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Fundamental and Computational Sciences Directorate

Staff information

Alice Dohnalkova

Environmental Dynamics & Simulations
Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-93
Richland, WA 99352

PNNL Publications

2017

  • Dohnalkova A, BW Arey, T Varga, MD Miller, and L Kovarik. 2017. "Imaging and Analytical Approaches for Characterization of Soil Mineral Weathering." Microscopy and Microanalysis 23(S1):2172-2173.  doi:10.1017/S1431927617011527
  • Dohnalkova A, MM Tfaily, AP Smith, RK Chu, AR Crump, CJ Brislawn, T Varga, Z Shi, L Thomashow, JB Harsh, and CK Keller. 2017. "Molecular and Microscopic Insights into the Formation of Soil Organic Matter in a Red Pine Rhizosphere." Soils 1(1):Article No. 4.  doi:10.3390/soils1010004
  • Ha PT, SR Lindemann, L Shi, A Dohnalkova, JK Fredrickson, MT Madigan, and H Beyenal. 2017. "Syntrophic Anaerobic Photosynthesis via Direct Interspecies Electron Transfer." Nature Communications 8:Article No. 13924.  doi:10.1038/ncomms13924
  • Hess NJ, L Pasa Tolic, VL Bailey, and A Dohnalkova. 2017. "New understanding of rhizosphere processes enabled by advances in molecular and spatially resolved techniques." Rhizosphere 3(2):209-211.  doi:10.1016/j.rhisph.2017.04.007
  • Lemmer KC, W Zhang, SJ Langer, A Dohnalkova, D Hu, RA Lemke, JS Piotrowski, G Orr, DR Noguera, and TJ Donohue. 2017. "Mutations that alter the bacterial cell envelope increase lipid production." mBio 8(3):Article No. e00513-17.  doi:10.1128/mBio.00513-17
  • Li P, N Vermeulen, C Malliakas, DA Gomez-Gualdron, AJ Howarth, BL Mehdi, A Dohnalkova, ND Browning, M O'Keeffe, and O Farha. 2017. "Bottom-up construction of a superstructure in a porous uranium-organic crystal." Science 356(6338):624-627.  doi:10.1126/science.aam7851
  • Madigan MT, ML Kempher, KS Bender, P Sullivan, WM Sattley, A Dohnalkova, and SMB Joye. 2017. "Characterization of a cold-active bacterium isolated from the South Pole "Ice Tunnel"." Extremophiles 21(5):891-901.  doi:10.1007/s00792-017-0950-2
  • Platero-Prats AE, A League, SV Bernales Candia, J Ye, LC Gallington, A Vjunov, N Schweitzer, Z Li, J Zheng, BL Mehdi, AJ Stevens, A Dohnalkova, M Balasubramanian, O Farha, J Hupp, ND Browning, JL Fulton, DM Camaioni, JA Lercher, DG Truhlar, L Gagliardi, C Cramer, and KW Chapman. 2017. "Bridging Zirconia Nodes within a Metal-Organic Framework via Catalytic Ni-hydroxo Clusters to Form Hetero-Bimetallic Nanowires." Journal of the American Chemical Society 139(30):10410-10418.  doi:10.1021/jacs.7b04997
  • Romano CA, M Zhou, Y Song, VH Wysocki, A Dohnalkova, L Kovarik, L Pasa Tolic, and BM Tebo. 2017. "Biogenic manganese oxide nanoparticle formation by a multimeric multicopper oxidase Mnx." Nature Communications 8:746.  doi:10.1038/s41467-017-00896-8
  • Tian L, Z Shi, Y Lu, A Dohnalkova, Z Lin, and Z Dang. 2017. "Kinetics of Cation and Oxyanion Adsorption and Desorption on Ferrihydrite: Roles of Ferrihydrite Binding Sites and a Unified Model." Environmental Science & Technology 51(18):10605-10614.  doi:10.1021/acs.est.7b03249

2016

  • Kali A, I Cokic, R Tang, A Dohnalkova, L Kovarik, HJ Yang, A Kumar, FS Prato, JC Wood, D Underhill, E Marban, and R Dharmakumar. 2016. "Persistent Microvascular Obstruction After Myocardial Infarction Culminates in the Confluence of Ferric Iron Oxide Crystals, Proinflammatory Burden, and Adverse Remodeling." Circulation 9(11):Article No. e004996.  doi:10.1161/CIRCIMAGING.115.004996
  • Kaplan DI, RK Kukkadapu, JC Seaman, BW Arey, A Dohnalkova, S Buttner, D Li, T Varga, KG Scheckel, and PR Jaffe. 2016. "Iron Mineralogy and Uranium-Binding Environment in the Rhizosphere of a Wetland Soil." Science of Total Environment 569-570:53-64.  doi:10.1016/j.scitotenv.2016.06.120
  • Mitchell HD, LM Markillie, WB Chrisler, MJ Gaffrey, D Hu, CJ Szymanski, Y Xie, ES Melby, A Dohnalkova, RC Taylor, EK Grate, SK Cooley, JE McDermott, A Heredia-Langner, and G Orr. 2016. "Cells Respond to Distinct Nanoparticle Properties with Multiple Strategies as Revealed by Single-Cell RNA-Seq." ACS Nano 10(11):10173-10185.  doi:10.1021/acsnano.6b05452
  • Overton KW, DM Park, MC Yung, A Dohnalkova, J Smit, and Y Jiao. 2016. "Two Outer Membrane Proteins Contribute to Caulobacter crescentus Cellular Fitness by Preventing Intracellular S-Layer Protein Accumulation." Applied Environmental Microbiology 82(23):6961-6972.  doi:10.1128/AEM.02479-16
  • Sengor SS, G Singh, A Dohnalkova, N Spycher, TR Ginn, B Peyton, and RK Sani. 2016. "Impact of different environmental conditions on the aggregation of biogenic U(IV) nanoparticles synthesized by Desulfovibrio alaskensis G20." Biometals 29(6):965-980.  doi:10.1007/s10534-016-9969-6
  • Tanzil AH, ST Sultana, SR Saunders, A Dohnalkova, L Shi, E Devanport, PT Ha, and H Beyenal. 2016. "Production of Gold Nanoparticles by Electrode-Respiring Geobacter sulfurreducens Biofilms." Enzyme and Microbial Technology 95:69-75.  doi:10.1016/j.enzmictec.2016.07.012

