Genetic and bioinformatic tools to improve bacterial identification from complex habitats
To determine the individual members within a complex microbiota, a 16S rRNA metagenomic sequencing approach is usually applied. However, only limited information beyond the genus level can be obtained by this method. Thus, we develop methods to further resolve the composition of the microbiome by taking advantage of bacterial (pan-)genome sequencing. Single-locus-sequence-typing (SLST) methods are developed that can resolve the population structure of a given species in a complex microbiome.
Figure: A SLST scheme can discriminate the phylogenetic clusters of Propionibacterium (Cutibacterium) acnes