scholarly journals Nucleotide sequence encoding the iron-sulphur protein subunit of the succinate dehydrogenase of Escherichia coli

1984 ◽  
Vol 223 (2) ◽  
pp. 507-517 ◽  
Author(s):  
M G Darlison ◽  
J R Guest
Keyword(s):  
Nucleotide Sequence ◽  
Succinate Dehydrogenase ◽  
Structural Gene ◽  
Base Pair ◽  
Citrate Synthase ◽  
Tricarboxylic Acid Cycle ◽  
Regulatory Elements ◽  
Protein Subunit ◽  
Genes Encoding ◽  
Oxoglutarate Dehydrogenase

The nucleotide sequence of a 961 base-pair segment of DNA containing the sdhB gene, which encodes the iron-sulphur protein subunit of the E. coli succinate dehydrogenase, has been determined. The sdhB structural gene comprises 711 base pairs (237 codons, excluding the translational initiator and terminator). It is separated by a 15 base-pair intergenic region from the preceding flavoprotein gene (sdhA) and is the distal gene of an operon that also includes genes (sdhC and D) encoding two hydrophobic subunits, sdhCDAB. The distal end of the sdh operon is linked to the 2-oxoglutarate dehydrogenase gene (sucA) by a complex region of dyad symmetry that is homologous with several potential intercistronic regulatory elements or transcriptional attenuators. The sdhB structural gene encodes a polypeptide of Mr26637 that is strikingly homologous with the iron-sulphur protein subunit of fumarate reductase (38% identity, increasing to 58% when conservative changes are included). Both subunits contain 11 cysteine residues, 10 being conserved in three clusters resembling those found in ferredoxins. This work completes the sequence of a 9897 base-pair segment of DNA containing seven tricarboxylic acid cycle genes encoding three enzymes or enzyme complexes, citrate synthase (gltA), succinate dehydrogenase (sdh), and the 2-oxoglutarate dehydrogenase complex (suc), that are organized thus: gltA-sdhCDAB-sucAB.

Control of mRNA turnover as a mechanism of glucose repression in Saccharomyces cerevisiae

1992 ◽  
Vol 12 (7) ◽  
pp. 2941-2948
Author(s):  
A Lombardo ◽  
G P Cereghino ◽  
I E Scheffler
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Succinate Dehydrogenase ◽  
Half Life ◽  
Glucose Repression ◽  
Promoter Sequence ◽  
Regulatory Elements ◽  
Mrna Levels ◽  
Protein Subunit ◽  
Gene Encoding ◽  
Regulatory Complex

We have examined the expression of the gene encoding the iron-protein subunit (Ip) of succinate dehydrogenase in Saccharomyces cerevisiae. The gene had been cloned by us and shown to be subject to glucose regulation (A. Lombardo, K. Carine, and I. E. Scheffler, J. Biol. Chem. 265:10419-10423, 1990). We discovered that a significant part of the regulation of the Ip mRNA levels by glucose involves the regulation of the turnover rate of this mRNA. In the presence of glucose, the half-life appears to be less than 5 min, while in glycerol medium, the half-life is greater than 60 min. The gene is also regulated transcriptionally by glucose. The upstream promoter sequence appeared to have four regulatory elements with consensus sequences shown to be responsible for the interaction with the HAP2/3/4 regulatory complex. A deletion analysis has shown that the two distal elements are redundant. These measurements were carried out by Northern (RNA) analyses of Ip mRNA transcripts as well as by assays of beta-galactosidase activity in cells carrying constructs of the Ip promoter linked to the lacZ coding sequence. These observations on the regulation of mRNA stability were also extended to the mRNA of the flavoprotein subunit of succinate dehydrogenase and in some experiments of iso-1-cytochrome c.

scholarly journals Control of mRNA turnover as a mechanism of glucose repression in Saccharomyces cerevisiae.