2015

  • Burnet MC, A Dohnalkova, AP Neumann, MS Lipton, RD Smith, G Suen, and SJ Callister. 2015. "Evaluating Models of Cellulose Degradation by Fibrobacter succinogenes S85." PLoS One 10(12):e0143809.  doi:10.1371/journal.pone.0143809
  • Dodsworth JA, JC Ong, A Williams, A Dohnalkova, and BP Hedlund. 2015. "Thermocrinis jamiesonii sp. nov., a thiosulfate-oxidizing, autotropic thermophile isolated from a geothermal spring." International Journal of Systematic and Evolutionary Microbiology 65(12):4769-4775.  doi:10.1099/ijsem.0.000647
  • Jay Z, J Beam, A Dohnalkova, R Lohmayer, B Bodle, B Planer-Friedrich, MF Romine, and W Inskeep. 2015. "Pyrobaculum Yellowstonensis Strain WP30 Respires On Elemental Sulfur And/or Arsenate in Circumneutral Sulfidic Sediments of Yellowstone National Park." Applied and Environmental Microbiology 81(17):5907-5916.  doi:10.1128/AEM.01095-15
  • Lee JH, JK Fredrickson, AE Plymale, A Dohnalkova, CT Resch, JP McKinley, and L Shi. 2015. "An autotrophic H2-oxidizing, nitrate-respiring, Tc(VII)-reducing A cidovorax sp. isolated from a subsurface oxic-anoxic transition zone." Environmental Microbiology Reports 7(3):395-403.  doi:10.1111/1758-2229.12263
  • Lemmer KC, A Dohnalkova, DR Noguera, and TJ Donohue. 2015. "Oxygen--dependent Regulation Of Bacterial Lipid Production." Journal of Bacteriology 197(9):1649-1658.  doi:10.1128/JB.02510-14
  • Nune SK, PK Thallapally, BP McGrail, HV Annapureddy, LX Dang, D Mei, NK Karri, KJ Alvine, MJ Olszta, BW Arey, and A Dohnalkova. 2015. "Adsorption Kinetics in Nanoscale Porous Coordination Polymers ." ACS Applied Materials & Interfaces 7(39):21712-21716.  doi:10.1021/acsami.5b04109
  • Pomraning KR, S Wei, SA Karagiosis, YM Kim, A Dohnalkova, BW Arey, EL Bredeweg, G Orr, TO Metz, and SE Baker. 2015. "Comprehensive metabolomic, lipidomic and microscopic profiling of Yarrowia lipolytica during lipid accumulation identifies targets for increased lipogenesis." PLoS One 10(4):e0123188.  doi:10.1371/journal.pone.0123188

2014

  • Cole JK, JR Hutchison, RS Renslow, YM Kim, WB Chrisler, HE Engelmann, A Dohnalkova, D Hu, TO Metz, JK Fredrickson, and SR Lindemann. 2014. "Phototrophic Biofilm Assembly in Microbial-Mat-Derived Unicyanobacterial Consortia: Model Systems for the Study of Autotroph-Heterotroph Interactions." Frontiers in Microbiology 5:Article No. 109.  doi:10.3389/fmicb.2014.00109
  • Dodsworth JA, J Gevorkian, F Despujos, J Cole, SK Murugapiran, H Ming, WJ Li, G Zhang, A Dohnalkova, and BP Hedlund. 2014. "Thermoflexus hugenholtzii gen. nov., sp. nov., a thermophilic, microaerophilic, filamentous bacterium representing a novel class in the Chloroflexi, Thermoflexia classis nov., and description of Thermoflexaceae fam. nov. and Thermoflexales ord. nov." International Journal of Systematic and Evolutionary Microbiology 64(6):2119-2127.  doi:10.1099/ijs.0.055855-0
  • Shi Z, Z Balogh-Brunstad, MR Grant, JB Harsh, R Gill, L Thomashow, A Dohnalkova, D Stacks, M Letourneau, and CK Keller. 2014. "Cation Uptake and Allocation by Red Pine Seedlings under Cation-Nutrient Stress in a Column Growth Experiment." Plant and Soil 378(1-2):83-98.  doi:10.1007/s11104-013-2016-2
  • Wilkins MJ, DW Hoyt, MJ Marshall, PA Alderson, AE Plymale, LM Markillie, AE Tucker, ED Walter, BE Linggi, A Dohnalkova, and RC Taylor. 2014. "CO2 exposure at pressure impacts metabolism and stress responses in the model sulfate-reducing bacterium Desulfovibrio vulgaris strain Hildenborough." Frontiers in Microbiology 5:Article No. 507.  doi:10.3389/fmicb.2014.00507

