scholarly journals Changes in Activity and Kinetic Properties of the Proteasome in Different Rat Organs during Development and Maturation

2010 ◽  
Vol 2010 ◽  
pp. 1-9 ◽  
Author(s):  
A. Petersen ◽  
A. Honarvar ◽  
M. Zetterberg
Keyword(s):  
Rat Brain ◽  
Structural Changes ◽  
Specific Activity ◽  
Kinetic Properties ◽  
Loss Of Function ◽  
Proteolytic System ◽  
Peptide Substrates ◽  
Menten Constant ◽  
Fluorogenic Peptide ◽  
Soluble Fractions

The proteasome is considered the most important proteolytic system for removal of damaged proteins with aging. Using fluorogenic peptide substrates, the chymotrypsin-like, the trypsin-like, and the peptidylglutamyl peptidase activities of the proteasome were measured in the soluble fractions of liver, brain, and lens rat homogenates. Specific activity was significantly decreased in liver and brain homogenates with maturation of the animal, that is, from newborn (7 days old) to fertile rats (2–4 months old). Rat lens homogenate exhibited an increase in activity with maturation and also with aging. Chymotrypsin-like activity was stimulated by calcium and this proteolytic activity was significantly decreased with maturation of the rat brain. The Michaelis-Menten constant (Km) increased with age in rat liver and lens, indicating a loss of affinity for its substrates by the proteasome in the animal with maturation and aging. The present data suggest that the loss of function of the proteasome with maturation may be due to structural changes of the proteasome or a decreased content of regulatory components.

scholarly journals Targeting hydroxycinnamoyl CoA: shikimate hydroxycinnamoyl transferase for lignin modification in Brachypodium distachyon

2021 ◽  
Vol 14 (1) ◽  
Author(s):  
Juan Carlos Serrani-Yarce ◽  
Luis Escamilla-Trevino ◽  
Jaime Barros ◽  
Lina Gallego-Giraldo ◽  
Yunqiao Pu ◽  
...  
Keyword(s):  
Negative Impact ◽  
Lignin Content ◽  
Brachypodium Distachyon ◽  
Lignin Biosynthesis ◽  
Reverse Direction ◽  
Wall Structure ◽  
Kinetic Properties ◽  
Loss Of Function ◽  
Down Regulation ◽  
Lignin Modification

Abstract Background Hydroxycinnamoyl CoA: shikimate hydroxycinnamoyl transferase (HCT) is a central enzyme of the so-called “esters” pathway to monolignols. As originally envisioned, HCT functions twice in this pathway, to form coumaroyl shikimate and then, in the “reverse” direction, to convert caffeoyl shikimate to caffeoyl CoA. The discovery of a caffeoyl shikimate esterase (CSE) that forms caffeic acid directly from caffeoyl shikimate calls into question the need for the reverse HCT reaction in lignin biosynthesis. Loss of function of HCT gives severe growth phenotypes in several dicot plants, but less so in some monocots, questioning whether this enzyme, and therefore the shikimate shunt, plays the same role in both monocots and dicots. The model grass Brachypodium distachyon has two HCT genes, but lacks a classical CSE gene. This study was therefore conducted to evaluate the utility of HCT as a target for lignin modification in a species with an “incomplete” shikimate shunt. Results The kinetic properties of recombinant B. distachyon HCTs were compared with those from Arabidopsis thaliana, Medicago truncatula, and Panicum virgatum (switchgrass) for both the forward and reverse reactions. Along with two M. truncatula HCTs, B. distachyon HCT2 had the least kinetically unfavorable reverse HCT reaction, and this enzyme is induced when HCT1 is down-regulated. Down regulation of B. distachyon HCT1, or co-down-regulation of HCT1 and HCT2, by RNA interference led to reduced lignin levels, with only modest changes in lignin composition and molecular weight. Conclusions Down-regulation of HCT1, or co-down-regulation of both HCT genes, in B. distachyon results in less extensive changes in lignin content/composition and cell wall structure than observed following HCT down-regulation in dicots, with little negative impact on biomass yield. Nevertheless, HCT down-regulation leads to significant improvements in biomass saccharification efficiency, making this gene a preferred target for biotechnological improvement of grasses for bioprocessing.