1992 ◽  
Vol 12 (7) ◽  
pp. 2941-2948 ◽  
Author(s):  
A Lombardo ◽  
G P Cereghino ◽  
I E Scheffler
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Succinate Dehydrogenase ◽  
Half Life ◽  
Glucose Repression ◽  
Promoter Sequence ◽  
Regulatory Elements ◽  
Mrna Levels ◽  
Protein Subunit ◽  
Gene Encoding ◽  
Regulatory Complex

We have examined the expression of the gene encoding the iron-protein subunit (Ip) of succinate dehydrogenase in Saccharomyces cerevisiae. The gene had been cloned by us and shown to be subject to glucose regulation (A. Lombardo, K. Carine, and I. E. Scheffler, J. Biol. Chem. 265:10419-10423, 1990). We discovered that a significant part of the regulation of the Ip mRNA levels by glucose involves the regulation of the turnover rate of this mRNA. In the presence of glucose, the half-life appears to be less than 5 min, while in glycerol medium, the half-life is greater than 60 min. The gene is also regulated transcriptionally by glucose. The upstream promoter sequence appeared to have four regulatory elements with consensus sequences shown to be responsible for the interaction with the HAP2/3/4 regulatory complex. A deletion analysis has shown that the two distal elements are redundant. These measurements were carried out by Northern (RNA) analyses of Ip mRNA transcripts as well as by assays of beta-galactosidase activity in cells carrying constructs of the Ip promoter linked to the lacZ coding sequence. These observations on the regulation of mRNA stability were also extended to the mRNA of the flavoprotein subunit of succinate dehydrogenase and in some experiments of iso-1-cytochrome c.

scholarly journals Maximum activities of some enzymes of glycolysis, the tricarboxylic acid cycle and ketone-body and glutamine utilization pathways in lymphocytes of the rat

1982 ◽  
Vol 208 (3) ◽  
pp. 743-748 ◽  
Author(s):  
M. Salleh M. Ardawi ◽  
Eric A. Newsholme
Keyword(s):  
Ketone Body ◽  
Citrate Synthase ◽  
Ketone Bodies ◽  
Tricarboxylic Acid Cycle ◽  
Tricarboxylic Acid ◽  
Maximum Activity ◽  
Graft Versus Host Reaction ◽  
Acid Cycle ◽  
Oxoglutarate Dehydrogenase

1. The maximum activity of hexokinase in lymphocytes is similar to that of 6-phosphofructokinase, but considerably greater than that of phosphorylase, suggesting that glucose rather than glycogen is the major carbohydrate fuel for these cells. Starvation increased slightly the activities of some of the glycolytic enzymes. A local immunological challenge in vivo (a graft-versus-host reaction) increased the activities of hexokinase, 6-phosphofructokinase, pyruvate kinase and lactate dehydrogenase, confirming the importance of the glycolytic pathway in cell division. 2. The activities of the ketone-body-utilizing enzymes were lower than those of hexokinase or 6-phosphofructokinase, unlike in muscle and brain, and were not affected by starvation. It is suggested that the ketone bodies will not provide a quantitatively important alternative fuel to glucose in lymphocytes. 3. Of the enzymes of the tricarboxylic acid cycle whose activities were measured, that of oxoglutarate dehydrogenase was the lowest, yet its activity (about 4.0μmol/min per g dry wt. at 37°C) was considerably greater than the flux through the cycle (0.5μmol/min per g calculated from oxygen consumption by incubated lymphocytes). The activity was decreased by starvation, but that of citrate synthase was increased by the local immunological challenge in vivo. It is suggested that the rate of the cycle would increase towards the capacity indicated by oxoglutarate dehydrogenase in proliferating lymphocytes. 4. Enzymes possibly involved in the pathway of glutamine oxidation were measured in lymphocytes, which suggests that an aminotransferase reaction(s) (probably aspartate aminotransferase) is important in the conversion of glutamate into oxoglutarate rather than glutamate dehydrogenase, and that the maximum activity of glutaminase is markedly in excess of the rate of glutamine utilization by incubated lymphocytes. The activity of glutaminase is increased by both starvation and the local immunological challenge in vivo. This last finding suggests that metabolism of glutamine via glutaminase is important in proliferating lymphocytes.

