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Results: 1 to 20 of 21

1.

Constraint-based modeling of carbon fixation and the energetics of electron transfer in Geobacter metallireducens.

Feist AM, Nagarajan H, Rotaru AE, Tremblay PL, Zhang T, Nevin KP, Lovley DR, Zengler K.

PLoS Comput Biol. 2014 Apr 24;10(4):e1003575. doi: 10.1371/journal.pcbi.1003575. eCollection 2014 Apr.

PMID:
24762737
[PubMed - in process]
Free PMC Article
2.

Genome-based Modeling and Design of Metabolic Interactions in Microbial Communities.

Mahadevan R, Henson MA.

Comput Struct Biotechnol J. 2012 Nov 12;3:e201210008. doi: 10.5936/csbj.201210008. eCollection 2012. Review.

PMID:
24688668
[PubMed]
Free PMC Article
3.

Analysis of enhanced current-generating mechanism of Geobacter sulfurreducens strain via model-driven metabolism simulation.

Meng J, Xu Z, Guo J, Yue Y, Sun X.

PLoS One. 2013 Sep 13;8(9):e73907. doi: 10.1371/journal.pone.0073907. eCollection 2013.

PMID:
24058500
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

Fluctuations in species-level protein expression occur during element and nutrient cycling in the subsurface.

Wilkins MJ, Wrighton KC, Nicora CD, Williams KH, McCue LA, Handley KM, Miller CS, Giloteaux L, Montgomery AP, Lovley DR, Banfield JF, Long PE, Lipton MS.

PLoS One. 2013;8(3):e57819. doi: 10.1371/journal.pone.0057819. Epub 2013 Mar 5.

PMID:
23472107
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Enrichment of specific protozoan populations during in situ bioremediation of uranium-contaminated groundwater.

Holmes DE, Giloteaux L, Williams KH, Wrighton KC, Wilkins MJ, Thompson CA, Roper TJ, Long PE, Lovley DR.

ISME J. 2013 Jul;7(7):1286-98. doi: 10.1038/ismej.2013.20. Epub 2013 Feb 28.

PMID:
23446832
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Transcriptomic and genetic analysis of direct interspecies electron transfer.

Shrestha PM, Rotaru AE, Summers ZM, Shrestha M, Liu F, Lovley DR.

Appl Environ Microbiol. 2013 Apr;79(7):2397-404. doi: 10.1128/AEM.03837-12. Epub 2013 Feb 1.

PMID:
23377933
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Iron-oxide minerals affect extracellular electron-transfer paths of Geobacter spp.

Kato S, Hashimoto K, Watanabe K.

Microbes Environ. 2013;28(1):141-8. Epub 2013 Jan 30.

PMID:
23363619
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Molecular analysis of the in situ growth rates of subsurface Geobacter species.

Holmes DE, Giloteaux L, Barlett M, Chavan MA, Smith JA, Williams KH, Wilkins M, Long P, Lovley DR.

Appl Environ Microbiol. 2013 Mar;79(5):1646-53. doi: 10.1128/AEM.03263-12. Epub 2012 Dec 28.

PMID:
23275510
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Iron-reducing bacteria accumulate ferric oxyhydroxide nanoparticle aggregates that may support planktonic growth.

Luef B, Fakra SC, Csencsits R, Wrighton KC, Williams KH, Wilkins MJ, Downing KH, Long PE, Comolli LR, Banfield JF.

ISME J. 2013 Feb;7(2):338-50. doi: 10.1038/ismej.2012.103. Epub 2012 Oct 4.

PMID:
23038172
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

MicrobesFlux: a web platform for drafting metabolic models from the KEGG database.

Feng X, Xu Y, Chen Y, Tang YJ.

BMC Syst Biol. 2012 Aug 2;6:94.

PMID:
22857267
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

In silico method for modelling metabolism and gene product expression at genome scale.

Lerman JA, Hyduke DR, Latif H, Portnoy VA, Lewis NE, Orth JD, Schrimpe-Rutledge AC, Smith RD, Adkins JN, Zengler K, Palsson BO.

Nat Commun. 2012 Jul 3;3:929. doi: 10.1038/ncomms1928.

PMID:
22760628
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Genome-scale modeling using flux ratio constraints to enable metabolic engineering of clostridial metabolism in silico.

McAnulty MJ, Yen JY, Freedman BG, Senger RS.

BMC Syst Biol. 2012 May 14;6:42. doi: 10.1186/1752-0509-6-42.

PMID:
22583864
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Syntrophic oxidation of propionate in rice field soil at 15 and 30°C under methanogenic conditions.

Gan Y, Qiu Q, Liu P, Rui J, Lu Y.

Appl Environ Microbiol. 2012 Jul;78(14):4923-32. doi: 10.1128/AEM.00688-12. Epub 2012 May 11.

PMID:
22582054
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods.

Lewis NE, Nagarajan H, Palsson BO.

Nat Rev Microbiol. 2012 Feb 27;10(4):291-305. doi: 10.1038/nrmicro2737. Review.

PMID:
22367118
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Identification of multicomponent histidine-aspartate phosphorelay system controlling flagellar and motility gene expression in Geobacter species.

Ueki T, Leang C, Inoue K, Lovley DR.

J Biol Chem. 2012 Mar 30;287(14):10958-66. doi: 10.1074/jbc.M112.345041. Epub 2012 Feb 23.

PMID:
22362768
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Using the reconstructed genome-scale human metabolic network to study physiology and pathology.

Bordbar A, Palsson BO.

J Intern Med. 2012 Feb;271(2):131-41. doi: 10.1111/j.1365-2796.2011.02494.x. Review.

PMID:
22142339
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Laboratory evolution of Geobacter sulfurreducens for enhanced growth on lactate via a single-base-pair substitution in a transcriptional regulator.

Summers ZM, Ueki T, Ismail W, Haveman SA, Lovley DR.

ISME J. 2012 May;6(5):975-83. doi: 10.1038/ismej.2011.166. Epub 2011 Nov 24.

PMID:
22113376
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Genome-scale reconstruction and system level investigation of the metabolic network of Methylobacterium extorquens AM1.

Peyraud R, Schneider K, Kiefer P, Massou S, Vorholt JA, Portais JC.

BMC Syst Biol. 2011 Nov 10;5:189. doi: 10.1186/1752-0509-5-189.

PMID:
22074569
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

100 years of microbial electricity production: three concepts for the future.

Arends JB, Verstraete W.

Microb Biotechnol. 2012 May;5(3):333-46. doi: 10.1111/j.1751-7915.2011.00302.x. Epub 2011 Sep 29. Review.

PMID:
21958308
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Monitoring the metabolic status of geobacter species in contaminated groundwater by quantifying key metabolic proteins with Geobacter-specific antibodies.

Yun J, Ueki T, Miletto M, Lovley DR.

Appl Environ Microbiol. 2011 Jul;77(13):4597-602. doi: 10.1128/AEM.00114-11. Epub 2011 May 6.

PMID:
21551286
[PubMed - indexed for MEDLINE]
Free PMC Article

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