Metagenomics and metatranscriptomics: windows on CF-associated viral and microbial communities.

ABSTRACT:

Background

Samples collected from CF patient airways often contain large amounts of host-derived nucleic acids that interfere with recovery and purification of microbial and viral nucleic acids. This study describes metagenomic and metatranscriptomic methods that address these issues.

Methods

Microbial and viral metagenomes, and microbial metatranscriptomes, were successfully prepared from sputum samples from five adult CF patients.

Results

Contaminating host DNA was dramatically reduced in the metagenomes. Each CF patient presented a unique microbiome; in some Pseudomonas aeruginosa was replaced by other opportunistic bacteria. Even though the taxonomic composition of the microbiomes is very different, the metabolic potentials encoded by the community are very simila

SUBMITTER: Lim YW 

PROVIDER: S-EPMC3534838 | biostudies-literature | 2013 Mar

REPOSITORIES: biostudies-literature