scholarly journals Nucleotide sequence encoding the flavoprotein and hydrophobic subunits of the succinate dehydrogenase of Escherichia coli

1984 ◽  
Vol 222 (2) ◽  
pp. 519-534 ◽  
Author(s):  
D Wood ◽  
M G Darlison ◽  
R J Wilde ◽  
J R Guest
Keyword(s):  
Escherichia Coli ◽  
Nucleotide Sequence ◽  
Succinate Dehydrogenase ◽  
Citrate Synthase ◽  
Attachment Site ◽  
Fumarate Reductase ◽  
Receptor Protein ◽  
Base Pairs ◽  
Gene Encoding ◽  
Active Site Cysteine

The nucleotide sequence of a 3614 base-pair segment of DNA containing the sdhA gene, encoding the flavoprotein subunit of succinate dehydrogenase of Escherichia coli, and two genes sdhC and sdhD, encoding small hydrophobic subunits, has been determined. Together with the iron-sulphur protein gene (sdhB) these genes form an operon (sdhCDAB) situated between the citrate synthase gene (gltA) and the 2-oxoglutarate dehydrogenase complex genes (sucAB): gltA-sdhCDAB-sucAB. Transcription of the gltA and sdhCDAB gene appears to diverge from a single intergenic region that contains two pairs of potential promoter sequences and two putative CRP (cyclic AMP receptor protein)-binding sites. The sdhA structural gene comprises 1761 base-pairs (587 codons, excluding the initiation codon, AUG) and it encodes a polypeptide of Mr 64268 that is strikingly homologous with the flavoprotein subunit of fumarate reductase (frdA gene product). The FAD-binding region, including the histidine residue at the FAD-attachment site, has been identified by its homology with other flavoproteins and with the flavopeptide of the bovine heart mitochondrial succinate dehydrogenase. Potential active-site cysteine and histidine residues have also been indicated by the comparisons. The sdhC (384 base-pairs) and sdhD (342 base-pairs) structural genes encode two strongly hydrophobic proteins of Mr 14167 and 12792 respectively. These proteins resemble in size and composition, but not sequence, the membrane anchor proteins of fumarate reductase (the frdC and frdD gene products).

scholarly journals Tricarboxylic acid-cycle and related enzymes in restricted facultative methylotrophs

1975 ◽  
Vol 148 (3) ◽  
pp. 505-511 ◽  
Author(s):  
J Colby ◽  
L J Zatman
Keyword(s):  
Succinate Dehydrogenase ◽  
Dehydrogenase Activity ◽  
Isocitrate Dehydrogenase ◽  
Tricarboxylic Acid Cycle ◽  
Tricarboxylic Acid ◽  
Methylotrophic Bacteria ◽  
Acid Cycle ◽  
Oxoglutarate Dehydrogenase ◽  
Specific Activities ◽  
Succinyl Coa Synthetase

The isolation is described of pure cultures of three non-methane-utilizing methylotrophic bacteria which, together with the previously described Bacillus PM6, have a very limited range of growth substrates; these organisms are designated “restricted facultative’ methylotrophs. Two of these isolates, W6A and W3A1, grow only on glucose out of 50 non-C1 compounds tested, whereas the third isolate S2A1 and Bacillus PM6 grow on betaine, glucose, gluconate, alanine, glutamate, citrate and nutrient agar, but not on any of a further 56 non-C1 compounds. Crude sonic extracts of trimethylamine-grown and glucose-grown W6A and W3A1 isolates, and of trimethylamine-grown C2A1 (an obligate methylotroph) contain (i) no detectable 2-oxogltarate dehydrogenase activity, (ii) very low or zero specific activities of succinate dehydrogenase and succinyl-CoA synthetase and (iii) NAD+-dependent isocitrate dehydrogenase activity. Extracts of trimethylamine-grown PM6 and S2A1 methylotrophs have (i) very low 2-oxoglutarate dehydrogenase specific activities, (ii) comparatively high specific activities of succinate dehydrogenase, malate dehydrogenase and succinyl-CoA synthetase and (iii) NADP+-dependent isocitrate dehydrogenase activity but no NAD+-dependent isocitrate dehydrogenase activity. The activities of most of these enzymes are increased during growth on glucose, alanine, glutamate or citrate, but only very low 2-oxoglutarate dehydrogenase activities are present under all growth conditions. The restricted facultative methylotrophs grow on certain non-C1 compounds in the absence of 2-oxoglutarate dehydrogenase and, in some cases, of other enzymes of the tricarboxylic acid cycle; these lesions cannot therefore be the sole cause of obligate methylotrophy.

