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Title: Exometabolomic Analysis of Cross-Feeding Metabolites

Abstract

Microbial consortia have the potential to perform complex, industrially important tasks. The design of microbial consortia requires knowledge of the substrate preferences and metabolic outputs of each member, to allow understanding of potential interactions such as competition and beneficial metabolic exchange. Here, we used exometabolite profiling to follow the resource processing by a microbial co-culture of two biotechnologically relevant microbes, the bacterial cellulose degrader Cellulomonas fimi, and the oleaginous yeast Yarrowia lipolytica. We characterized the substrate preferences of the two strains on compounds typically found in lignocellulose hydrolysates. This allowed prediction that specific sugars resulting from hemicellulose polysaccharide degradation by C. fimi may serve as a cross-feeding metabolites to Y. lipolytica in co-culture. We also showed that products of ionic liquid-treated switchgrass lignocellulose degradation by C. fimi were channeled to Y. lipolytica in a co-culture. Additionally, we observed metabolites, such as shikimic acid accumulating in the co-culture supernatants, suggesting the potential for producing interesting co-products. Insights gained from characterizing the exometabolite profiles of individual and co-cultures of the two strains can help to refine this interaction, and guide strategies for making this an industrially viable co-culture to produce valuable products from lignocellulose material.

Authors:
 [1];  [1];  [1]
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  1. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Publication Date:
Research Org.:
Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC)
OSTI Identifier:
1532280
Grant/Contract Number:  
AC02-05CH11231
Resource Type:
Accepted Manuscript
Journal Name:
Metabolites
Additional Journal Information:
Journal Volume: 7; Journal Issue: 4; Journal ID: ISSN 2218-1989
Publisher:
MDPI
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; exometabolomics; bioprocessing; microbial consortia; cross-feeding; Yarrowia lipolytica; Cellulomonas fimi; lignocellulose

Citation Formats

Lubbe, Andrea, Bowen, Benjamin P., and Northen, Trent. Exometabolomic Analysis of Cross-Feeding Metabolites. United States: N. p., 2017. Web. doi:10.3390/metabo7040050.
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Lubbe, Andrea, Bowen, Benjamin P., & Northen, Trent. Exometabolomic Analysis of Cross-Feeding Metabolites. United States. doi:10.3390/metabo7040050.
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Lubbe, Andrea, Bowen, Benjamin P., and Northen, Trent. Wed . "Exometabolomic Analysis of Cross-Feeding Metabolites". United States. doi:10.3390/metabo7040050. https://www.osti.gov/servlets/purl/1532280.
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@article{osti_1532280,
title = {Exometabolomic Analysis of Cross-Feeding Metabolites},
author = {Lubbe, Andrea and Bowen, Benjamin P. and Northen, Trent},
abstractNote = {Microbial consortia have the potential to perform complex, industrially important tasks. The design of microbial consortia requires knowledge of the substrate preferences and metabolic outputs of each member, to allow understanding of potential interactions such as competition and beneficial metabolic exchange. Here, we used exometabolite profiling to follow the resource processing by a microbial co-culture of two biotechnologically relevant microbes, the bacterial cellulose degrader Cellulomonas fimi, and the oleaginous yeast Yarrowia lipolytica. We characterized the substrate preferences of the two strains on compounds typically found in lignocellulose hydrolysates. This allowed prediction that specific sugars resulting from hemicellulose polysaccharide degradation by C. fimi may serve as a cross-feeding metabolites to Y. lipolytica in co-culture. We also showed that products of ionic liquid-treated switchgrass lignocellulose degradation by C. fimi were channeled to Y. lipolytica in a co-culture. Additionally, we observed metabolites, such as shikimic acid accumulating in the co-culture supernatants, suggesting the potential for producing interesting co-products. Insights gained from characterizing the exometabolite profiles of individual and co-cultures of the two strains can help to refine this interaction, and guide strategies for making this an industrially viable co-culture to produce valuable products from lignocellulose material.},
doi = {10.3390/metabo7040050},
journal = {Metabolites},
number = 4,
volume = 7,
place = {United States},
year = {2017},
month = {10}
}
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DOI:  10.3390/metabo7040050
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Works referenced in this record:

Exometabolite niche partitioning among sympatric soil bacteria
journal, September 2015

  • Baran, Richard; Brodie, Eoin L.; Mayberry-Lewis, Jazmine
  • Nature Communications, Vol. 6, Issue 1
  • DOI: 10.1038/ncomms9289

Carbon catabolite repression in bacteria: many ways to make the most out of nutrients
journal, August 2008

  • Görke, Boris; Stülke, Jörg
  • Nature Reviews Microbiology, Vol. 6, Issue 8, p. 613-624
  • DOI: 10.1038/nrmicro1932