Glycogen phosphorylase in fish muscle: demonstration of three interconvertible forms

1990 ◽  
Vol 258 (2) ◽  
pp. C344-C351 ◽  
Author(s):  
H. Schmidt ◽  
G. Wegener
Keyword(s):  
Glycogen Phosphorylase ◽  
Specific Activity ◽  
Polyacrylamide Gel Electrophoresis ◽  
Sodium Dodecyl ◽  
Muscular Activity ◽  
Fish Muscle ◽  
Kinetic Properties ◽  
Phosphorylase Activity ◽  
Tissue Extracts

White skeletal muscle of crucian carp contains a single isoenzyme of glycogen phosphorylase, which was purified approximately 300-fold to a specific activity of approximately 13 mumol.min-1.mg protein-1 (assayed in the direction of glycogen breakdown at 25 degrees C). Tissue extracts of crucian muscle produced three distinct peaks of phosphorylase activity when separated on DEAE-Sephacel. Peaks 1 and 3 were identified, in terms of kinetic properties and by interconversion experiments, as phosphorylase b and a, respectively. Peak 2 was shown to be a phospho-dephospho hybrid. The three interconvertible forms of phosphorylase were purified and shown to be dimeric molecules at 20 degrees C. At 5 degrees C, a and the hybrid tended to form tetramers. The Mr of the subunit was estimated to be 96,400 from sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The hybrid is kinetically homogeneous, and its kinetic properties are intermediate between those of b and a forms. The b, hybrid, and a forms of phosphorylase can be isolated from rapidly frozen muscle of crucian but in different proportions, depending on whether fish were anesthetized or forced to muscular activity for 20 s. Muscle of anesthetized crucian had 36, 36, and 28% of phosphorylase b, hybrid, and a forms, respectively, whereas the corresponding values for exercised fish were 12, 37, and 51%. Results suggest that three interconvertible forms of phosphorylase exist simultaneously in crucian muscle and that hybrid phosphorylase is active in contracting muscle in vivo.

scholarly journals [Phosphotyrosine]protein phosphatase in rat brain. A major [phosphotyrosine]protein phosphatase is a 23 kDa protein distinct from acid phosphatase

1986 ◽  
Vol 239 (1) ◽  
pp. 155-162 ◽  
Author(s):  
M Okada ◽  
K Owada ◽  
H Nakagawa
Keyword(s):  
Acid Phosphatase ◽  
Molecular Mass ◽  
Rat Brain ◽  
Column Chromatography ◽  
Protein Phosphatase ◽  
Specific Activity ◽  
Deae Cellulose ◽  
Sodium Vanadate ◽  
Nitrophenyl Phosphate ◽  
Phosphotyrosine Protein Phosphatase

A [phosphotyrosine]protein phosphatase (PTPPase) was purified almost to homogeneity from rat brain, with [32P]p130gag-fps, an oncogene product of Fujinami sarcoma virus, as substrate. The characteristics of the purified preparation of PTPPase were as follows: the enzyme was a monomer with a molecular mass of 23 kDa; its optimum pH was 5.0-5.5; its activity was not dependent on bivalent cations; its activity was strongly inhibited by sodium vanadate, but was not inhibited by ZnCl2, L(+)-tartrate or NaF; it catalysed the dephosphorylation of [32P]p130gag-fps, [[32P]Tyr]casein, p-nitrophenyl phosphate and L-phosphotyrosine, but did not hydrolyse [[32P]Ser]tubulin, L-phosphoserine, DL-phosphothreonine, 5′-AMP, 2′-AMP or beta-glycerophosphate significantly. During the purification, most of the PTPPase activity was recovered in distinct fractions from those of conventional low-molecular-mass acid phosphatase (APase), which was reported to be a major PTPPase [Chernoff & Li (1985) Arch. Biochem. Biophys. 240, 135-145], from DE-52 DEAE-cellulose column chromatography, and those two enzymes could be completely separated by Sephadex G-75 column chromatography. APase also showed PTPPase activity with [32P]p130gag-fps, but the specific activity was lower than that of PTPPase with molecular mass of 23 kDa, and it was not sensitive to sodium vanadate. These findings suggested that PTPPase (23 kDa) was the major and specific PTPPase in the cell.

