Shujiro Okuda Yuki Tsuchiya Chiho Kiriyama Masumi Itoh Hisao Morisaki. Virtual metagenome reconstruction from 16S rRNA gene sequences. Nature Communications 2012 doi:10.1038-ncomms2203.
Abstract
Microbial ecologists have investigated roles of species richness and diversity in a wide variety of ecosystems. Recently metagenomics have been developed to measure functions in ecosystems but this approach is cost-intensive. Here we describe a novel method for the rapid and efficient reconstruction of a virtual metagenome in environmental microbial communities without using large-scale genomic sequencing. We demonstrate this approach using 16S rRNA gene sequences obtained from denaturing gradient gel electrophoresis analysis mapped to fully sequenced genomes to reconstruct virtual metagenome-like organizations. Furthermore we validate a virtual metagenome using a published metagenome for cocoa bean fermentation samples and show that metagenomes reconstructed from biofilm formation samples allow for the study of the gene pool dynamics that are necessary for biofilm growth.
