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Application Methodology of Whole Omics Information

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Microbial Production

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Abstract

Sequencing genomes and successive functional genomic analyses are powerful means to explore cellular function, including metabolism. Transcriptome analysis has allowed deciphering the mechanism to bring out the potential of degrading raw materials by traditional solid-state cultivation (SSC). Secondary metabolites biosynthesis (SMB) is also an attractive target for the study of filamentous fungi. A significantly larger number of SMB genes than expected has been found by sequencing their genomes to date. In spite of their value, weak and unstable expression and limited conditions for expression and high diversity even between closely related species have made the analysis of SMB genes difficult. Several bioinformatics tools to identify clustered SMB genes have been developed depending on the existence of so-called core genes known to be responsible for synthesizing the basic structure of polyketides and non-ribosomal peptide. Comparative genomics of filamentous fungi indicated enrichment of SMB genes on non-syntenic blocks (NSBs) and suggested large number of SMB gene clusters without the core genes remaining unaddressed. Combining computational analyses of omics information using next-generation sequencer (NGS), DNA microarray, LC/MS, and so on will open the possibility of exploring SMB genes possessing novel biosynthesis functions.

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Authors and Affiliations

  1. National Institute of Advanced Industrial Science and Technology (AIST), Central 6, Higashi 1-1, Tsukuba, Ibaraki, 305-8566, Japan

    Myco Umemura & Masayuki Machida

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  1. Myco Umemura
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  2. Masayuki Machida
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Correspondence to Masayuki Machida .

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Editors and Affiliations

  1. Japan Bioindustry Association, Chuo-ku, Tokyo, Tokyo, Japan

    Hideharu Anazawa

  2. Bioscience and Biotechnology, Graduate School of Environmental Science, Kyoto Gakuen University, Kameoka, Kyoto, Japan

    Sakayu Shimizu

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Umemura, M., Machida, M. (2014). Application Methodology of Whole Omics Information. In: Anazawa, H., Shimizu, S. (eds) Microbial Production. Springer, Tokyo. https://doi.org/10.1007/978-4-431-54607-8_7

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