2013

  • Cardiel Rivera JJ, A Dohnalkova, N Dubash, Y Zhao, P Cheung, and A Shen. 2013. "Microstructure and Rheology of a Flow-Induced Structured Phase in Wormlike Micellar Solutions." Proceedings of the National Academy of Sciences of the United States of America 110(18):E1653-E1660.  doi:10.1073/pnas.1215353110
  • Cardiel Rivera JJ, L Tonggu, A Dohnalkova, P de la Iglesia, DC Pozzo, and A Shen. 2013. "Worming Their Way into Shape: Toroidal Formations in Micellar Solutions." ACS Nano 7(11):9704-9713.  doi:10.1021/nn404191s
  • Cole J, B Gieler, D Heisler, M Palisoc, A Williams, A Dohnalkova, H Ming, TT Yu, JA Dodsworth, WJ Li, and BP Hedlund. 2013. " Kallotenue papyrolyticum gen. nov., sp. nov., a cellulolytic and filamentous thermophile that represents a novel lineage (Kallotenuales ord. nov., Kallotenuaceae fam. nov.) within the class Chloroflexia." International Journal of Systematic and Evolutionary Microbiology 63(12):4675-4682.  doi:10.1099/ijs.0.053348-0
  • Lindemann SR, JJ Moran, JC Stegen, RS Renslow, JR Hutchison, JK Cole, A Dohnalkova, J Tremblay, K Singh, S Malfatti, F Chen, S Tringe, H Beyenal, and JK Fredrickson. 2013. "The Epsomitic Phototrophic Microbial Mat of Hot Lake, Washington: Community Structural Responses to Seasonal Cycling." Frontiers in Microbiology 4:323.  doi:10.3389/fmicb.2013.00323
  • Lu N, T Bevard, A Massoudieh, C Zhang, A Dohnalkova, JL Zilles, and TH Nguyen. 2013. "Flagella-Mediated Differences in Deposition Dynamics for Azotobacter vinelandii in Porous Media." Environmental Science & Technology 47(10):5162-5170.  doi:10.1021/es3053398
  • Renslow RS, JT Babauta, A Dohnalkova, MI Boyanov, KM Kemner, PD Majors, JK Fredrickson, and H Beyenal. 2013. "Metabolic spatial variability in electrode-respiring Geobacter sulfurreducens biofilms." Energy & Environmental Science 6(6):1827-1836.  doi:10.1039/c3ee40203g
  • Straub TM, JR Hutchison, RA Bartholomew, CO Valdez, NB Valentine, A Dohnalkova, RM Ozanich, and CJ Bruckner-Lea. 2013. "Defining cell culture conditions to improve human norovirus infectivity assays." Water Science and Technology 67(4):863-868.  doi:10.2166/wst.2012.636
  • White GF, Z Shi, L Shi, Z Wang, A Dohnalkova, MJ Marshall, JK Fredrickson, JM Zachara, JN Butt, D Richardson, and TA Clarke. 2013. "Rapid electron exchange between surface-exposed bacterial cytochromes and Fe(III) minerals." Proceedings of the National Academy of Sciences of the United States of America 110(16):6346-6351.  doi:10.1073/pnas.1220074110
  • Williams KH, MJ Wilkins, AL N'Guessan, BW Arey, EN Dodova, A Dohnalkova, D Holmes, DR Lovley, and PE Long. 2013. "Field evidence of selenium bioreduction in a uranium-contaminated aquifer." Environmental Microbiology Reports 5(3):444-452.  doi:10.1111/1758-2229.12032

2012

  • Ahmed B, B Cao, JS McLean, T Ica, A Dohnalkova, O Istanbullu, A Paksoy, JK Fredrickson, and H Beyenal. 2012. "Fe(III) Reduction and U(VI) Immobilization by Paenibacillus sp. Strain 300A, Isolated from Hanford 300A Subsurface Sediments." Applied and Environmental Microbiology 78(22):8001-8009.  doi:10.1128/AEM.01844-12
  • Smid B, Z Li, A Dohnalkova, BW Arey, RS Smith, V Matolin, BD Kay, and Z Dohnalek. 2012. "Characterization of Nanoporous WO3 Films Grown via Ballistic Deposition." Journal of Physical Chemistry C 116(19):10649-10655.  doi:10.1021/jp3015723
  • White GF, Z Shi, L Shi, A Dohnalkova, JK Fredrickson, JM Zachara, JN Butt, DJ Richardson, and T Clarke. 2012. "Development of a Proteoliposome Model to Probe Transmembrane Electron-Transfer Reactions." Biochemical Society: Transactions 40(6):1257-1260.  doi:10.1042/BST20120116