DNA Polymerases of Newborn Rat Brain and Liver

1971 ◽  
Vol 49 (8) ◽  
pp. 978-986 ◽  
Author(s):  
A. D. Bharucha ◽  
M. R. V. Murthy
Keyword(s):  
Rat Brain ◽  
Specific Activity ◽  
Hydrolytic Enzymes ◽  
Polymerase Activity ◽  
Newborn Rat ◽  
Newborn Brain ◽  
Rat Brain And Liver ◽  
Mammalian Tissues ◽  
Optimum Ph ◽  
Sulfhydryl Compounds

DNA polymerase activity was found to be present in appreciable quantities in the extracts of whole tissue (TS) as well as of nuclei (NS) isolated from newborn rat brain and liver. The NS fractions of either of the two tissues exhibited a higher specific activity per unit protein than the corresponding TS fractions. The optimum pH requirements as well as the ability to support DNA synthesis over a long period indicate that the NS fractions were also comparatively less contaminated by interfering substances than the TS fractions.The reaction requirements for the incorporation of TMP residues into DNA by the NS fractions of newborn rat brain and liver and the effect of various inhibitors and hydrolytic enzymes on this reaction were also investigated. These extracts resembled preparations from other mammalian tissues in that they exhibited absolute requirements for the primer DNA, the four complimentary deoxynucleoside triphosphates, and Mg2+ ions. When three of the four deoxynucleoside triphosphates were omitted and only TTP-2-14C was added to the reaction mixture, a limited incorporation of TMP-2-14C into DNA occurred. Other investigations such as the effect of actinomycin and of sulfhydryl compounds revealed that a large part of incorporation by the TS and NS fractions of newborn brain and liver was due to the replicative DNA nucleotidyltransferase enzyme.

Purification to homogeneity and characterization of nonproteolyzed potato (Solanum tuberosum) tuber hexokinase 1

Botany ◽  
2011 ◽  
Vol 89 (5) ◽  
pp. 289-299 ◽  
Author(s):  
Marie-Claude Moisan ◽  
Jean Rivoal
Keyword(s):  
Solanum Tuberosum ◽  
Specific Activity ◽  
Solanum Tuberosum L ◽  
Extraction Procedure ◽  
Hydrophobic Interaction Chromatography ◽  
Solanum Chacoense ◽  
Kinetic Properties ◽  
Chromatographic Separations ◽  
The Stability ◽  
Fast Flow

We have developed an extraction procedure that improves the stability of potato ( Solanum tuberosum L.) tuber hexokinase (HK) after extraction. Using this protocol, we showed that at least four HK isoforms are present in this tissue, and they can be separated by hydrophobic-interaction chromatography on a butyl-Sepharose™ 4 Fast Flow column. One of the main HK isoforms was purified to homogeneity using further chromatographic separations on red dye, DEAE Fractogel, hydroxyapatite, cibacron blue, and MonoQ matrices. HK-specific activity of this fraction (10.2 U·mg protein–1) corresponds to an enrichment of more than 5500-fold, with a yield of 0.9%. This is the highest reported HK-specific activity from a plant source. The purified enzyme consisted of a monomer with a subunit apparent Mr of 51 kDa when analyzed by SDS–PAGE. This polypeptide was recognized by affinity-purified anti- Solanum chacoense Bitt. recombinant HK IgGs. The protein was digested with trypsin and its digestion products were subjected to MS – MS sequencing after HPLC separation. The sequences of these tryptic peptides matched the predicted coding sequence of the S. tuberosum HK1 gene with a coverage of 57%. Examination of the kinetic properties of the purified protein HK1 indicates that it may be regulated by the internal O2 concentration of the tuber because of its sensitivity to acidic pHs and inhibition by ADP.

