High-resolution microbial community reconstruction by integrating short reads from multiple 16S rRNA regions.

ABSTRACT: The emergence of massively parallel sequencing technology has revolutionized microbial profiling, allowing the unprecedented comparison of microbial diversity across time and space in a wide range of host-associated and environmental ecosystems. Although the high-throughput nature of such methods enables the detection of low-frequency bacteria, these advances come at the cost of sequencing read length, limiting the phylogenetic resolution possible by current methods. Here, we present a generic approach for integrating short reads from large genomic regions, thus enabling phylogenetic resolution far exceeding current methods. The approach is based on a mapping to a statistical model that is later solved as a constrained optimization problem. We demonstrate the utility of this method by anal

SUBMITTER: Amir A 

PROVIDER: S-EPMC3905898 | biostudies-literature | 2013 Dec

REPOSITORIES: biostudies-literature