2011

  • Lee JH, DW Kennedy, A Dohnalkova, DA Moore, P Nachimuthu, SB Reed, and JK Fredrickson. 2011. "Manganese sulfide formation via concomitant microbial manganese oxide and thiosulfate reduction." Environmental Microbiology 13(12):3275-3288.  doi:10.1111/j.1462-2920.2011.02587.x
  • Shi L, SM Belchik, Z Wang, DW Kennedy, A Dohnalkova, MJ Marshall, JM Zachara, and JK Fredrickson. 2011. "Identification and Characterization of UndA-HRCR-6, an Outer Membrane Endecaheme c-Type Cytochrome of Shewanella sp. Strain HRCR-6 ." Applied and Environmental Microbiology 77(15):5521-5523.  doi:10.1128/AEM.00614-11
  • Belchik SM, DW Kennedy, A Dohnalkova, Y Wang, PC Sevinc, HJ Wu, Y Lin, HP Lu, JK Fredrickson, and L Shi. 2011. "Extracellular Reduction of Hexavalent Chromium by Cytochromes MtrC and OmcA of Shewanella oneidensis MR-1." Applied and Environmental Microbiology 77(12):4035-4041.  doi:10.1128/AEM.02463-10
  • Dohnalkova A, MJ Marshall, BW Arey, KH Williams, EC Buck, and JK Fredrickson. 2011. "Imaging Hydrated Microbial Extracellular Polymers: Comparative Analysis by Electron Microscopy ." Applied and Environmental Microbiology 77(4):1254-1262.  doi:10.1128/AEM.02001-10
  • Du D, J Wang, D Lu, A Dohnalkova, and Y Lin. 2011. "Multiplexed Electrochemical Immunoassay of Phosphorylated Proteins Based on Enzyme-Functionalized Gold Nanorod Labels and Electric Field-Driven Acceleration." Analytical Chemistry 83(17):6580-6585.  doi:10.1021/ac2009977
  • Lee JH, DW Kennedy, A Dohnalkova, DA Moore, P Nachimuthu, SB Reed, and JK Fredrickson. 2011. "Manganese sulfide formation via concomitant microbial manganese oxide and thiosulfate reduction." Environmental Microbiology 13(12):3275-3288.  doi:10.1111/j.1462-2920.2011.02587.x
  • Plymale AE, JK Fredrickson, JM Zachara, A Dohnalkova, SM Heald, DA Moore, DW Kennedy, MJ Marshall, CM Wang, CT Resch, and P Nachimuthu. 2011. "Competitive Reduction of Pertechnetate (99TcO4-) by Dissimilatory Metal Reducing Bacteria and Biogenic Fe(II) ." Environmental Science & Technology 45(3):951-957. 
  • Ray A, JR Bargar, V Sivaswamy, A Dohnalkova, Y Fujita, BM Peyton, and TS Magnuson. 2011. "Evidence for Multiple Modes of Uranium Immobilization by an Anaerobic Bacterium." Geochimica et Cosmochimica Acta 75(10):2684-2695.  doi:10.1016/j.gca.2011.02.040
  • Santelli CM, SM Webb, A Dohnalkova, and CM Hansel. 2011. "Diversity of Mn oxides produced by Mn(II)-oxidizing fungi." Geochimica et Cosmochimica Acta 75(10):2762-2776.  doi:10.1016/j.gca.2011.02.022
  • Shi L, SM Belchik, AE Plymale, SM Heald, A Dohnalkova, K Sybirna, H Bottin, TC Squier, JM Zachara, and JK Fredrickson. 2011. "Purification and Characterization of [NiFe]-Hydrogenase of Shewanella oneidensis MR-1." Applied and Environmental Microbiology 77(16):5584-5590. 
  • Sivaswamy V, MI Boyanov, BM Peyton, S Viamajala, R Gerlach, W Apel, RK Sani, A Dohnalkova, KM Kemner, and T Borch. 2011. "Multiple Mechanisms of Uranium Immobilization by Cellulomonas sp. Strain ES6." Biotechnology and Bioengineering 108(2):264-276.  doi:10.1002/bit.22956
  • Straub TM, RA Bartholomew, CO Valdez, NB Valentine, A Dohnalkova, RM Ozanich, CJ Bruckner-Lea, and DR Call. 2011. "Human Norovirus Infection of Caco-2 Cells Grown as a Three-Dimensional Tissue Structure." Journal of Water and Health 9(2):225-240. 
  • Tratnyek PG, A Salter-Blanc, J Nurmi, JE Amonette, J Liu, CM Wang, A Dohnalkova, and DR Baer. 2011. "Reactivity of Zerovalent Metals in Aquatic Media: Effects of Organic Surface Coatings." Chapter 18 in Aquatic Redox Chemistry. ACS Symposium Series, vol. 1071, ed. PG Tratnyek, TJ Grundl and SB Haderlein, pp. 381-406.  American Chemical Society, Washington DC. 

