antiSMASH 4.0—improvements in chemistry prediction and gene cluster boundary identification
The thoroughly updated antiSMASH version 4 is presented, which adds several novel features, including prediction of gene cluster boundaries using the ClusterFinder method or the newly integrated CASSIS algorithm, improved substrate specificity prediction for non-ribosomal peptide synthetase adenylation domains based on the new SANDPUMA algorithm, and several usability features have been updated and improved.
Bacterial volatiles: the smell of small organisms.
This review describes volatiles released into the air by bacteria growing on defined media and an effort has been made to organize the compounds according to their biosynthetic origin.
Quorum sensing and bacterial biofilms.
- Jeroen S. Dickschat
- BiologyNatural product reports (Print)
- 24 February 2010
The multi-channel quorum sensing system, the intracellular downstream processing of the signal, and the resulting response of whole populations including biofilm formation are discussed for the Vibrio genus that has been extensively investigated.
The Ecological Role of Volatile and Soluble Secondary Metabolites Produced by Soil Bacteria.
A novel type of geosmin biosynthesis in myxobacteria.
- Jeroen S. Dickschat, H. Bode, T. Mahmud, R. Müller, S. Schulz
- BiologyThe Journal of organic chemistry
- 24 June 2005
The biosynthesis of geosmin (1) and (1(10)E,5E)-germacradien-11-ol (2), two volatile terpenoid compounds emitted by the myxobacteria Myxococcus xanthus and Stigmatella aurantiaca, was investigated in feeding experiments with different labeled precursors and led to a biosynthetic scheme to 1 with intermediate 2.
Novel Iso-branched Ether Lipids as Specific Markers of Developmental Sporulation in the Myxobacterium Myxococcus xanthus*>
- Michael W. Ring, Gertrud Schwär, H. Bode
- Chemistry, BiologyJournal of Biological Chemistry
- 1 December 2006
Analysis of several mutants blocked at different stages of development indicated that the biosynthesis ofTG-1 is developmentally regulated and that VEPE might be an intermediate in the TG-1 biosynthesis, suggesting the important role of iso-branched lipids for myxobacterial development.
Bacterial terpene cyclases.
- Jeroen S. Dickschat
- Environmental ScienceNatural product reports (Print)
This review summarises the accumulated knowledge about characterised bacterial terpene cyclases and the special cases of the geosmin and 2-methylisoborneol synthases that are both particularly widespread in bacteria.
Volatile Organic Compounds from Arctic Bacteria of the Cytophaga‐Flavobacterium‐Bacteroides Group: A Retrobiosynthetic Approach in Chemotaxonomic Investigations
Volatile organic compounds emitted by different marine arctic strains of the Cytophaga‐Flavobacterium‐Bacteroides group were investigated by using a modified closed‐loop stripping apparatus (CLSA), and the proposed structures of all methyl ketones were subsequently confirmed by synthesis.
From lignin to nylon: Cascaded chemical and biochemical conversion using metabolically engineered Pseudomonas putida.
Novel Pyrazines from the Myxobacterium Chondromyces crocatus and Marine Bacteria
The volatiles released by two strains of the myxobacterium Chondromyces crocatus and seven strains of marine Alphaproteobacteria from the North Sea were collected using the CLSA or SPME headspace…