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Comparative genomic analysis of Geobacter sulfurreducens KN400, a strain with enhanced capacity for extracellular electron transfer and electricity production
BMC Genomics (2012)
  • Jessica E. Butler, University of Massachusetts - Amherst
  • Nelson D. Young, University of Massachusetts - Amherst
  • Muktak Aklujkar, University of Massachusetts - Amherst
  • Derek Lovley, University of Massachusetts - Amherst
Abstract

Background A new strain of Geobacter sulfurreducens, strain KN400, produces more electrical current in microbial fuel cells and reduces insoluble Fe(III) oxides much faster than the wildtype strain, PCA. The genome of KN400 was compared to wildtype with the goal of discovering how the network for extracellular electron transfer has changed and how these two strains evolved. Results Both genomes were re-annotated, resulting in 14 fewer genes (net) in the PCA genome; 28 fewer (net) in the KN400 genome; and ca. 400 gene start and stop sites moved. 96% of genes in KN400 had clear orthologs with conserved synteny in PCA. Most of the remaining genes were in regions of genomic mobility and were strain-specific or conserved in other Geobacteraceae, indicating that the changes occurred post-divergence. There were 27,270 single nucleotide polymorphisms (SNP) between the genomes. There was significant enrichment for SNP locations in non-coding or synonymous amino acid sites, indicating significant selective pressure since the divergence. 25% of orthologs had sequence differences, and this set was enriched in phosphorylation and ATP-dependent enzymes. Substantial sequence differences (at least 12 non-synonymous SNP/kb) were found in 3.6% of the orthologs, and this set was enriched in cytochromes and integral membrane proteins. Genes known to be involved in electron transport, those used in the metabolic cell model, and those that exhibit changes in expression during growth in microbial fuel cells were examined in detail.

Keywords
  • Geobacter sulfurreducens KN400,
  • Comparative genomics,
  • Microbial fuel cell,
  • Extracellular electron transfer
Disciplines
Publication Date
September 12, 2012
Publisher Statement
This article is harvesting from BioMed Central. doi:10.1186/1471-2164-13-471
Citation Information
Jessica E. Butler, Nelson D. Young, Muktak Aklujkar and Derek Lovley. "Comparative genomic analysis of Geobacter sulfurreducens KN400, a strain with enhanced capacity for extracellular electron transfer and electricity production" BMC Genomics Vol. 13 Iss. 471 (2012)
Available at: http://works.bepress.com/derek_lovley/361/