Genomic Analysis of Xylose Metabolism in Members of the Deinoccocus-Thermus Phylum from Thermophilic Biomass-Deconstructing Bacterial Consortia

Yu Wei Wu, Chijioke Joshua, Stephanie A. Eichorst, John M. Gladden, Blake A. Simmons, Steven W. Singer

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Members of the phylum Deinoccocus-Thermus are adapted to grow under extremes of temperature and radiation. Some of these members have broad applications in biotechnology. However, the specific role of members of Deinoccocus-Thermus in plant biomass deconstruction remains largely unknown. Adaptations of thermophilic communities to grow on plant biomass substrates as the sole carbon source have consistently produced consortia with abundant populations affiliated with the Deinoccocus-Thermus. One of these populations was closely related to cultured isolates of Thermus thermophilus, while the second population, termed NIC-1, was distantly related to Truepera radiovictrix. NIC-1 was abundant in adapted cultures grown on xylan-rich substrates, while the T. thermophilus was virtually absent. To begin to understand the origin of this selection, genomic comparisons of xylan and xylose metabolism were undertaken between NIC-1, recovered from the metagenome obtained from an ammonia fiber expansion (AFEX)-pretreated switchgrass-adapted consortium and a T. thermophilus isolate from a related high temperature switchgrass adaptation. While both genomes indicated relatively limited capabilities to hydrolyze xylan, the NIC-1 genome had a putative operon for xylose utilization, while xylose metabolism genes were absent from the T. thermophilus genome. Comparison of multiple T. thermophilus genomes indicated that the genes for xylose metabolism were present on a plasmid in only one strain. Inspection of metagenomic dataset for adapted communities that contain T. thermophilus indicated that the plasmid is present in the T. thermophilus populations but may be lost upon isolation.

Original languageEnglish
Pages (from-to)1031-1038
Number of pages8
JournalBioenergy Research
Volume8
Issue number3
DOIs
Publication statusPublished - Mar 12 2015
Externally publishedYes

Fingerprint

Thermus thermophilus
Thermus
Xylose
xylose
Metabolism
Biomass
Genes
genomics
metabolism
biomass
xylan
genome
Panicum virgatum
plasmids
Substrates
Biotechnology
operon
Ammonia
marker-assisted selection
biotechnology

Keywords

  • Consortium
  • Metagenome
  • Switchgrass
  • Truepera
  • Xylan

ASJC Scopus subject areas

  • Agronomy and Crop Science
  • Energy (miscellaneous)
  • Renewable Energy, Sustainability and the Environment

Cite this

Genomic Analysis of Xylose Metabolism in Members of the Deinoccocus-Thermus Phylum from Thermophilic Biomass-Deconstructing Bacterial Consortia. / Wu, Yu Wei; Joshua, Chijioke; Eichorst, Stephanie A.; Gladden, John M.; Simmons, Blake A.; Singer, Steven W.

In: Bioenergy Research, Vol. 8, No. 3, 12.03.2015, p. 1031-1038.

Research output: Contribution to journalArticle

Wu, Yu Wei ; Joshua, Chijioke ; Eichorst, Stephanie A. ; Gladden, John M. ; Simmons, Blake A. ; Singer, Steven W. / Genomic Analysis of Xylose Metabolism in Members of the Deinoccocus-Thermus Phylum from Thermophilic Biomass-Deconstructing Bacterial Consortia. In: Bioenergy Research. 2015 ; Vol. 8, No. 3. pp. 1031-1038.
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