scholarly journals Tricarboxylic acid cycle flux and enzyme activities in the isolated working rat heart

1981 ◽  
Vol 200 (3) ◽  
pp. 701-703 ◽  
Author(s):  
G J Cooney ◽  
H Taegtmeyer ◽  
E A Newsholme
Keyword(s):  
Oxygen Consumption ◽  
Enzyme Activities ◽  
Rat Heart ◽  
Citrate Synthase ◽  
Tricarboxylic Acid Cycle ◽  
Work Load ◽  
Tricarboxylic Acid ◽  
Acid Cycle ◽  
Oxoglutarate Dehydrogenase ◽  
Working Rat Heart

Flux through the tricarboxylic acid cycle was calculated from oxygen consumption in hearts perfused near the physiological work load. Activities of citrate synthase, 2-oxoglutarate dehydrogenase and succinate dehydrogenase were measured in the same hearts. Only the activities of 2-oxoglutarate dehydrogenase correlated with calculated fluxes through the cycle.

Tricarboxylic Acid Cycle Enzymes of the Ectomycorrhizal Basidiomycete, Suillus bovinus

2001 ◽  
Vol 56 (5-6) ◽  
pp. 334-342 ◽  
Author(s):  
Norbert Grotjohann ◽  
Yi Huangb ◽  
Wolfgang Kowallik
Keyword(s):  
Succinate Dehydrogenase ◽  
Malate Dehydrogenase ◽  
Isocitrate Dehydrogenase ◽  
Citrate Synthase ◽  
Tricarboxylic Acid Cycle ◽  
Tricarboxylic Acid ◽  
Technical Problems ◽  
Acid Cycle ◽  
Suillus Bovinus ◽  
Cell Extracts

In crude cell extracts of the ectomycorrhizal fungus, Suillus bovinus, activities of citrate synthase, aconitase, isocitrate dehydrogenase, succinate dehydrogenase, fumarase, and malate dehydrogenase have been proved and analyzed. Citrate synthase exhibited high affinities for both its substrates: oxaloacetate (Km = 0.018 mᴍ) and acetyl-CoA (Km = 0.014 mᴍ) . Aconitase showed better affinity for isocitrate (Km = 0.62 mᴍ) than for citrate (Km = 3.20 mᴍ) . Analysis of isocitrate dehydrogenase revealed only small maximum activity (60 nmol x mg protein-1 x min -1), the enzyme being exclusively NADP+-dependent. Using the artificial electron acceptor dichlorophenol indophenol, activity and substrate affinity of succinate dehydrogenase were rather poor. Fumarase proved Fe2+-independent. Its affinity for malate was found higher ( Km = 1.19 mᴍ) than that for fumarate ( Km = 2.09 mᴍ) . High total activity of malate dehydrogenase could be separated by native PAGE into a slowly running species of (mainly) cytosolic (about 80%) and a faster running species of (mainly) mitochondrial origin. Affinities for oxaloacetate of the two enzyme species were found identical within limits of significance (Km = 0.24 mᴍ and 0.22 mᴍ) . The assumed cytosolic enzyme exhibited affinity for malate (Km = 5.77 mᴍ) more than one order of magnitude lower than that for oxaloacetate. FPLC on superose 12 revealed only one activity band at a molecular mass of 100 ± 15 kDa. Activities of 2-oxoglutarate dehydrogenase and of succinyl-CoA synthetase could not be found. Technical problems in their detection, but also existence of an incomplete tricarboxylic acid cycle are considered. Metabolite affinities, maximum activities and pʜ-dependences of fumarase and of malate dehydrogenase allow the assumption of a reductive instead of oxidative function of these enzymes in vivo.