2010

  • Peretyazhko T, JM Zachara, DW Kennedy, JK Fredrickson, BW Arey, JP McKinley, CM Wang, A Dohnalkova, and Y Xia. 2010. "Ferrous Phosphate Surface Precipitates Resulting from the Reduction of Intragrain 6-line Ferrihydrite by Shewanella oneidensis MR-1 ." Geochimica et Cosmochimica Acta 74(13):3751-3767.  doi:10.1016/j.gca.2010.04.008
  • Peretyazhko T, JM Zachara, DW Kennedy, JK Fredrickson, BW Arey, JP McKinley, CM Wang, A Dohnalkova, and Y Xia. 2010. "Ferrous phosphate surface precipitates resulting from the reduction of intragrain 6-line ferrihydrite by Shewanella oneidensis MR-1." Geochimica et Cosmochimica Acta 74(13):3751-3767.  doi:10.1016/j.gca.2010.04.008
  • Reardon CL, A Dohnalkova, P Nachimuthu, DW Kennedy, D Saffarini, BW Arey, L Shi, Z Wang, DA Moore, JS Mclean, DM Moyles, MJ Marshall, JM Zachara, JK Fredrickson, and AS Beliaev. 2010. "Role of Outer-Membrane Cytochromes MtrC and OmcA in the Biomineralization of Ferrihydrite by Shewanella oneidensis MR-1." Geobiology 8(1):56-68.  doi:10.1111/j.1472-4669.2009.00226.x
  • Nune SK, PK Thallapally, A Dohnalkova, CM Wang, J Liu, and GJ Exarhos. 2010. "Synthesis and Properties of Nano Zeolitic Imidazolate Frameworks." Chemical Communications 46(27):4878-4880. 
  • Sani RK, G Rastogi, J Moberly, A Dohnalkova, TR Ginn, N Spycher, R Shende, and B Peyton. 2010. "The toxicity of lead to Desulfovibrio desulfuricans G20 in the presence of goethite and quartz." Journal of Basic Microbiology 50(2):160-170.  doi:10.1002/jobm.200900239
  • Shin Y, A Dohnalkova, and Y Lin. 2010. "Preparation of homogeneous gold-silver alloy nanoparticles using the apoferritin cavity as a nanoreactor." Journal of Physical Chemistry C 114(13):5985-5989.  doi:10.1021/jp911004a

2009

  • Kimball BE, R Mathur, A Dohnalkova, AJ Wall, RL Runkel, and SL Brantley. 2009. "Copper isotope fractionation in acid mine drainage." Geochimica et Cosmochimica Acta 73(5):1247-1263. 
  • Marshall MJ, A Dohnalkova, DW Kennedy, AE Plymale, SH Thomas, FE Loffler, R Sanford, JM Zachara, JK Fredrickson, and AS Beliaev. 2009. "Electron donor-dependent radionuclide reduction and nanoparticle formation by Anaeromyxobacter dehalogenans strain 2CP-C." Environmental Microbiology 11(2):534-543. 
  • Templeton AS, AS Knowles, DL Eldridge, BW Arey, A Dohnalkova, SM Webb, BE Bailey, BM Tebo, and H Staudigel. 2009. "A Seafloor Microbial Biome Hosted within Incipient Ferromanganese Crusts." Nature Geoscience 2(12):872-876. 

2008

  • Burgos WD, J McDonough, JM Senko, G Zhang, A Dohnalkova, SD Kelly, YA Gorby, and KM Kemner. 2008. "Characterization of uraninite nanoparticles produced by Shewanella oneidensis MR-1 ." Geochimica et Cosmochimica Acta 72(20):4901-4915.  doi:10.1016/j.gca.2008.07.016
  • Marshall MJ, AE Plymale, DW Kennedy, L Shi, Z Wang, SB Reed, A Dohnalkova, CJ Simonson, C Liu, D Saffarini, MF Romine, JM Zachara, AS Beliaev, and JK Fredrickson. 2008. "Hydrogenase- and Outer Membrane c-Type Cytochrome-Facilitated Reduction of Technetium(VII) by Shewanella oneidensis MR-1." Environmental Microbiology 10(1):125-136.  doi:10.1111/j.1462-2920.2007.01438.x
  • Puzon GJ, YC Huang, A Dohnalkova, and L Xun. 2008. "Isolation and characterization of an NAD+-degrading bacterium PTX1 and its role in chromium biogeochemical cycle." Biodegradation 19(3):417-424.  doi:10.1007/s10532-007-9147-1
  • Sani RK, BM Peyton, and A Dohnalkova. 2008. "Comparison of uranium(VI) removal by Shewanella oneidensis MR-1 in flow and batch reactors." Water Research 42(12):2993-3002.  doi:10.1016/j.watres.2008.04.003
  • Shi L, S Deng, MJ Marshall, Z Wang, DW Kennedy, A Dohnalkova, HM Mottaz, EA Hill, YA Gorby, AS Beliaev, DJ Richardson, JM Zachara, and JK Fredrickson. 2008. " Direct Involvement of Type II Secretion System in Extracellular Translocation of Shewanella Oneidensis Outer Membrane Cytochromes MtrC and OmcA." Journal of Bacteriology 190(15):5512-5516.  doi:10.1128/JB.00514-08

