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Showing 1–11 of 11 results
Advanced filters: Author: Rainer Breitling Clear advanced filters

  • One promising application of synthetic biologies lies in the production of new drugs from secondary metabolites. In this Opinion article, Takano and colleagues describe potential strategies to spatially and temporally regulate the activity of metabolite biosynthetic modules for the design of efficient drug production systems.

    • Marnix H. Medema
    • Rainer Breitling
    • Eriko Takano
    Reviews
    Nature Reviews Microbiology
    Volume: 9, P: 131-137

  • For the full potential of microbial genomics to be realized, a complete understanding of the metabolic capacities of microbial life is required. In this Innovation, the authors discuss new system-biology technologies that enable the identification of novel metabolites and their biochemical connections within metabolic networks.

    • Rainer Breitling
    • Dennis Vitkup
    • Michael P. Barrett
    Reviews
    Nature Reviews Microbiology
    Volume: 6, P: 156-161

  • Ritsert Jansen and colleagues present an integrative analysis for genome-wide variation in transcript, protein and metabolite abundance in Arabidopsis, reporting six QTL hot spots with system-wide effects.

    • Jingyuan Fu
    • Joost J B Keurentjes
    • Ritsert C Jansen
    Research
    Nature Genetics
    Volume: 41, P: 166-167

  • This protocol addresses the need to define informative priors to apply ensemble modeling in systems biology. The protocol collects parameters, assesses their plausibility and creates log-normal probability distributions for use as informative priors.

    • Areti Tsigkinopoulou
    • Aliah Hawari
    • Rainer Breitling
    Protocols
    Nature Protocols
    Volume: 13, P: 2643-2663

  • Synthetic biology approaches for thede novodesign of biosynthetic pathways have developed rapidly in recent years. Takano and colleagues describe the latest computational tools available and discuss how they can be applied now and further developed for future synthetic biology efforts.

    • Marnix H. Medema
    • Renske van Raaphorst
    • Rainer Breitling
    Reviews
    Nature Reviews Microbiology
    Volume: 10, P: 191-202

  • A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene clusters. Information about these clusters, pathways and metabolites is currently dispersed throughout the literature, making it difficult to exploit. To facilitate consistent and systematic deposition and retrieval of data on biosynthetic gene clusters, we propose the Minimum Information about a Biosynthetic Gene cluster (MIBiG) data standard.

    • Marnix H Medema
    • Renzo Kottmann
    • Frank Oliver Glöckner
    Comments & OpinionOpen Access
    Nature Chemical Biology
    Volume: 11, P: 625-631

  • Pablo Carbonell et al. present an automated pipeline for the discovery and optimization of biosynthetic pathways for microbial production of fine chemicals. They apply their pipeline to the production of the flavonoid (2S)-pinocembrin in Escherichia coli and show improvement of the pathway by 500-fold.

    • Pablo Carbonell
    • Adrian J. Jervis
    • Nigel S. Scrutton
    ResearchOpen Access
    Communications Biology
    Volume: 1, P: 1-10