Archaea are characterised by a complex metabolism with many unique enzymes that differ from their bacterial and eukaryotic counterparts. The thermoacidophilic archaeon Sulfolobus solfataricus is known for its metabolic versatility and is able to utilize a great variety of different carbon sources. However, the underlying degradation pathways and their regulation are often unknown. In this work, we analyse growth on different carbon sources using an integrated systems biology approach. The comparison of growth on L-fucose and D-glucose allows first insights into the genome-wide changes in response to the two carbon sources and revealed a new pathway for L-fucose degradation in S. solfataricus. During growth on L-fucose we observed major changes in the central carbon metabolic network, as well as an increased activity of the glyoxylate bypass and the 3-hydroxypropionate/4-hydroxybutyrate cycle. Within the newly discovered pathway for L-fucose degradation the following key reactions were identified: (i) L-fucose oxidation to L-fuconate via a dehydrogenase, (ii) dehydration to 2-keto-3-deoxy-L-fuconate via dehydratase, (iii) 2-keto-3-deoxy-L-fuconate cleavage to pyruvate and L-lactaldehyde via aldolase and (iv) L-lactaldehyde conversion to L-lactate via aldehyde dehydrogenase. This pathway as well as L-fucose transport shows interesting overlaps to the D-arabinose pathway, representing another example for pathway promiscuity in Sulfolobus species. This article is protected by copyright. All rights reserved.
SEEK ID: https://fairdomhub.org/publications/285
PubMed ID: 27611014
Projects: SulfoSys - Biotec
Publication type: Not specified
Journal: Mol Microbiol
Citation: Mol Microbiol. 2016 Sep 9. doi: 10.1111/mmi.13498.
Date Published: 10th Sep 2016
Registered Mode: Not specified
Authors: J. Wolf, H. Stark, K. Fafenrot, A. Albersmeier, T. K. Pham, K. B. Muller, B. Meyer, L. Hoffmann, L. Shen, S. P. Albaum, T. Kouril, K. Schmidt-Hohagen, M. Neumann-Schaal, C. Brasen, J. Kalinowski, P. C. Wright, S. V. Albers, D. Schomburg, B. Siebers
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Created: 19th Oct 2016 at 08:29
Last updated: 8th Dec 2022 at 17:26
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Projects: SulfoSys - Biotec
Institutions: University Bielefeld
Expertise: Bioinformatics, Data Management, Transcriptomics, Proteomics, Metabolomics, Databases, Data Integration
Tools: Bioinformatics, Data Management, Databases, R, Java
Projects: SulfoSys - Biotec
Institutions: University Bielefeld
https://orcid.org/0000-0002-3394-1304Projects: SulfoSys, SulfoSys - Biotec, Glucose metabolism in cancer cell lines
Institutions: University Duisburg-Essen, Stellenbosch University
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Institutions: University of Sheffield
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Institutions: University of Braunschweig
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Institutions: University Duisburg-Essen, Universitity Duisburg-Essen
https://orcid.org/0000-0002-9905-541XHead of the group of Molecular Enzyme Technology and Biochemistry (Faculty of Chemistry) at the University of Duisburg-Essen. My research interest is on archaeal physiology with a special focuss on the central carbohydrate metabolism of (hyper)thermophilic Archaea and its regulation. The aim is to gain a systems level understanding by the combination of modern highthrouput analyses with classical biochemistry and molecular biology. Archaea possess many novel enzymes and pathways and our aim is ...
Projects: SulfoSys - Biotec
Institutions: University of Braunschweig
Projects: SulfoSys, SulfoSys - Biotec
Institutions: University of Sheffield
I am the foundation Professor of Systems Biology and Engineering within the Department of Chemical and Process Engineering (CPE), at The University of Sheffield. My research philosophy is centred on a mechanistic systems biology approach to solve biochemical reaction engineered processes. I wish to pursue issues involved in the effective utilisation of biological resources. The approach is specifically targeted at the conjunction of chemical engineering (metabolic engineering and synthetic biology), ...
e:Bio - Innovations Competition Systems Biology
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Web page: http://www.fona.de/en/14276
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
Integrated systems biology approach including transcriptome, metabolome, biochemistry, proteome analyses and modelling to elucidate the catabolic pathway for L-fucose in S. solfataricus P2.
Submitter: Theresa Kouril
Studies: Comparison of S. solfataricus grown on l-fucose and d-glucose
Assays: Cell free extract activity measurements: L-fuc/d-glc, Metabolic model of Sulfolobus solfataricus, Proteome analysis: d-fuc / l-glu, RNA sequencing:l-fuc/d-glu, intracellular metabolome analysis: l-fucose vs d-glucose
Snapshots: No snapshots
Submitter: Theresa Kouril
Investigation: L-fucose degradation in Sulfolobus solfataricus P2
Assays: Cell free extract activity measurements: L-fuc/d-glc, Metabolic model of Sulfolobus solfataricus, Proteome analysis: d-fuc / l-glu, RNA sequencing:l-fuc/d-glu, intracellular metabolome analysis: l-fucose vs d-glucose
Snapshots: No snapshots
Submitter: Theresa Kouril
Assay type: RNA-seq Profiling
Technology type: Next generation sequencing
Investigation: L-fucose degradation in Sulfolobus solfataricus P2
Organisms: Sulfolobus solfataricus
SOPs: SulfoSYS_BIOTECH: RNA isolation and sequencing
Data files: Transcriptomics L-fuc vs D-glc
Snapshots: No snapshots
Submitter: Theresa Kouril
Assay type: Metabolite Profiling
Technology type: Gas Chromatography Mass Spectrometry
Investigation: L-fucose degradation in Sulfolobus solfataricus P2
Organisms: Sulfolobus solfataricus
SOPs: No SOPs
Data files: Metabolomics L-fuc vs D-glc
Snapshots: No snapshots
Submitter: Theresa Kouril
Assay type: Proteomics
Technology type: Tandem Mass Spectrometry
Investigation: L-fucose degradation in Sulfolobus solfataricus P2
Organisms: Sulfolobus solfataricus
SOPs: SULFOSYSbiotech_Proteome analysis
Data files: Proteomics L-fuc vs D-glc
Snapshots: No snapshots
RNAseq analysis of S. solfataricus grown on either L-fucose or D-glucose
Creators: Jacqueline Wolf, Theresa Kouril, Andreas Albersmeier, Jörn Kalinowski
Submitter: Jacqueline Wolf
Investigations: L-fucose degradation in Sulfolobus solfataricus P2
Studies: Comparison of S. solfataricus grown on l-fucose...
Assays: RNA sequencing:l-fuc/d-glu
Activity assays in cell free extracts of S. solfataricus grown on either L-fucose or D-glucose and activity assays with recombinant proteins
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Submitter: Jacqueline Wolf
Comparative GC-MS based metabolomics of S. solfataricus growing on either L-fucose or D-glucose. CoA derivatives were analysed via HPLC-MS
Creators: Jacqueline Wolf, Dietmar Schomburg
Submitter: Jacqueline Wolf
Comparative proteomics of S. solfatricus grown on either L-fucose or D-glucose.
Creators: Jacqueline Wolf, Trong Khoa Pham, Phil Wright
Submitter: Jacqueline Wolf
Investigations: L-fucose degradation in Sulfolobus solfataricus P2
Studies: Comparison of S. solfataricus grown on l-fucose...
Assays: Proteome analysis: d-fuc / l-glu
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
Submitter: Helge Stark
Model type: Metabolic network
Model format: SBML
Environment: Not specified
Organism: Sulfolobus solfataricus
Investigations: Amino acid degradation in Sulfolobus solfataric...