Sequencing and beyond: integrating molecular 'omics' for microbial community profiling.

Nat Rev Microbiol 2015 Jun 27;13(6):360-72. Epub 2015 Apr 27.

1] Biostatistics Department, Harvard School of Public Health, Boston, Massachusetts 02115, USA. [2] The Broad Institute, Cambridge, Massachusetts 02142, USA.

High-throughput DNA sequencing has proven invaluable for investigating diverse environmental and host-associated microbial communities. In this Review, we discuss emerging strategies for microbial community analysis that complement and expand traditional metagenomic profiling. These include novel DNA sequencing strategies for identifying strain-level microbial variation and community temporal dynamics; measuring multiple 'omic' data types that better capture community functional activity, such as transcriptomics, proteomics and metabolomics; and combining multiple forms of omic data in an integrated framework. We highlight studies in which the 'multi-omics' approach has led to improved mechanistic models of microbial community structure and function.

Download full-text PDF

Source
http://dx.doi.org/10.1038/nrmicro3451DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4800835PMC
June 2015
8 Reads

Publication Analysis

Top Keywords

microbial community
12
dna sequencing
8
community
5
microbial
5
community temporal
4
strategies identifying
4
sequencing strategies
4
variation community
4
microbial variation
4
identifying strain-level
4
novel dna
4
integrated framework
4
strain-level microbial
4
framework highlight
4
expand traditional
4
proteomics metabolomics
4
studies 'multi-omics'
4
highlight studies
4
traditional metagenomic
4
data integrated
4

References

(Supplied by CrossRef)

J Handelsman et al.
Chem. Biol. 1998

GW Tyson et al.
Nature 2004

JC Venter et al.
Science 2004

MR Rondon et al.
Appl. Environ. Microbiol. 2000

SW Kembel et al.
ISME J. 2012

J Qin et al.
Nature 2010

PJ Turnbaugh et al.
Nature 2006

PJ Turnbaugh et al.
Nature 2009

RE Ley et al.
Curr. Opin. Gastroenterol. 2010

C Manichanh et al.
Gut 2006

Similar Publications