Journal article
Integrated ‘omics analysis for studying the microbial community response to a pH perturbation of a cellulose-degrading bioreactor culture
FEMS microbiology ecology, Vol.90(3), pp.802-815
12/01/2014
Handle:
https://hdl.handle.net/2376/108108
PMID: 25290699
Abstract
Abstract
Integrated ‘omics have been used on pure cultures and co-cultures, yet they have not been applied to complex microbial communities to examine questions of perturbation response. In this study, we used integrated ‘omics to measure the perturbation response of a cellulose-degrading bioreactor community fed with microcrystalline cellulose (Avicel). We predicted that a pH decrease by addition of a pulse of acid would reduce microbial community diversity and temporarily reduce reactor function in terms of cellulose degradation. However, 16S rDNA gene pyrosequencing results revealed increased alpha diversity in the microbial community after the perturbation, and a persistence of the dominant community members over the duration of the experiment. Proteomics results showed a decrease in activity of proteins associated with Fibrobacter succinogenes 2 days after the perturbation followed by increased protein abundances 6 days after the perturbation. The decrease in cellulolytic activity suggested by the proteomics was confirmed by the accumulation of Avicel in the reactor. Metabolomics showed a pattern similar to that of the proteome, with amino acid production decreasing 2 days after the perturbation and increasing after 6 days. This study demonstrated that community ‘omics data provide valuable information about the interactions and function of anaerobic cellulolytic community members after a perturbation.
We evaluated the functional response of a microbial community cultured in a bioreactor to a pulse of acid using ‘omics techniques.
We evaluated the functional response of a microbial community cultured in a bioreactor to a pulse of acid using ‘omics techniques.
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Details
- Title
- Integrated ‘omics analysis for studying the microbial community response to a pH perturbation of a cellulose-degrading bioreactor culture
- Creators
- Amy A Boaro - Bioproducts, Sciences and Engineering Laboratory, Washington State University Tri-cities, Richland, WA, USAYoung-Mo Kim - Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, USAAllan E Konopka - Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, USAStephen J Callister - Biological Sciences Division, Pacific Northwest National Laboratory, Richland, WA, USABirgitte K Ahring - Bioproducts, Sciences and Engineering Laboratory, Washington State University Tri-cities, Richland, WA, USA
- Publication Details
- FEMS microbiology ecology, Vol.90(3), pp.802-815
- Academic Unit
- Chemical Engineering and Bioengineering, School of
- Publisher
- Blackwell Publishing Ltd; Oxford, UK
- Identifiers
- 99900547188001842
- Language
- English
- Resource Type
- Journal article