Publications
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Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association.. Nat Commun. 4:2809.
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2013. Characterization of metabolism in the Fe(III)-reducing organism Geobacter sulfurreducens by constraint-based modeling.. Appl Environ Microbiol. 72(2):1558-68.
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2006. Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks.. Nat Commun. 4:1755.
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2013. Cleaning up with genomics: applying molecular biology to bioremediation.. Nat Rev Microbiol. 1(1):35-44.
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2003. Compartmentalization of lipid biosynthesis in mycobacteria.. J Biol Chem. 280(22):21645-52.
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2005. Computational and experimental analysis of redundancy in the central metabolism of Geobacter sulfurreducens.. PLoS Comput Biol. 4(2):e36.
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2008. Constraint-based modeling analysis of the metabolism of two Pelobacter species.. BMC Syst Biol. 4:174.
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2010. Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens.. PLoS Comput Biol. 10(4):e1003575.
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2014. Coupling a genome-scale metabolic model with a reactive transport model to describe in situ uranium bioremediation.. Microb Biotechnol. 2(2):274-86.
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2009. Crystal ball. In silico biology meets in situ phenomenology.. Environ Microbiol. 7(4):478-9.
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2005. The degree of redundancy in metabolic genes is linked to mode of metabolism.. Biophys J. 94(4):1216-20.
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2008. Desiccation responses and survival of Sinorhizobium meliloti USDA 1021 in relation to growth phase, temperature, chloride and sulfate availability.. Lett Appl Microbiol. 42(2):172-8.
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2006. Differential requirements of two recA mutants for constitutive SOS expression in Escherichia coli K-12.. PLoS One. 3(12):e4100.
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2008. Direct coupling of a genome-scale microbial in silico model and a groundwater reactive transport model.. J Contam Hydrol. 122(1-4):96-103.
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2011. Expression of the yeast PIS1 gene requires multiple regulatory elements including a Rox1p binding site.. J Biol Chem. 278(40):38646-52.
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2003. Extracellular electron transfer: wires, capacitors, iron lungs, and more.. Geobiology. 6(3):225-31.
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2008. Genome-scale comparison and constraint-based metabolic reconstruction of the facultative anaerobic Fe(III)-reducer Rhodoferax ferrireducens.. BMC Genomics. 10:447.
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2009. Genome-scale constraint-based modeling of Geobacter metallireducens.. BMC Syst Biol. 3:15.
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2009. Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments.. ISME J. 5(2):305-16.
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2011. Genome-wide similarity search for transcription factors and their binding sites in a metal-reducing prokaryote Geobacter sulfurreducens.. Biosystems. 90(2):421-41.
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2007. Genomic analysis of the Opi- phenotype.. Genetics. 173(2):621-34.
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2006. Geobacter sulfurreducens strain engineered for increased rates of respiration.. Metab Eng. 10(5):267-75.
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2008. A hand-off mechanism for primosome assembly in replication restart.. Mol Cell. 26(6):781-93.
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2007. Happy together: microbial communities that hook up to swap electrons.. ISME J. 11(2):327-336.
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2017. In situ to in silico and back: elucidating the physiology and ecology of Geobacter spp. using genome-scale modelling.. Nat Rev Microbiol. 9(1):39-50.
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2011.
Department of Microbiology