Life Sciences Commons^™

Proteome Of Geobacter Sulfurreducens Through Genome-Wide Expression Data And Sequence Analysis, Derek Lovley, Yan-Huai Ding, Kim Hixson, Muktak Aklujkar, Mary Lipton, Richard Smith, Tϋnde Mester

Muktak Aklujkar

No abstract provided.

The Genome Of Pelobacter Carbinolicus Reveals Surprising Metabolic Capabilities And Physiological Features, Muktak Aklujkar, Shelley Haveman, Raymond Didonato, Olga Chertkov, Cliff Han, Miriam Land, Peter Brown, Derek Lovley

Muktak Aklujkar

Background: The bacterium Pelobacter carbinolicus is able to grow by fermentation, syntrophic hydrogen/formate transfer, or electron transfer to sulfur from short-chain alcohols, hydrogen or formate; it does not oxidize acetate and is not known to ferment any sugars or grow autotrophically. The genome of P. carbinolicus was sequenced in order to understand its metabolic capabilities and physiological features in comparison with its relatives, acetate-oxidizing Geobacter species.

Results: Pathways were predicted for catabolism of known substrates: 2,3-butanediol, acetoin, glycerol, 1,2-ethanediol, ethanolamine, choline and ethanol. Multiple isozymes of 2,3-butanediol dehydrogenase, ATP synthase and [FeFe]-hydrogenase were differentiated and assigned roles according to their …

Comparative Genomic Analysis Of Geobacter Sulfurreducens Kn400, A Strain With Enhanced Capacity For Extracellular Electron Transfer And Electricity Production, Jessica Butler, Nelson Young, Muktak Aklujkar, Derek Lovley

Muktak Aklujkar

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 …

The Genome Of Geobacter Bemidjiensis, Exemplar For The Subsurface Clade Of Geobacter Species That Predominate In Fe(Iii)-Reducing Subsurface Enviorments, Derek Lovley, Muktak Aklujkar, Nealson Young, Dawn Holmes, Milind Chavan, Carla Risso, Hajnalka Kiss, Cliff Han, Miriam Land

Muktak Aklujkar

BACKGROUND: Geobacter species in a phylogenetic cluster known as subsurface clade 1 are often the predominant microorganisms in subsurface environments in which Fe(III) reduction is the primary electron-accepting process. Geobacter bemidjiensis, a member of this clade, was isolated from hydrocarbon-contaminated subsurface sediments in Bemidji, Minnesota, and is closely related to Geobacter species found to be abundant at other subsurface sites. This study examines whether there are significant differences in the metabolism and physiology of G. bemidjiensis compared to non-subsurface Geobacter species. RESULTS: Annotation of the genome sequence of G. bemidjiensis indicates several differences in metabolism compared to previously sequenced non-subsurface …

Interference With Histidyl-Trna Synthetase By A Crispr Spacer Sequence As A Factor In The Evolution Of Pelobacter Carbinolicus, Derek Lovley, Muktak Aklujkar

Muktak Aklujkar

BACKGROUND: Pelobacter carbinolicus, a bacterium of the family Geobacteraceae, cannot reduce Fe(III) directly or produce electricity like its relatives. How P. carbinolicus evolved is an intriguing problem. The genome of P. carbinolicus contains clustered regularly interspaced short palindromic repeats (CRISPR) separated by unique spacer sequences, which recent studies have shown to produce RNA molecules that interfere with genes containing identical sequences. RESULTS: CRISPR spacer #1, which matches a sequence within hisS, the histidyl-tRNA synthetase gene of P. carbinolicus, was shown to be expressed. Phylogenetic analysis and genetics demonstrated that a gene paralogous to hisS in the genomes of Geobacteraceae is …

The Genome Sequence Of Geobacter Metallireducens: Features Of Metabolism, Physiology And Regulation Common And Dissimilar To Geobacter Sulfurreducens, Derek Lovley, Muktak Aklujkar, Julia Krushkal, Genevieve Dibartolo, Alla Lapidus, Miriam L. Land

Muktak Aklujkar

BACKGROUND: The genome sequence of Geobacter metallireducens is the second to be completed from the metal-respiring genus Geobacter, and is compared in this report to that of Geobacter sulfurreducens in order to understand their metabolic, physiological and regulatory similarities and differences. RESULTS: The experimentally observed greater metabolic versatility of G. metallireducens versus G. sulfurreducens is borne out by the presence of more numerous genes for metabolism of organic acids including acetate, propionate, and pyruvate. Although G. metallireducens lacks a dicarboxylic acid transporter, it has acquired a second putative succinate dehydrogenase/fumarate reductase complex, suggesting that respiration of fumarate was important until …