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Reyes-Palomares2012 - a combined model hepatic polyamine and sulfur aminoacid metabolism - version2

ABSTRACT: Reyes-Palomares2012 - a combined model hepatic polyamine and sulfur aminoacid metabolism - version2 Mammalian polyamine metabolism consists of a bi-cycle with two required entrances, omithine and S-adenosyl methionine (SAM), and several alternative exists. The relevant regulatory roles of the short half-life enzymes ornithine decarboxylase (ODC), S-adenosyl methione decarboxylase (SAMDC) and spermindine/spermine acetyl transferase (SSAT) in polyamine metabolism are well studied, and has been modelled here. This model is described in the article: A combined model of hepatic polyamine and sulfur amino acid metabolism to analyze S-adenosyl methionine availability. Reyes-Palomares A, Montañez R, Sánchez-Jiménez F, Medina MA Amino Acids, February 2012, Volume 42, Issue 2-3, pp 597-610 Abstract: Many molecular details remain to be uncovered concerning the regulation of polyamine metabolism. A previous model of mammalian polyamine metabolism showed that S-adenosyl methionine availability could play a key role in polyamine homeostasis. To get a deeper insight in this prediction, we have built a combined model by integration of the previously published polyamine model and one-carbon and glutathione metabolism model, published by different research groups. The combined model is robust and it is able to achieve physiological steady-state values, as well as to reproduce the predictions of the individual models. Furthermore, a transition between two versions of our model with new regulatory factors added properly simulates the switch in methionine adenosyl transferase isozymes occurring when the liver enters in proliferative conditions. The combined model is useful to support the previous prediction on the role of S-adenosyl methionine availability in polyamine homeostasis. Furthermore, it could be easily adapted to get deeper insights on the connections of polyamines with energy metabolism. Notes by the author: This model combines BIOMD0000000190 and BIOMD0000000268 from BioModels Database, both models include corrections respect to their originals publications. To simulate a MATI/MATIII switch to MATII in proliferating liver: We set to 0 the Vmax parameters of MATI and MATIII We included MATII reaction equation. We add a regulation factor dependent of SAM levels in ODC and SAMDCe rates of synthesis (66.5/[SAM]). H2O2 was increased in a 50 % according to an initial state ofproliferating and regenerating liver. This model is hosted on BioModels Database and identified by: MODEL1305060001 . To cite BioModels Database, please use: BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models . To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

SUBMITTER: Armando Reyes-Palomares

PROVIDER: BIOMD0000000450 | BioModels | 2013-05-09

REPOSITORIES: BioModels

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A combined model of hepatic polyamine and sulfur amino acid metabolism to analyze S-adenosyl methionine availability.

Reyes-Palomares Armando A Montañez Raúl R Sánchez-Jiménez Francisca F Medina Miguel Angel MA

Amino acids 20110804 2-3

Many molecular details remain to be uncovered concerning the regulation of polyamine metabolism. A previous model of mammalian polyamine metabolism showed that S-adenosyl methionine availability could play a key role in polyamine homeostasis. To get a deeper insight in this prediction, we have built a combined model by integration of the previously published polyamine model and one-carbon and glutathione metabolism model, published by different research groups. The combined model is robust and i ...[more]

PMID: 21814788

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Project description:Reyes-Palomares2012 - a combined model hepatic polyamine and sulfur aminoacid metabolism - version1 Mammalian polyamine metabolism consists of a bi-cycle with two required entrances, omithine and S-adenosyl methionine (SAM), and several alternative exists. The relevant regulatory roles of the short half-life enzymes ornithine decarboxylase (ODC), S-adenosyl methione decarboxylase (SAMDC) and spermindine/spermine acetyl transferase (SSAT) in polyamine metabolism are well studied, and has been modelled here. This model is described in the article: A combined model of hepatic polyamine and sulfur amino acid metabolism to analyze S-adenosyl methionine availability. Reyes-Palomares A, Montañez R, Sánchez-Jiménez F, Medina MA. Amino Acids 2012 Feb; 42(2-3): 597-610 Abstract: Many molecular details remain to be uncovered concerning the regulation of polyamine metabolism. A previous model of mammalian polyamine metabolism showed that S-adenosyl methionine availability could play a key role in polyamine homeostasis. To get a deeper insight in this prediction, we have built a combined model by integration of the previously published polyamine model and one-carbon and glutathione metabolism model, published by different research groups. The combined model is robust and it is able to achieve physiological steady-state values, as well as to reproduce the predictions of the individual models. Furthermore, a transition between two versions of our model with new regulatory factors added properly simulates the switch in methionine adenosyl transferase isozymes occurring when the liver enters in proliferative conditions. The combined model is useful to support the previous prediction on the role of S-adenosyl methionine availability in polyamine homeostasis. Furthermore, it could be easily adapted to get deeper insights on the connections of polyamines with energy metabolism. Notes by the author: This model combines BIOMD0000000190 and BIOMD0000000268 from BioModels Database, both models include corrections respect to their originals publications. This model is hosted on BioModels Database and identified by: BIOMD0000000674. To cite BioModels Database, please use: Chelliah V et al. BioModels: ten-year anniversary. Nucl. Acids Res. 2015, 43(Database issue):D542-8. To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

Project description:In this study, we combined metabolic reconstruction, growth assays, metabolome and transcriptome analyses to obtain a global view of the sulfur metabolic network and of the response to sulfur availability in Brevibacterium aurantiacum. In agreement with the growth of B. aurantiacum in the presence of sulfate and cystine, the metabolic reconstruction showed the presence of a sulfate assimilation pathway and of thiolation pathways that produce cysteine (cysE and cysK) or homocysteine (metX and metY) from sulfide, of at least one gene of the transsulfuration pathway (aecD) and of genes encoding three MetE-type methionine synthases. We also compared the expression profiles of B. aurantiacum ATCC9175 during sulfur starvation and in the presence of sulfate, cystine or methionine plus cystine. In sulfur starvation, 690 genes including 21 genes involved in sulfur metabolism and 29 genes encoding amino acids and peptide transporters were differentially expressed. We also investigated changes in pools of sulfur-containing metabolites and in expression profiles after growth in the presence of sulfate, cystine or methionine plus cystine. The expression of genes involved in sulfate assimilation and cysteine synthesis was repressed in presence of cysteine, while the expression of metX, metY, metE1, metE2 and BL613 encoding a probable cystathionine-γ-synthase decreased in the presence of methionine. We identified three ABC transporters: two stronger transcribed during cysteine limitation and one during methionine depletion. Finally, the expression of genes encoding a methionine γ-lyase, BL929, and a methionine transporter (metPS) was induced in the presence of methionine, in conjunction with a significant increase of volatile sulfur compounds production. Refer to individual Series. This SuperSeries is composed of the following subset Series: GSE25418: BA-Methionine plus Cystine vs Cystine GSE25419: BA-Sulfate vs Cystine GSE25420: BA-Methionine plus Cystine vs Sulfate GSE25421: BA-Sulfate vs Sulfate starvation

Dataset Information

Reyes-Palomares2012 - a combined model hepatic polyamine and sulfur aminoacid metabolism - version2

Publications

A combined model of hepatic polyamine and sulfur amino acid metabolism to analyze S-adenosyl methionine availability.

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