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Fundamental and Computational Sciences Directorate

Staff information

James McKinley

Pacific Northwest National Laboratory
PO Box 999
MSIN: K8-96
Richland, WA 99352

PNNL Publications


  • Li J, PN Reardon, JP McKinley, S Joshi, Y Bai, K Bear, and DP Jaisi. 2017. "Water Column Particulate Matter: A Key Contributor to Phosphorus Regeneration in a Coastal Eutrophic Environment, the Chesapeake Bay." Journal of Geophysical Research. Biogeosciences 122(4):737-752.  doi:10.1002/2016JG003572


  • 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
  • Converse B, JP McKinley, CT Resch, and EE Roden. 2015. "Microbial mineral colonization across a subsurface redox transition zone." Frontiers in Microbiology 6:858.  doi:10.3389/fmicb.2015.00858
  • Liu Y, C Liu, RK Kukkadapu, JP McKinley, JM Zachara, AE Plymale, MD Miller, T Varga, and CT Resch. 2015. "99Tc(VII) Retardation, Reduction, and Redox Rate Scaling in Naturally Reduced Sediments." Environmental Science & Technology 49(22):13403-13412.  doi:10.1021/acs.est.5b03273
  • Szecsody JE, MJ Truex, L Zhong, JP McKinley, N Qafoku, BD Lee, and SD Saurey. 2015. "Remediation of Technetium in Vadose Zone Sediments Using Ammonia and Hydrogen Sulfide Gases ." Vadose Zone Journal 14(7):, doi:10.2136/vzj2014.09.0134


  • Lee JH, JM Zachara, JK Fredrickson, SM Heald, JP McKinley, AE Plymale, CT Resch, and DA Moore. 2014. "Fe(II)- and Sulfide-Facilitated Reduction of 99Tc(VII)O4- in Microbially Reduced Hyporheic Zone Sediments." Geochimica et Cosmochimica Acta 136:247-264.  doi:10.1016/j.gca.2013.08.017
  • Pearce CI, J Liu, DR Baer, O Qafoku, SM Heald, E Arenholz, AE Grosz, JP McKinley, CT Resch, ME Bowden, MH Engelhard, and KM Rosso. 2014. "Characterization of natural titanomagnetites (Fe3-xTixO4) for studying heterogeneous electron transfer to Tc(VII) in the Hanford subsurface." Geochimica et Cosmochimica Acta 128:114-127.  doi:10.1016/j.gca.2013.12.010
  • Szecsody JE, DP Jansik, JP McKinley, and NJ Hess. 2014. "Influence of Alkaline Co-Contaminants on Technetium Mobility in Vadose Zone Sediments ." Journal of Environmental Radioactivity 135:147-160.  doi:10.1016/j.jenvrad.2014.02.003
  • Szecsody JE, L Zhong, JN Thomle, VR Vermeul, CE Strickland, MD Williams, J Liu, JP McKinley, ME Bowden, TJ Gilmore, EER Eisenhauer, and F Colwell. 2014. "Influence of scCO2 Injection on Precipitation and Metals Migration, and Changes in Electrical Resistivity." Energy Procedia 63:3285-3292.  doi:10.1016/j.egypro.2014.11.356
  • Szecsody JE, S Comfort, HL Fredrickson, RG Riley, FH Crocker, P Shea, JP McKinley, AP Gamerdinger, HK Boparai, DC Girvin, JV Moser, KT Thompson, CT Resch, BJ Devary, LM Durkin, and AT Breshears. 2014. "In Situ Degradation and Remediation of Energetics TNT, RDX, HMX, and CL-20 and a Byproduct NDMA in the Sub-surface Environment." In Biological Remediation of Explosive Residues. Environmental Science and Engineering, vol. XIV, ed. SN Singh, pp. 313-369.  Springer, New York, NY. 