2007

  • Flaherty DW, Z Dohnalek, A Dohnalkova, BW Arey, DE McCready, N Ponnusany, CB Mullins, and BD Kay. 2007. "Reactive Ballistic Deposition of Porous TiO2 Films: Growth and Characterization." Journal of Physical Chemistry C 111(12):4765-4773.  doi:10.1021/jp067641m
  • Kim MI, J Kim, J Lee, H Jia, HB Na, J Youn, JH Kwak, A Dohnalkova, JW Grate, P Wang, T Hyeon, HG Park, and HN Chang. 2007. "Crosslinked Enzyme Aggregates in Hierarchically-Ordered Mesoporous Silica: A Simple and Effective Method for Enzyme Stabilization." Biotechnology and Bioenegineering 96(2):210-218.  doi:10.1002/bit.21107
  • Ledbetter RN, SA Connon, AL Neal, A Dohnalkova, and TS Magnuson. 2007. "Biogenic mineral production by a novel arsenic-metabolizing thermophilic bacterium from the Alvord Basin, OR." Applied and Environmental Microbiology 73(18):5928-5936.  doi:10.1128/AEM.00371-07
  • Lee JH, MG Kim, B Yoo, NV Myung, J Maeng, T Lee, A Dohnalkova, JK Fredrickson, MJ Sadowsky, and HG Hur. 2007. "Biogenic formation of photoactive arsenic-sulfide nanotubes by Shewanella sp. strain HN-41 ." Proceedings of the National Academy of Sciences of the United States of America 104(51):20410-20415.  doi:10.1073/pnas.0707595104
  • Lee JH, MG Kim, B Yoo, NV Myung, J Maeng, T Lee, A Dohnalkova, JK Fredrickson, MJ Sadowsky, and HG Hur. 2007. "Biogenic Production of Photosensitive Arsenic-Sulfide Nanotubes by Shwanella sp. strain HN-41." Proceedings of the National Academy of Sciences of the United States of America 104(51):20410-20415. 
  • Liu G, H Wu, A Dohnalkova, and Y Lin. 2007. "Apoferritin-Templated Synthesis of Encoded Metallic Phosphate Nanoparticle Tags." Analytical Chemistry 79(15):5614-5619.  doi:10.1021/ac070086f
  • Marsili E, H Beyenal, L Di Palma, C Merli, A Dohnalkova, JE Amonette, and Z Lewandowski. 2007. "Uranium immobilization by sulfate-reducing biofilms grown on hematite, dolomite, and calcite." Environmental Science & Technology 41(24):8349-8354.  doi:10.1021/es071335k
  • Orr G, DJ Panther, JL Phillips, BJ Tarasevich, A Dohnalkova, D Hu, JG Teeguarden, and JG Pounds. 2007. "Submicron and Nanoscale Inorganic Particles Exploit the Actin Machinery to be Propelled Along Microvillilike Structures into Alveolar Cells." ACS Nano 1(5):463-475.  doi:10.1021/nn700149r
  • Qafoku N, O Qafoku, CC Ainsworth, A Dohnalkova, and SG McKinley. 2007. "Fe-Solid Phase Transformations Under Highly Basic Conditions." Applied Geochemistry 22(9):2054-2064.  doi:10.1016/j.apgeochem.2007.04.023
  • Senko JM, SD Kelly, A Dohnalkova, JT Mcdonough, KM Kemner, and WD Burgos. 2007. "The effect of U(VI) bioreduction kinetics on subsequent reoxidation of biogenic U(IV)." Geochimica et Cosmochimica Acta 71(19):4644-4654.  doi:10.1016/j.gca.2007.07.021
  • Straub TM, KA Honer Zu Bentrup, P Orosz Coghlan, A Dohnalkova, BK Mayer, RA Bartholomew, CO Valdez, CJ Bruckner-Lea, CP Gerba, MA Abbaszadegan, and CA Nickerson. 2007. "Cell Culture Assay for Human Noroviruses [response]." Emerging Infectious Diseases 13(7):1117-1118. 
  • Straub TM, KA Honer Zu Bentrup, PA Orosz Coghlan, A Dohnalkova, BK Mayer, RA Bartholomew, CO Valdez, CJ Bruckner-Lea, CP Gerba, M Abbaszadegan, and CA Nickerson. 2007. "In Vitro Cell Culture Infectivity Assay for Human Noroviruses." Emerging Infectious Diseases 13(3):396-403. 
  • Zachara JM, SM Heald, BH Jeon, RK Kukkadapu, C Liu, JP McKinley, A Dohnalkova, and DA Moore. 2007. "Reduction of Pertechnetate [Tc(VII)] by Aqueous Fe(II) and the Nature of Solid Phase Redox Products." Geochimica et Cosmochimica Acta 71(9):2137-2157.  doi:doi:10.1016/j.gca.2006.10.025

