Using Metagenomic Approach and Microbial Genomics Information for Producing Industrially Excellent Enzymes
Center for Bioindustrial Technology (PTB), Agency for Assessment and Application of Technology (BPPT),
Laboratory of Bioindustrial Technology, 611 Building, LAPTIAB-BPPT, Puspiptek-Serpong, Tangerang Selatan, Banten, Indonesia
Phone/Fax: +62-21-7560536 ext 7119/+62-21-7566922
Email: firstname.lastname@example.org, email@example.com
Nowadays, microbial enzymes contribute significantly in various applications such as industry, pharmacy, etc. However, there are two big challenges related to the enzymes issue from both scientific and industrial aspects. First, how to find out enzymes with excellent properties that match industrial need, such as high thermostability, alkaline stability, etc. Second, how to produce these excellent enzymes more efficiently using microbial host as producer. For the first challenges, the new approach, metagenomic, offer a shortcut method to attain enzyme gene directly from any environment with unculturable microbes and promise novel enzyme discovery by activity-based approach. However, this approach has technical problems of obtaining a sufficient amount of DNA sample of extreme environment, and the requirement of sophisticated equipments to conduct sampling and high throughput screening activity assay. For the second challenges, the available microbial genomics (bioinformatics) data facilitates the improvement of the microbial strain as the host for the cloned enzyme gene. For example, better bacterial strain producer of extracellular enzymes can be engineered by knocking out the competitive enzyme gene to reduce the burden of secretion, so that the target enzyme gene retrieved from a metagenomic library can be more expressed. In our research, gene knockout is conducted by direct insertion of the target enzyme gene to the locus of the competitive gene in the genome of the local industrially bacterial strain. The enzyme gene that is competitive with the target one could be easily identified based on the presently available genomics data on Bacillus licheniformis, B. halodurans, or B. subtilis. In this presentation I will also describe the prospect of Indonesian microbial diversity, including culturable and unculturable microbes (that still under report), and how our effort is, as the researchers in developing country, to develop our own microbial (meta)genomic initiation.
Key words: enzymes, strain improvement, metagenomics, microbial genomics information
Background Review Article:
Ferrer, Manuel, et al. "Metagenomics for mining new genetic resources of microbial communities." Journal of molecular microbiology and biotechnology 16.1-2 (2008): 109-123.