Metagenomic Survey of Potential Symbiotic Bacteria and Polyketide Synthase Genes in an Indonesian Marine Sponge

Metagenomic Survey of Potential Symbiotic Bacteria and Polyketide Synthase Genes in an Indonesian Marine Sponge

There has been emerging evidence that the bacteria associated with marine sponges are the key producers of many complex bioactive compounds. The as-yet uncultured candidate bacterial genus “Candidatus Entotheonella” of the marine sponge Theonella swinhoei from Japan have recently been recognized as...

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Bibliographic Details
Published in:Hayati : journal of biosciences Vol. 24; no. 1; pp. 6 - 15
Main Authors: Kurnia, Nia M., Uria, Agustinus R., Kusnadi, Yudi, Dinawati, Lidia, Zilda, Dewi S., Hadi, Tri A., Setyahadi, Siswa, Felix, Feliatra
Format: Journal Article
Language:English
Published: Bogor Bogor Agricultural University (IPB), Department of Biology 01-01-2017
Bogor Agricultural University
Subjects:
Bacteria
Bioactive compounds
Biosynthesis
Candidatus Entotheonella
Candidatus Entotheonella sp.
Cloning
Cytochrome
Deoxyribonucleic acid
DNA
Enzymes
Fatty acids
Fisheries
Genes
Genomes
Homology
Library collections
marine sponge
microbiome
Microbiomes
Natural products
Peptides
Pharmacology
Phylogenetics
Phylogeny
Polyketide synthase
Polyketides
Rhabdastrella
Rhabdastrella sp
Seawater
Theonella swinhoei
Indonesia
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Summary:There has been emerging evidence that the bacteria associated with marine sponges are the key producers of many complex bioactive compounds. The as-yet uncultured candidate bacterial genus “Candidatus Entotheonella” of the marine sponge Theonella swinhoei from Japan have recently been recognized as the source of numerous pharmacologically relevant polyketides and modified peptides, as previously reported by the Piel group (Wilson et al. 2014). This work reported the presence of “Candidatus Entotheonella sp.” in the highly complex microbiome of an Indonesian marine sponge from Kapoposang Island, South Sulawesi. We further identified the Kapoposang sponge specimen used in this work as Rhabdastrella sp. based on the integrated morphological, histological, and cytochrome oxidase subunit I (COI) gene analyses. To detect the polyketide biosynthetic machinery called type I polyketide synthase (PKS) in this Indonesian Rhabdastrella sp., we amplified and cloned the ketosynthase-encoding DNA regions of approximately 700 bp from the uncultured sponge's microbiome. Further sequencing and analysis of several randomly chosen clones indicated that all of them are mostly likely involved in the biosynthesis of methyl-branched fatty acids. However, employing a PKS-targeting primer designed in this work led to the isolation of four positive clones. BlastX search and subsequent phylogenetic analysis showed that one of the positive clones, designed as RGK32, displayed high homology with ketosynthase domains of many type I PKS systems and may belong to the subclass cis-AT PKS group.
ISSN:1978-3019
2086-4094
DOI:10.1016/j.hjb.2017.04.004