2006

  • Liu C, BH Jeon, JM Zachara, Z Wang, A Dohnalkova, and JK Fredrickson. 2006. "Kinetics of Microbial Reduction of Solid Phase U(VI)." Environmental Science and Technology 40(20):6290-6296. 
  • Dohnalkova A, CL Bilskis, and DW Kennedy. 2006. " TEM Study of Manganese Biosorption by Cyanobacterium Synechocystis 6803 ." In Microscopy and Microanalysis 2006, Chicago, Illinois, USA, July 30 - August 3, 2005. Published in Microscopy and Microanalysis, vol. 12, no. Supplement S02, pp. 444-445.  Cambridge University Press, Cambridge, United Kingdom.  doi:10.1017/S1431927606064051
  • Gorby YA, S Yanina, JS Mclean, KM Rosso, DM Moyles, A Dohnalkova, TJ Beveridge, IS Chang, BH Kim, KS Kim, DE Culley, SB Reed, MF Romine, D Saffarini, EA Hill, L Shi, DA Elias, DW Kennedy, GE Pinchuk, K Watanabe, S Ishii, B Logan, KH Nealson, and JK Fredrickson. 2006. "Electrically Conductive Bacterial Nanowires Produced by Shewanella Oneidensis Strain MR-1 and Other Microorganisms ." Proceedings of the National Academy of Sciences of the United States of America 103(30):11358-11363. 
  • Kim J, H Jia, CW Lee, S Chung, JH Kwak, Y Shin, A Dohnalkova, BG Kim, P Wang, and JW Grate. 2006. "Single Enzyme Nanoparticles in Nanoporous Silica: A Heirachical Approach to Enzyme Stabilization and Immobilization." Enzyme and Microbial Technology 39:474-480. 
  • Marshall MJ, AS Beliaev, A Dohnalkova, DW Kennedy, L Shi, Z Wang, MI Boyanov, B Lai, KM Kemner, JS Mclean, SB Reed, DE Culley, VL Bailey, CJ Simonson, D Saffarini, MF Romine, JM Zachara, and JK Fredrickson. 2006. "c-Type Cytochrome-Dependent Formation of U(IV) Nanoparticles by Shewanella oneidensis ." PloS Biology 4(8):1324-1333. 
  • Roh Y, H Gao, H Vali, DW Kennedy, Z Yang, W Gao, A Dohnalkova, RD Stapleton, JW Moon, TJ Phelps, JK Fredrickson, and J Zhou. 2006. "Metal Reduction and Iron Biomineralization by a Psychrotolerant Fe(III)-Reducing Bacterium, Shewanella sp. Strain PV-4." Applied and Environmental Microbiology 72(5):3236-3244. 
  • Roh Y, H Gao, H Vali, DW Kennedy, Z Yang, W Gao, A Dohnalkova, RD Stapleton, JW Moon, TJ Phelps, JK Fredrickson, and J Zhou. 2006. "Metal Reduction and Iron Biomineralization by a Psychrotolerant Fe(III)-Reducing Bacterium, Shewanella sp. Strain PV-4." Applied and Environmental Microbiology 72(5):3236-3244.  doi:10.1128/AEM.72.5.3236-3244.2006
  • Shi L, JN Adkins, JR Coleman, AA Schepmoes, A Dohnalkova, HM Mottaz, AD Norbeck, SO Purvine, NP Manes, HS Smallwood, HH Wang, J Forbes, P Gros, S Uzzau, KD Rodland, F Heffron, RD Smith, and TC Squier. 2006. "Proteomic Analysis of Salmonella enterica Serovar Typhimurium Isolated from RAW 264.7 Macrophages: identification of a novel protein that contributes to the replication of serovar Typhimurium inside macrophages." Journal of Biological Chemistry 281:29131-29140.  doi:10.1074/jbc.M604640200

2005

  • Kukkadapu RK, JM Zachara, JK Fredrickson, DW Kennedy, A Dohnalkova, and DE McCready. 2005. "Ferrous Hydroxy Carbonate is a Stable Transformation Product of Biogenic Magnetite." American Mineralogist 90(2-3):510-515. 
  • Kim J, J Lee, HB Na, BC Kim, J Youn, JH Kwak, K Moon, E Lee, J Kim, J Park, A Dohnalkova, HG Park, MB Gu, HN Chang, JW Grate, and T Hyeon. 2005. "A Magnetically Separable, Highly Stable Enzyme System Based on Nanocomposites of Enzymes and Magnetic Nanoparticles Shipped in Hierarchically Ordered, Mesocellular, Mesoporous Silica." Small 1(12):1203-1207.  doi:10.1022/smll.200500245
  • Lee D, J Lee, J Kim, J Kim, HB Na, B Kim, CH Shin, JH Kwak, A Dohnalkova, JW Grate, T Hyeon, and HS Kim. 2005. "Simple Fabrication of a Highly Sensitive and Fast Glucose Biosensor using Enzyme Immobilized in Mesocellular Carbon Foam." Advanced Materials 17(23):2828-2833. 
  • Lee J, J Kim, J Kim, H Jia, MI Kim, JH Kwak, S Jin, A Dohnalkova, HG Park, HN Chang, P Wang, JW Grate, and T Hyeon. 2005. "Simple Synthesis of Hierarchically Ordered Mesocellular Mesoporous Silica Materials Hosting Crosslinked Enzyme Aggregates." Small 1(7):744-753. 
  • Marsili E, H Beyenal, L Di Palma, C Merli, A Dohnalkova, JE Amonette, and Z Lewandowski. 2005. "Uranium removal by sulfate reducing biofilms in the presence of carbonates ." Water Science and Technology 52(7):49-55. 
  • Sani RK, BM Peyton, A Dohnalkova, and JE Amonette. 2005. "Reoxidation of Reduced Uranium with Iron(III) (Hydr)Oxides under Sulfate-Reducing Conditions." Environmental Science and Technology 39(7):2059-2066. 
  • Williams KH, D Ntarlagiannis, LD Slater, A Dohnalkova, SS Hubbard, and JF Banfield. 2005. "Geophysical Imaging of Stimulated Microbial Biomineralization." Environmental Science and Technology 39(19):7592-7600.  doi:10.1021/es0504035

