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- Sulfolobus solfataricus
Details about this organism
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Definitions (0)
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Strain details
Name | Provider name | Provider's strain ID | Genotypes | Phenotypes | Synonym | Comments | Based on |
---|---|---|---|---|---|---|---|
P2 | Not specified | Not specified | wild-type | wild-type | Not specified | None | Not specified |
Related items
Within the e:Bio - Innovationswettbewerb Systembiologie (Federal Ministry of Education and Research (BMBF)), the SulfoSYSBIOTECH consortium (10 partners), aim to unravel the complexity and regulation of the carbon metabolic network of the thermoacidophilic archaeon Sulfolobus solfataricus (optimal growth at 80°C and pH 3) in order to provide new catalysts ‘extremozymes’ for utilization in White Biotechnology.
Based on the available S. solfataricus genome scale metabolic model (Ulas et al., 2012)
...
Programme: e:Bio
Public web page: http://www.sulfosys.com/
Organisms: Sulfolobus solfataricus
Silicon cell model for the central carbohydrate metabolism of the archaeon Sulfolobus solfataricus under temperature variation
Programme: SysMO
Public web page: http://sulfosys.com/
Organisms: Sulfolobus solfataricus
Contributor: Jacqueline Wolf
Assay type: RNA-seq Profiling
Technology type: Rna-seq
Snapshots: No snapshots
Investigation: Amino acid degradation in Sulfolobus solfataric...
Study: Comparison of Sulfolobus solfataricus P2 grown ...
Organisms: Sulfolobus solfataricus (batch)
SOPs: SulfoSYS_BIOTECH: RNA isolation and sequencing
Data files: RNA-Seq mappings - Sulfolobus solfataricus P2 -..., RNA-Seq mappings - Sulfolobus solfataricus P2 -..., RNA-Seq raw data - Sulfolobus solfataricus P2 -..., SSO Genome reference
Contributor: Jacqueline Wolf
Assay type: Proteomics
Technology type: Tandem Mass Spectrometry
Snapshots: No snapshots
Investigation: Amino acid degradation in Sulfolobus solfataric...
Study: Comparison of Sulfolobus solfataricus P2 grown ...
Organisms: Sulfolobus solfataricus (batch)
SOPs: SULFOSYSbiotech_Proteome analysis
Data files: Integrated summary of transcriptomics and prote..., Proteomics_Casaminoacids vs Glucose_Phenyx sear..., Proteomics_Casaminoacids vs Glucose_results, Raw MS data Casaminoacids vs Glucose - Suppleme..., Raw MS data Casaminoacids vs Glucose - Suppleme..., Raw MS data Casaminoacids vs glucose - Main Zi..., Raw MS data Casaminoacids vs glucose - Suppleme...
Intracellular and extracellular metabolome analysis
Contributor: Jacqueline Wolf
Assay type: Metabolite Profiling
Technology type: Gas Chromatography Mass Spectrometry
Snapshots: No snapshots
Investigation: Amino acid degradation in Sulfolobus solfataric...
Study: Comparison of Sulfolobus solfataricus P2 grown ...
Organisms: Sulfolobus solfataricus (batch)
SOPs: No SOPs
Data files: Amino acid depletion profile of S. solfataricus..., Calculation of amino acid uptake rates, Integrated summary of transcriptomics and prote..., Metabolomics Casaminoacids vs Glc
Growth on D-glucose served as reference scenario
Investigation: Amino acid degradation in Sulfolobus solfataric...
Study: Comparison of Sulfolobus solfataricus P2 grown ...
Organisms: Sulfolobus solfataricus
Models: Metabolic model of Sulfolobus solfataricus
SOPs: No SOPs
Data files: Biomass composition of S. solfataricus P2 grown..., Calculation of amino acid uptake rates, Description of changes made to the model compar..., Distribution of enzymes involved in oxidative S...
Kinetic characterisation of glyceraldehyde 3-phosphate dehydrogenase
Contributor: Jacky Snoep
Assay type: Enzymatic Assay
Technology type: Initial Rate Experiment
Snapshots: No snapshots
Investigation: Central Carbon Metabolism of Sulfolobus solfata...