scholarly journals Mitochondrial DNA Instability in Cells Lacking Aconitase Correlates with Iron Citrate Toxicity

2013 ◽  
Vol 2013 ◽  
pp. 1-10 ◽  
Author(s):  
Muhammad A. Farooq ◽  
Tammy M. Pracheil ◽  
Zhejun Dong ◽  
Fei Xiao ◽  
Zhengchang Liu
Keyword(s):  
Mitochondrial Dna ◽  
Citrate Synthase ◽  
Tricarboxylic Acid Cycle ◽  
Alternative Mechanism ◽  
Iron Citrate ◽  
Expression Of Genes ◽  
Genes Encoding ◽  
Citrate Accumulation ◽  
Mitochondrial Dna Instability ◽  
Mutant Cells

Aconitase, the second enzyme of the tricarboxylic acid cycle encoded byACO1in the budding yeastSaccharomyces cerevisiae, catalyzes the conversion of citrate to isocitrate.aco1Δ results in mitochondrial DNA (mtDNA) instability. It has been proposed that Aco1 binds to mtDNA and mediates its maintenance. Here we propose an alternative mechanism to account for mtDNA loss inaco1Δ mutant cells. We found thataco1Δ activated the RTG pathway, resulting in increased expression of genes encoding citrate synthase. By deletingRTG1,RTG3, or genes encoding citrate synthase, mtDNA instability was prevented inaco1Δ mutant cells. Increased activity of citrate synthase leads to iron accumulation in the mitochondria. Mutations inMRS3andMRS4, encoding two mitochondrial iron transporters, also prevented mtDNA loss due toaco1Δ. Mitochondria are the main source of superoxide radicals, which are converted to H2O2through two superoxide dismutases, Sod1 and Sod2. H2O2in turn reacts with Fe2+to generate very active hydroxyl radicals. We found that loss of Sod1, but not Sod2, prevents mtDNA loss inaco1Δ mutant cells. We propose that mtDNA loss inaco1Δ mutant cells is caused by the activation of the RTG pathway and subsequent iron citrate accumulation and toxicity.

scholarly journals Mapping chromatin accessibility and active regulatory elements reveals pathological mechanisms in human gliomas

2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Karolina Stępniak ◽  
Magdalena A. Machnicka ◽  
Jakub Mieczkowski ◽  
Anna Macioszek ◽  
Bartosz Wojtaś ◽  
...  
Keyword(s):  
Gene Expression ◽  
Chromatin Structure ◽  
Molecular Mechanisms ◽  
Genome Mapping ◽  
Malignant Gliomas ◽  
Regulatory Elements ◽  
Chromatin Accessibility ◽  
Multiple Tumor ◽  
Genes Encoding ◽  
Methylation Patterns

AbstractChromatin structure and accessibility, and combinatorial binding of transcription factors to regulatory elements in genomic DNA control transcription. Genetic variations in genes encoding histones, epigenetics-related enzymes or modifiers affect chromatin structure/dynamics and result in alterations in gene expression contributing to cancer development or progression. Gliomas are brain tumors frequently associated with epigenetics-related gene deregulation. We perform whole-genome mapping of chromatin accessibility, histone modifications, DNA methylation patterns and transcriptome analysis simultaneously in multiple tumor samples to unravel epigenetic dysfunctions driving gliomagenesis. Based on the results of the integrative analysis of the acquired profiles, we create an atlas of active enhancers and promoters in benign and malignant gliomas. We explore these elements and intersect with Hi-C data to uncover molecular mechanisms instructing gene expression in gliomas.

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