2004

  • Beyenal H, RK Sani, BM Peyton, A Dohnalkova, JE Amonette, and Z Lewandowski. 2004. "Uranium Immobilization by Sulfate-reducing Biofilms." Environmental Science and Technology 38(7):2067-2074 . 
  • Dohnalkova A, CM Hansel, YA Gorby, and S Fendorf. 2004. "Electron Microscopy Evaluation of the Role of Dissimilatory Metal-reducing Bacteria in Biomineralization Pathways." Microscopy and Microanalysis 10(suppl 2):1538-1539. 
  • McKinley JP, JM Zachara, SM Heald, A Dohnalkova, M Newville, and SR Sutton . 2004. "Microscale Distribution of Cesium Sorbed to Biotite and Muscovite." Environmental Science and Technology 38(4):1017-1023. 
  • Zachara JM, RK Kukkadapu, PL Gassman, A Dohnalkova, JK Fredrickson, and T Anderson. 2004. "Biogeochemical Transformation of Fe Minerals in a Petroleum-Contaminated Aquifer." Geochimica et Cosmochimica Acta 68(8):1791-1805. 

2003

  • Kukkadapu RK, JM Zachara, JK Fredrickson, SC Smith, A Dohnalkova, and CK Russell. 2003. "Transformation of 2-line Ferrihydrite to 6-line Ferrihydrite under Oxic and Anoxic Conditions." American Mineralogist 88(11-12):1903-1914 pt. 2. 
  • Hansel CM, SG Benner, J Neiss, A Dohnalkova, RK Kukkadapu, and S Fendorf. 2003. "Secondary Mineralization Pathways Induced by Dissimilatory Iron Reduction of Ferrihydrite Under Advective Flow." Geochimica et Cosmochimica Acta 67(16):2977-2992. 
  • Templeton AS, TP Trainor, AM Spormann, M Newville, SR Sutton , A Dohnalkova, YA Gorby, and GE Brown, JR. 2003. "Sorption versus Biomineralization of Pb(II) within Burkholderia cepacia Biofilms." Environmental Science and Technology 37((2)):300-307. 

2002

  • Dohnalek Z, GA Kimmel, DE McCready, JA Young, A Dohnalkova, RS Smith, and BD Kay. 2002. "Structural and chemical characterization of aligned crystalline nanoporous MgO films grown via reactive ballistic deposition ." Journal of Physical Chemistry B 106(14):3526-3529 .  doi: 10.1021/jp013801c
  • Dohnalek Z, GA Kimmel, DE McCready, JS Young, A Dohnalkova, RS Smith, and BD Kay. 2002. "Structural and Chemical Characterization of Aligned Crystalline Nanoporous MgO Films Grown via Reactive Ballistic Deposition." Journal of Physical Chemistry B 106(14):3526-3529. 
  • Liu C, JM Zachara, JK Fredrickson, DW Kennedy, and A Dohnalkova. 2002. "Modeling the Inhibition of the Bacterial Reduction of U(VI) by beta-MnO2(S)(g)." Environmental Science and Technology 36(7):1452-1459. 
  • Chin YH, RA Dagle, J Hu, A Dohnalkova, and Y Wang. 2002. "Steam Reforming of Methanol over Highly Active Pd/ZnO Catalyst ." Catalysis Today 77(1-2):79-88. 
  • Chin YH, RA Dagle, J Hu, A Dohnalkova, and Y Wang. 2002. "Steam Reforming of Methanol Over Highly Active Pd/ZnO Catalyst." Catalysis Today 77 (1-2)(DEC 1 2002):79-88. 
  • Fredrickson JK, JM Zachara, DW Kennedy, C Liu, MC Duff, D Hunter, and A Dohnalkova. 2002. "Influence of Mn oxides on the reduction of U(VI) by the metal-reducing bacterium Shewanella putrefaciens." Geochimica et Cosmochimica Acta 66(18):3247-3262. 
  • Zhang HF, A Dohnalkova, CM Wang, JS Young, EC Buck, and LS Wang. 2002. "Lithium-Assisted Self-Assembly of Aluminum Carbide Nanowires and Nanoribbons." Nano Letters 2(2):105-108. 

2001

  • Dohnalkova A, YA Gorby, JS Mclean, JK Fredrickson, and DA Kennedy. 2001. "Biogenic Mineral Formation by Iron Reducing Bacteria ." In Proceedings of the 59th Annual Meeting of the Microscopy Society of America, Microscopy and Microanalysis, Vol 7, supp 2, pp. 756-757.  Microscopy Society of America, Reston, VA. 
  • Neal AL, S Techkarnjanaruk, A Dohnalkova, DE McCready, BM Peyton, and GG Geesey. 2001. "Iron Sulfides and Sulfur Species Produced at (001) Hematite Surfaces in the Presence of Sulfate-Reducing Bacteria." Geochimica et Cosmochimica Acta 65(2):223-235. 
  • Takai K, DP Moser, TC Onstott, N Spoelstra, SM Pfiffner, A Dohnalkova, and JK Fredrickson. 2001. "Alkaliphilus transvaalensis gen. nov., sp. nov., an extremely alkaliphilic bacterium isolated from a deep South African gold mine." International Journal of Systematic and Evolutionary Microbiology 51(part 4):1245-1256. 

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