Bacterial community composition and predicted functional ecology of sponges, sediment and seawater from the thousand islands reef complex, West Java, Indonesia

In the present study, we assessed the composition of Bacteria in four biotopes namely sediment, seawater and two sponge species (Stylissa massa and Xestospongia testudinaria) at four different reef sites in a coral reef ecosystem in West Java, Indonesia. In addition to this, we used a predictive met...

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Bibliographic Details
Published in:FEMS microbiology ecology 2015-04, Vol.91 (4), p.1
Main Authors: de Voogd, Nicole J., Cleary, Daniel F.R., Polónia, Ana R.M., Gomes, Newton C.M.
Format: Article
Language:English
Subjects:
Actinobacteria - classification
Actinobacteria - genetics
Animals
Bacteria
Base Sequence
Biodiversity
Biotopes
Chemical analysis
Communities
Community composition
Composition
Coral reef ecosystems
Coral Reefs
Deltaproteobacteria - classification
Deltaproteobacteria - genetics
DNA, Bacterial - genetics
Ecological function
Ecology
Ecosystem
Environmental aspects
Environmental changes
Gene sequencing
Genes
Geologic Sediments - microbiology
Indonesia
Marine sediments
Metabolic pathways
Metagenome - genetics
Microbial activity
Microbial colonies
Microbial Consortia - genetics
Microbiology
Microorganisms
Nitrogen
Nitrogen cycle
Nitrogen Cycle - genetics
Nitrogen metabolism
NorB protein
Phylogeny
Proteobacteria - classification
Proteobacteria - genetics
Sea-water
Seawater
Seawater - microbiology
Sediments
Sequence Analysis, DNA
Sponges
Water analysis
Xestospongia - microbiology
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Summary:In the present study, we assessed the composition of Bacteria in four biotopes namely sediment, seawater and two sponge species (Stylissa massa and Xestospongia testudinaria) at four different reef sites in a coral reef ecosystem in West Java, Indonesia. In addition to this, we used a predictive metagenomic approach to estimate to what extent nitrogen metabolic pathways differed among bacterial communities from different biotopes. We observed marked differences in bacterial composition of the most abundant bacterial phyla, classes and orders among sponge species, water and sediment. Proteobacteria were by far the most abundant phylum in terms of both sequences and Operational Taxonomic Units (OTUs). Predicted counts for genes associated with the nitrogen metabolism suggested that several genes involved in the nitrogen cycle were enriched in sponge samples, including nosZ, nifD, nirK, norB and nrfA genes. Our data show that a combined barcoded pyrosequencing and predictive metagenomic approach can provide novel insights into the potential ecological functions of the microbial communities. Not only is this approach useful for our understanding of the vast microbial diversity found in sponges but also to understand the potential response of microbial communities to environmental change. The composition of Bacteria in four biotopes namely sediment, seawater and two sponge species were investigated in a coral reef ecosystem in West Java, Indonesia.
ISSN:1574-6941
0168-6496
1574-6941
DOI:10.1093/femsec/fiv019