Study: Model Gluconeogenesis
Organisms: Sulfolobus solfataricus
SOPs: Cloning and heterologous expression in E. coli, Preparation of cell extracts of recombinant E.coli, Protein purification from E. coli extracts
Data files: GAPDH Kinetic Data
Kinetic characterisation of triose phosphate isomerase
Contributor: Jacky Snoep
Assay type: Enzymatic Assay
Technology type: Initial Rate Experiment
Snapshots: No snapshots
Investigation: Central Carbon Metabolism of Sulfolobus solfata...
Study: Model Gluconeogenesis
Organisms: Sulfolobus solfataricus
SOPs: Cloning and heterologous expression in E. coli, Preparation of cell extracts of recombinant E.coli, Protein purification from E. coli extracts
Data files: TPI Kinetic Data
Kinetic characterisation of fructose 1,6-bisphosphate aldolase phosphatase
Contributor: Jacky Snoep
Assay type: Enzymatic Assay
Technology type: Initial Rate Experiment
Snapshots: No snapshots
Investigation: Central Carbon Metabolism of Sulfolobus solfata...
Study: Model Gluconeogenesis
Organisms: Sulfolobus solfataricus
SOPs: Cloning and heterologous expression in E. coli, Preparation of cell extracts of recombinant E.coli, Protein purification from E. coli extracts
Data files: FBPAase Kinetic data
Temperature degradation of BPG, GAP and DHAP
Contributor: Jacky Snoep
Assay type: Metabolite Concentration
Technology type: Technology Type
Snapshots: No snapshots
Investigation: Central Carbon Metabolism of Sulfolobus solfata...
Study: Model Gluconeogenesis
Organisms: Sulfolobus solfataricus
SOPs: No SOPs
Data files: Temperature Degradation of Gluconeogenic Interm...
Experimental data for the conversion of 3PG to F6P and the gluconeogenic pathway intermediates
Contributor: Jacky Snoep
Assay type: Metabolite Concentration
Technology type: Technology Type
Snapshots: No snapshots
Investigation: Central Carbon Metabolism of Sulfolobus solfata...
Study: Carbon Loss at High Temperature
Organisms: Sulfolobus solfataricus
SOPs: No SOPs
Data files: Experimental Data for Reconstituted Gluconeogen..., Simulation for Reconstituted Gluconeogenic System
Contributor: Theresa Kouril
Assay type: Proteomics
Technology type: Tandem Mass Spectrometry
Snapshots: No snapshots
Investigation: L-fucose degradation in Sulfolobus solfataricus P2
Study: Comparison of S. solfataricus grown on l-fucose...
Organisms: Sulfolobus solfataricus (batch)
SOPs: SULFOSYSbiotech_Proteome analysis
Data files: Proteomics L-fuc vs D-glc
Contributor: Not available
Provider Name: Not specified
Provider's strain ID: Not specified
Organism: Sulfolobus solfataricus
Genotypes: wild-type
Phenotypes: wild-type
Comment: Not specified
PGK-GAPDH model Sulfolobus kouril8
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: SBML
Environment: JWS Online
Organism: Sulfolobus solfataricus
Investigations: Phosphoglycerate kinase acts as a futile cycle ...
Studies: PGK-GAPDH 30C & 70C
Modelling analyses: PGK - GAPDH models
PGK 70C model, Fig 3 in manuscript
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: Mathematica
Environment: Mathematica
Organism: Sulfolobus solfataricus
Investigations: Phosphoglycerate kinase acts as a futile cycle ...
Studies: PGK-70C
Modelling analyses: PGK 70C model
PGK 70C SBML
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: SBML
Environment: JWS Online
Organism: Sulfolobus solfataricus
Investigations: Phosphoglycerate kinase acts as a futile cycle ...
Studies: PGK-70C
Modelling analyses: PGK 70C model
Metabolic model of Sulfolobus solfataricus P2 in the SBML (sbml) and metano (txt, sce, fba) format. Scenarios are specific for growth on D-glucose or caseinhydrolysate as sole carbon source.
Creator: Helge Stark
Contributor: Helge Stark
Model type: Metabolic network
Model format: SBML
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Amino acid degradation in Sulfolobus solfataric...
Studies: Comparison of Sulfolobus solfataricus P2 grown ...
Modelling analyses: Metabolic modelling of S. solfataricus during g...
