Systems-based approaches to unravel multi-species microbial community functioning

Computational and Structural Biotechnology Journal
Florence Abram

Abstract

Some of the most transformative discoveries promising to enable the resolution of this century's grand societal challenges will most likely arise from environmental science and particularly environmental microbiology and biotechnology. Understanding how microbes interact in situ, and how microbial communities respond to environmental changes remains an enormous challenge for science. Systems biology offers a powerful experimental strategy to tackle the exciting task of deciphering microbial interactions. In this framework, entire microbial communities are considered as metaorganisms and each level of biological information (DNA, RNA, proteins and metabolites) is investigated along with in situ environmental characteristics. In this way, systems biology can help unravel the interactions between the different parts of an ecosystem ultimately responsible for its emergent properties. Indeed each level of biological information provides a different level of characterisation of the microbial communities. Metagenomics, metatranscriptomics, metaproteomics, metabolomics and SIP-omics can be employed to investigate collectively microbial community structure, potential, function, activity and interactions. Omics approaches are enabled by ...Continue Reading

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Methods Mentioned

BETA
NMR
acid mine drainage
density-gradient centrifugation

Software Mentioned

MaxBin
AbundanceBin
RAST
Metacluster
PRMT
HUMAnN
PICRUSt
FROMP
IDBA
CONCOCT

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