Molecular cloning of a Cellulomonas fimi cellulase gene in Escherichia coli
journal, February 1982

Exometabolomics and MSI: deconstructing how cells interact to transform their small molecule environment
journal, August 2015

Survey of renewable chemicals produced from lignocellulosic biomass during ionic liquid pretreatment
journal, January 2013

  • Varanasi, Patanjali; Singh, Priyanka; Auer, Manfred
  • Biotechnology for Biofuels, Vol. 6, Issue 1
  • DOI: 10.1186/1754-6834-6-14

Yarrowia lipolytica: A model and a tool to understand the mechanisms implicated in lipid accumulation
journal, June 2009

Switchgrass as an energy crop for biofuel production: A review of its ligno-cellulosic chemical properties
journal, January 2010

  • David, Kasi; Ragauskas, Arthur J.
  • Energy & Environmental Science, Vol. 3, Issue 9
  • DOI: 10.1039/b926617h

Synthesis of Methyl Halides from Biomass Using Engineered Microbes
journal, May 2009

  • Bayer, Travis S.; Widmaier, Daniel M.; Temme, Karsten
  • Journal of the American Chemical Society, Vol. 131, Issue 18, p. 6508-6515
  • DOI: 10.1021/ja809461u

Metabolic footprinting and systems biology: the medium is the message
journal, June 2005

  • Kell, Douglas B.; Brown, Marie; Davey, Hazel M.
  • Nature Reviews Microbiology, Vol. 3, Issue 7
  • DOI: 10.1038/nrmicro1177

Metabolic Engineering for Expanding the Substrate Range of Yarrowia lipolytica
journal, October 2016

Production of shikimic acid
journal, November 2012

Developing symbiotic consortia for lignocellulosic biofuel production
journal, January 2012

  • Zuroff, Trevor R.; Curtis, Wayne R.
  • Applied Microbiology and Biotechnology, Vol. 93, Issue 4
  • DOI: 10.1007/s00253-011-3762-9

Design and characterization of synthetic fungal-bacterial consortia for direct production of isobutanol from cellulosic biomass
journal, August 2013

  • Minty, Jeremy J.; Singer, Marc E.; Scholz, Scott A.
  • Proceedings of the National Academy of Sciences, Vol. 110, Issue 36
  • DOI: 10.1073/pnas.1218447110

Principles for designing synthetic microbial communities
journal, June 2016

  • Johns, Nathan I.; Blazejewski, Tomasz; Gomes, Antonio LC
  • Current Opinion in Microbiology, Vol. 31
  • DOI: 10.1016/j.mib.2016.03.010

FiehnLib: Mass Spectral and Retention Index Libraries for Metabolomics Based on Quadrupole and Time-of-Flight Gas Chromatography/Mass Spectrometry
journal, December 2009

  • Kind, Tobias; Wohlgemuth, Gert; Lee, Do Yup
  • Analytical Chemistry, Vol. 81, Issue 24
  • DOI: 10.1021/ac9019522

Using MetaboAnalyst 3.0 for Comprehensive Metabolomics Data Analysis
journal, September 2016

  • Xia, Jianguo; Wishart, David S.
  • Current Protocols in Bioinformatics, Vol. 55, Issue 1
  • DOI: 10.1002/cpbi.11

High-throughput classification of yeast mutants for functional genomics using metabolic footprinting
journal, May 2003

  • Allen, Jess; Davey, Hazel M.; Broadhurst, David
  • Nature Biotechnology, Vol. 21, Issue 6
  • DOI: 10.1038/nbt823

Production of ethanol from cellulose, Solka Floc BW 200, in a fedbatch mixed culture of Trichoderma reesei, C 30, and Saccharomyces cerevisiae
journal, July 1985

  • Hahn-H�gerdal, B�rbel; H�ggstr�m, Margareta
  • Applied Microbiology and Biotechnology, Vol. 22, Issue 3
  • DOI: 10.1007/BF00253607

Metabolic dependencies drive species co-occurrence in diverse microbial communities
journal, May 2015

  • Zelezniak, Aleksej; Andrejev, Sergej; Ponomarova, Olga
  • Proceedings of the National Academy of Sciences, Vol. 112, Issue 20
  • DOI: 10.1073/pnas.1421834112

Exometabolomics Assisted Design and Validation of Synthetic Obligate Mutualism
journal, February 2016

  • Kosina, Suzanne M.; Danielewicz, Megan A.; Mohammed, Mujahid
  • ACS Synthetic Biology, Vol. 5, Issue 7
  • DOI: 10.1021/acssynbio.5b00236
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