Insights from the Genomes of Microbes Thriving in Uranium-Enriched Sediments

Microb Ecol. 2018 May;75(4):970-984. doi: 10.1007/s00248-017-1102-z. Epub 2017 Nov 11.

Abstract

Elevated uranium dose (4 g kg-1) causes a shift in billabong sediment communities that result in the enrichment of five bacterial species. These taxa include Geobacter, Geothrix and Dyella species, as well as a novel-potentially predatory-Bacteroidetes species, and a new member of class Anaerolineae (Chloroflexi). Additionally, a population of methanogenic Methanocella species was also identified. Genomic reconstruction and metabolic examination of these taxa reveal a host of divergent life strategies and putative niche partitioning. Resistance-nodulation-division heavy metal efflux (RND-HME) transporters are implicated as potential uranium tolerance strategies among the bacterial taxa. Potential interactions, uranium tolerance and ecologically relevant catabolism are presented in a conceptual model of life in this environment.

Keywords: Genomes; Metagenome; Sediment; Uranium.

MeSH terms

  • Bacteria / classification
  • Bacteria / enzymology
  • Bacteria / genetics*
  • Bacterial Proteins / genetics
  • Carbohydrate Metabolism
  • DNA, Bacterial / genetics
  • Drug Tolerance
  • Ecology
  • Genes, Bacterial / genetics
  • Genomics*
  • Geobacter / classification
  • Geobacter / genetics
  • Geologic Sediments / microbiology*
  • Metagenome*
  • Molecular Sequence Annotation
  • Phylogeny
  • RNA, Ribosomal, 16S / genetics
  • Uranium / metabolism*

Substances

  • Bacterial Proteins
  • DNA, Bacterial
  • RNA, Ribosomal, 16S
  • Uranium