Event Date: 
Wednesday, April 24, 2013 - 19:15 - 20:00
University of Technology Sydney

Observing the developing infant gut microbiome with time-series metagenomics.


The human body plays host to a complex microbial ecosystem, the
development of which begins around the time of birth. Routine monitoring
of the development of microbial ecosystems in newborns (or other
environments) using metagenomic methods is currently extremely
challenging and expensive. I will describe some recent technological
advances that could enable routine sequencing and computational analysis
of hundreds of metagenomes, and demonstrate their application on samples
taken from a developing infant gut microbiome. In this study forty-five
samples were subjected to transposon-catalyzed Illumina library prep and
metagenomic sequencing on a HiSeq 2000 instrument. The resulting data
was subjected to analysis of microbial community structure using a new
approach called phylogenetic Edge Principal Component Analysis (Edge
PCA) that can identify which lineages in a phylogeny explain the
greatest degree of variation among the samples. We also investigate the
population genomics of Bacteroides thetaiotaomicron, one of the dominant
members of the gut microbial community.

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