scholarly journals Activation of 3-hydroxy-3-methylglutaryl-coenzyme A reductase in homogenates of developing rat brain

1979 ◽  
Vol 182 (2) ◽  
pp. 367-370 ◽  
Author(s):  
W A Maltese ◽  
J J Volpe
Keyword(s):  
Rat Brain ◽  
Cholesterol Synthesis ◽  
Specific Activity ◽  
Postnatal Period ◽  
Developing Brain ◽  
Brain Maturation ◽  
Assay Mixture ◽  
Coa Reductase ◽  
Developing Rat ◽  
Homogenization Medium

The specific activity of 3-hydroxy-3-methylglutaryl-CoA reductase increases when homogenates of developing rat brain are incubated at 37 degrees C or kept on ice. This increase is completely blocked by the addition of F- to the homogenization medium and the assay mixture. The capacity for activation of the reductase is greatest during the early postnatal period and declines as brain maturation proceeds. The data suggest that catalytic modification of the reductase may play a role in the regulation of cholesterol synthesis in the developing brain.

scholarly journals Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis

2017 ◽  
Author(s):  
Lovorka Stojic ◽  
Aaron Lun ◽  
Jasmin Mangei ◽  
Patrice Mascalchi ◽  
Valentina Quarantotti ◽  
...  
Keyword(s):  
Antisense Oligonucleotides ◽  
Noncoding Rna ◽  
Specific Activity ◽  
Transcriptional Analysis ◽  
Clonal Variation ◽  
Loss Of Function ◽  
Negative Controls ◽  
Whole Transcriptome ◽  
Target Effects

ABSTRACTLoss-of-function (LOF) methods, such as RNA interference (RNAi), antisense oligonucleotides or CRISPR-based genome editing, provide unparalleled power for studying the biological function of genes of interest. When coupled with transcriptomic analyses, LOF methods allow researchers to dissect networks of transcriptional regulation. However, a major concern is nonspecific targeting, which involves depletion of transcripts other than those intended. The off-target effects of each of these common LOF methods have yet to be compared at the whole-transcriptome level. Here, we systematically and experimentally compared non-specific activity of RNAi, antisense oligonucleotides and CRISPR interference (CRISPRi). All three methods yielded non-negligible offtarget effects in gene expression, with CRISPRi exhibiting clonal variation in the transcriptional profile. As an illustrative example, we evaluated the performance of each method for deciphering the role of a long noncoding RNA (lncRNA) with unknown function. Although all LOF methods reduced expression of the candidate lncRNA, each method yielded different sets of differentially expressed genes upon knockdown as well as a different cellular phenotype. Therefore, to definitively confirm the functional role of a transcriptional regulator, we recommend the simultaneous use of at least two different LOF methods and the inclusion of multiple, specifically designed negative controls.

scholarly journals A Zebrafish Model of Myelodysplastic Syndrome Produced throughtet2Genomic Editing

2014 ◽  
Vol 35 (5) ◽  
pp. 789-804 ◽  
Author(s):  
Evisa Gjini ◽  
Marc R. Mansour ◽  
Jeffry D. Sander ◽  
Nadine Moritz ◽  
Ashley T. Nguyen ◽  
...  
Keyword(s):  
Myelodysplastic Syndrome ◽  
Catalytic Domain ◽  
Specific Activity ◽  
Cpg Islands ◽  
Hematopoietic Cells ◽  
Cell Types ◽  
Loss Of Function ◽  
Zebrafish Model ◽  
Myeloid Progenitor ◽  
Myeloid Progenitor Cells

