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Proceedings Paper

Using molecular systematics and GIS-based modeling approaches for selection of potential sites to explore the desirable microbial products
Author(s): Sunai Yokwai; Boonyarat Phadermrod; Eakasit Pacharawongsakda; Supawadee Ingsriswang
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Paper Abstract

Microorganisms and their chemical products are widely used as sources to isolate many drugs. To search for novel and potential bioactive compounds from microorganisms, one approach is to acquire microbial samples from various environments. However, with random collection and selection of the microbes, it would be hard to find the desired bioactive compounds. To support the selection of the ecological habitat for collecting microorganisms in an efficient way, we proposed a computational framework using molecular systematics and GIS-based modeling approaches. The first step in this framework, molecular sequences and bioactivity profiles of microbes are used to build the phylogenetic trees, whose leaf nodes are also associated with site location. Next, the phylogenetic diversity (PD) of microbes/bioactivities among different geographic sites is estimated from the trees for the selection of interesting sites. Using microbe occurrence and geographic data from the sites of interest, GARP algorithm is applied for the prediction of species distribution in other areas. In addition, the PD values from each site are used in training data for prediction of phylogenetic diversity and bioactivity diversity in unexplored areas.

Paper Details

Date Published: 5 November 2008
PDF: 8 pages
Proc. SPIE 7144, Geoinformatics 2008 and Joint Conference on GIS and Built Environment: The Built Environment and Its Dynamics, 71442T (5 November 2008); doi: 10.1117/12.812850
Show Author Affiliations
Sunai Yokwai, National Ctr. for Genetic Engineering and Biotechnology (Thailand)
Boonyarat Phadermrod, National Ctr. for Genetic Engineering and Biotechnology (Thailand)
Eakasit Pacharawongsakda, National Ctr. for Genetic Engineering and Biotechnology (Thailand)
Supawadee Ingsriswang, National Ctr. for Genetic Engineering and Biotechnology (Thailand)


Published in SPIE Proceedings Vol. 7144:
Geoinformatics 2008 and Joint Conference on GIS and Built Environment: The Built Environment and Its Dynamics
Lin Liu; Xia Li; Kai Liu; Xinchang Zhang; Xinhao Wang, Editor(s)

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