAMENTS…….5 Acetyl CoA Carboxylase (ACC)……………………………………………………………………5 Phosphofructokinase (PFK)……………………………………………………………………….6 -
Transaminations and Urea Cycle
• Thus far, you have studied various pathways including, Glycolysis, Gluconeogenesis, synthesis and degradation of fatty acids, Pentose phosphate pathway, glycogen synthesis and degradation, Monosaccharides etc. Now we will study the metabolism of amino acids which contribute significantly to the generation of metabolic energy. carnivores 90% herbivores very little. First lets begin by understanding how we get rid of Nitrogen from our bodies, so lets look at the Urea cycle. 1 α Amino group keeps amino acids safe from oxidative breakdown. Removal of this group is essential for energy production it is an obligatory step for catabolism. Nitrogen can then be incorporated or excreted.This is done through transamination or oxidative deamination, provide amonia and aspartate sources for the Urea cycle. Transamination is funneled through glutamate. This is done through the transfer of the α amino group to α ketoglutarate. Product α-keto acid and glutamate. Alanine to pyruvate and aspartate to oxaloacetate all amino acids except lysine and threonina (lose the α amino through deamination. Glutamate dehydrogenase the oxidative deamination Glutamate only amino acid that undergoes rapid oxidative deamination (glutamate dehydrogenase NH3 + NADH), where amino groups are released as ammonia. After a meal rich in protein the levels of glutamate in liver are increased favoring amino acid degradation and formation of ammonia. Activators of this enzyme are ADP and GDP while ATP and GTP are inhibitors. This reaction occurs in the mitochondria. Ammonia can be transported to the liver from other tissues through two mechanisms that reduce the toxicity of ammonia. One through Glutamine (most tissues through, glutamine synthetase). In the liver the glutamine is converted back to glutamate (Fig.