The ten-eleven translocation 2 gene (TET2) encodes a member of the TET family of DNA methylcytosine oxidases that converts 5-methylcytosine (5mC) to 5-hydroxymethylcytosine (5hmC) to initiate the demethylation of DNA within genomic CpG islands. Somatic loss-of-function mutations ofTET2are frequently observed in human myelodysplastic syndrome (MDS), which is a clonal malignancy characterized by dysplastic changes of developing blood cell progenitors, leading to ineffective hematopoiesis. We used genome-editing technology to disrupt the zebrafish Tet2 catalytic domain.tet2m/m(homozygous for the mutation) zebrafish exhibited normal embryonic and larval hematopoiesis but developed progressive clonal myelodysplasia as they aged, culminating in myelodysplastic syndromes (MDS) at 24 months of age, with dysplasia of myeloid progenitor cells and anemia with abnormal circulating erythrocytes. The resultanttet2m/mmutant zebrafish lines show decreased levels of 5hmC in hematopoietic cells of the kidney marrow but not in other cell types, most likely reflecting the ability of other Tet family members to provide this enzymatic activity in nonhematopoietic tissues but not in hematopoietic cells.tet2m/mzebrafish are viable and fertile, providing an ideal model to dissect altered pathways in hematopoietic cells and, for small-molecule screens in embryos, to identify compounds with specific activity againsttet2mutant cells.

Molecular forms and thermal and kinetic properties of purified glutathione reductase from two populations of barnyard grass (Echinochloa crus-galli(L.) Beauv.: Poaceae) from contrasting climatic regions in North America

2000 ◽  
Vol 78 (7) ◽  
pp. 969-980 ◽  
Author(s):  
Nadia Hakam ◽  
Jean-Pierre Simon
Keyword(s):  
Glutathione Reductase ◽  
Thermal Adaptation ◽  
Catalytic Efficiency ◽  
Molecular Forms ◽  
Kinetic Properties ◽  
Barnyard Grass ◽  
Climatic Regions ◽  
Two Populations ◽  
Menten Constant

The thermal, kinetic, and electrophoretic properties of purified glutathione reductase (GR; EC 1.6.4.2) were analyzed in plants from two ecotypes of barnyard grass (Echinochloa crus-galli (L.) Beauv.: Poaceae) originating from sites of contrasting climates in Quebec (QUE) and Mississippi (MISS). Crude and purified GR preparations from plants of both ecotypes consisted of one homodimer isomorph with the same electrophoretic mobility in polyacrylamide gels, a similar molecular mass for the native enzyme (98 kDa) and for each subunit of the dimer (44 kDa), and an identical pI of 5.9. The electrophoretic profile of GR purified from cold-acclimated plants at 14°C light (L) : 8°C dark (D) for 10 days was similar to that of GR from plants grown at 26°C L : 20°C D. Specific activities of purified GR from QUE plants were significantly higher than those of MISS plants. In vitro GR activities from QUE and MISS plants were not differentially affected by thermodenaturation at 55 or 65°C or by cold treatments at 2°C. Apparent energies of activation (Ea) of GR purified from QUE and MISS plants were similar with the exception of estimates of Ea(oxidized glutathione) for Q10(15-5°C) for which significantly lower values were obtained for QUE plants. No differences of physiological significance were observed for Km(Michaelis-Menten constant) values of GR purified from QUE and MISS plants. However, both Vmaxand Kcat(turnover numbers) estimates were significantly higher for GR purified from QUE plants over most of the range of assay temperatures, suggesting superior catalytic efficiency for the enzyme of the cold-adapted ecotype from Québec.Key words: barnyard grass, ecotypes, electrophoresis, enzyme kinetics, glutathione reductase, thermal adaptation.

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