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Phylogenetic Analysis of Type I and Type II Polyketide Synthase from Tropical Forest Soil

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Author(s): Mei-Fong Pang | Geok-Yuan Annie Tan | Noorlidah Abdullah | Choon-Weng Lee | Ching-Ching Ng

Journal: Biotechnology
ISSN 1682-296X

Volume: 7;
Issue: 4;
Start page: 660;
Date: 2008;
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Keywords: Culture-independent | tropical soil | polyketide synthase (PKS) | ketosynthase (KS) | phylogenetic analysis

ABSTRACT
Culture-independent approach was employed to retrieve diverse type I and type II polyketide synthase (PKS) ketosynthase (KS) domains from community DNA extracted from forest topsoil. Type I KS domains detected were from four phyla which comprised Cyanobacteria, Proteobacteria, Actinobacteria, Chloroflexi and uncultured bacteria. The type II KS α domains were derived from four suborders of actinobacteria in addition to uncultured bacteria. Approximately 25% of the KS domains were recovered from uncultured bacteria and many sequences of type I KS were derived from Myxobacteria. BLASTP results showed that the type I and type II KS domain amino acid sequences were between 52 to 93% identical to the comparative sequences in the GenBank database. Phylogenetic analysis for novelty prediction of KS domains showed 14 and 9 novel clades of type I KS and type II PKS KSα domains, respectively. These phylogenetically distinct novel clades might represent a new subclass of KS domains. Present data suggests the possibility of further discovery of novel genes encoding bioactive compounds which may have medical and pharmaceutical value.
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