Metabolic model of Sulfolobus solfataricus P2 in the SBML (xml) and metano (txt, sce, fba) format. Scenarios are specific for growth on D-glucose or L-fucose as sole carbon source. Different theoretical routes of L-fucose degradation were modeled (E. coli-like, Xanthomonas-like and lactaldehyde-forming). Highest overall agreement between the model and experimental data was observed for the lactaldehyde-forming route.
Creators: Jacqueline Wolf, Helge Stark, Dietmar Schomburg
Contributor: Jacqueline Wolf
Model type: Metabolic network
Model format: SBML
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: L-fucose degradation in Sulfolobus solfataricus P2
Studies: Comparison of S. solfataricus grown on l-fucose...
Modelling analyses: Metabolic model of Sulfolobus solfataricus
Model of reconstituted gluconeogenesis system in S. solfataricus based on the individual kinetic models for PGK, GAPDH, TPI, FBPAase.
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: SBML
Environment: JWS Online
Organism: Sulfolobus solfataricus
Investigations: Central Carbon Metabolism of Sulfolobus solfata...
Studies: Carbon Loss at High Temperature, Model Gluconeogenesis
Modelling analyses: Model Validation Gluconeogenesis in S. solfatar..., Reconstituted Gluconeogenesis System
Exponential decay model of gluconeogenic intermediates
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: Mathematica
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Central Carbon Metabolism of Sulfolobus solfata...
Studies: Model Gluconeogenesis
Modelling analyses: Modelling Metabolite Degradation at High Temper..., Reconstituted Gluconeogenesis System
Mathematical model for TPI kinetics, GAP and DHAP saturation, and inhibition with 3PG and PEP.
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: Mathematica
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Central Carbon Metabolism of Sulfolobus solfata...
Studies: Model Gluconeogenesis
Modelling analyses: Reconstituted Gluconeogenesis System, TPI Modelling
Mathematical model for GAPDH kinetics, BPG, NADPH, NADP, GAP and Pi saturation.
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: Mathematica
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Central Carbon Metabolism of Sulfolobus solfata...
Studies: Model Gluconeogenesis
Modelling analyses: GAPDH Modelling, Reconstituted Gluconeogenesis System
Mathematical model for FBPAase kinetics, saturation with DHAP and GAP
Creator: Jacky Snoep
Contributor: Jacky Snoep
Model type: Ordinary differential equations (ODE)
Model format: Mathematica
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Central Carbon Metabolism of Sulfolobus solfata...
Studies: Model Gluconeogenesis
Modelling analyses: FBPAase Modelling, Reconstituted Gluconeogenesis System
Abstract (Expand)
Authors: Jacqueline Wolf, Helge Stark, Andreas Albersmeier, Trong Khoa Pham, Stefan Albaum, Theresa Kouril, Phil Wright, Sonja-Verena Albers, Dietmar Schomburg, Bettina Siebers, Fafenrot K.,Muller K. B.,Meyer B.,Hoffmann L.,Shen L.,Schmidt-Hohagen K.,Neumann-Schaal M.,Brasen C.,Kalinowski J.
Date Published: 10th Sep 2016
Journal: Mol Microbiol
PubMed ID: 27611014
Citation: Mol Microbiol. 2016 Sep 9. doi: 10.1111/mmi.13498.
Abstract (Expand)
Authors: Theresa Kouril, Hans Westerhoff, Bettina Siebers, Jacky Snoep, Esser Dominik,Kort Julia
Date Published: 20th Jul 2013
Journal: FEBS J.
PubMed ID: 23865479
Citation:
All contributors
Abstract (Expand)
Authors: Melanie Zaparty, Susanne Gertig, Patrick Haferkamp, Theresa Kouril, Andrea Manica, Trong Khoa Pham, Kerstin Schreiber, Pawel Sierocinski, Mathias Von Jan, Patricia Wieloch, Sonja-Verena Albers, Arnold Driessen, Hans-Peter Klenk, Christa Schleper, Dietmar Schomburg, John Van Der Oost, Phil Wright, Bettina Siebers, Esser Dominik,Reimann Julia,Teichmann Daniela,van Wolferen Marleen
Date Published: 31st Aug 2009
Journal: Extremophiles
PubMed ID: 19802714
Citation: