Aug 19, 2015

Integrating microbial and host transcriptomics to characterize asthma-associated microbial communities

BMC Medical Genomics
Eduardo Castro-NallarKeith A Crandall

Abstract

The relationships between infections in early life and asthma are not completely understood. Likewise, the clinical relevance of microbial communities present in the respiratory tract is only partially known. A number of microbiome studies analyzing respiratory tract samples have found increased proportions of gamma-Proteobacteria including Haemophilus influenzae, Moraxella catarrhalis, and Firmicutes such as Streptococcus pneumoniae. The aim of this study was to present a new approach that combines RNA microbial identification with host gene expression to characterize and validate metagenomic taxonomic profiling in individuals with asthma. Using whole metagenomic shotgun RNA sequencing, we characterized and compared the microbial communities of individuals, children and adolescents, with asthma and controls. The resulting data were analyzed by partitioning human and microbial reads. Microbial reads were then used to characterize the microbial diversity of each patient, and potential differences between asthmatic and healthy groups. Human reads were used to assess the expression of known genes involved in the host immune response to specific pathogens and detect potential differences between those with asthma and controls. Micr...Continue Reading

  • References43
  • Citations24

References

  • References43
  • Citations24

Citations

Mentioned in this Paper

Tobacco Use Disorder
Hepatitis D Infection
Microorganism
Study
Corynebacterium accolens
Immune Response
Bronchial System
Corynebacterium
Nasal Cavity
Haemophilus influenzae

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