  • Konopka A, AE Plymale, DA Carvajal, X Lin, and JP McKinley. 2013. "Environmental Controls on the Activity of Aquifer Microbial Communities in the 300 Area of the Hanford Site." Microbial Ecology 66(4):889-896.  doi:10.1007/s00248-013-0283-3
  • Benzine J, ES Shelobolina, MY Xiong, DW Kennedy, JP McKinley, X Lin, and EE Roden. 2013. "Fe-phyllosilicate redox cycling organisms from a redox transition zone in Hanford 300 Area sediments." Frontiers in Microbiology 4:Article No. 388.  doi:10.3389/fmicb.2013.00388
  • Zachara JM, PE Long, J Bargar, JA Davis, PM Fox, JK Fredrickson, MD Freshley, A Konopka, C Liu, JP McKinley, ML Rockhold, KH Williams, and SB Yabusaki. 2013. "Persistence of uranium groundwater plumes: Contrasting mechanisms at two DOE sites in the groundwater-river interaction zone." Journal of Contaminant Hydrology 147:45-72.  doi:10.1016/j.jconhyd.2013.02.001


  • Lin X, DW Kennedy, AD Peacock, JP McKinley, CT Resch, JK Fredrickson, and A Konopka. 2012. "Distribution of microbial biomass and the potential for anaerobic respiration in Hanford Site 300 Area subsurface sediment." Applied and Environmental Microbiology 78(3):759-767. 
  • Lin X, JP McKinley, CT Resch, RM Kaluzny, C Lauber, JK Fredrickson, RC Knight, and A Konopka. 2012. "Spatial and temporal dynamics of the microbial community in the Hanford unconfined aquifer." The ISME Journal 5:1665-1676.  doi:10.1038/ismej.2012.26
  • Zachara JM, BN Bjornstad, JN Christensen, MS Conrad, JK Fredrickson, MD Freshley, R Haggerty, GE Hammond, DB Kent, A Konopka, PC Lichtner, C Liu, JP McKinley, CJ Murray, ML Rockhold, Y Rubin, VR Vermeul, RJ Versteeg, and C Zheng. 2012. Multi-Scale Mass Transfer Processes Controlling Natural Attenuation and Engineered Remediation: An IFRC Focused on Hanford’s 300 Area Uranium Plume January 2011 to January 2012PNNL-21169, Pacific Northwest National Laboratory, Richland, WA. 



  • Ilton ES, JM Zachara, DA Moore, JP McKinley, AD Eckberg, CL Cahill, and AR Felmy. 2010. "Dissolution study of Metatorbernite: Thermodynamic Properties and the effect of pH and Phosphate." Environmental Science & Technology 44(19):7521-7526.  doi:10.1021/es101619f
  • Istok JD, MM Park, MM Michalsen, AM Spain, LR Krumholz, C Liu, JP McKinley, PE Long, EE Roden, AD Peacock, and BR Baldwin. 2010. "A thermodynamically-based model for predicting microbial growth and community composition coupled to system geochemistry: Application to uranium bioreduction." Journal of Contaminant Hydrology 112:1-14.  doi:10.1016/j.jconhyd.2009.07.004
  • 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
  • Qafoku N, PE Dresel, ES Ilton, JP McKinley, and CT Resch. 2010. "Chromium transport in an acidic waste contaminated subsurface medium: The role of reduction." Chemosphere 81(11):1492-1500.  doi:10.1016/j.chemosphere.2010.08.043
  • Szecsody JE, JS Fruchter, VR Vermeul, MD Williams, BG Fritz, DP Mendoza, and JP McKinley. 2010. "Infiltration and Injection of a Ca-Citrate-PO4 Solution to Form Apatite In Situ for Sr-90 Remediation at the Hanford 100N Area - An Update." In 36th Annual Radioactive Waste Management Symposia, WM 2010, March 7-11, Phoenix, AZ, vol. 4, pp. 3441-3452.  Waste Management Symposia, Inc., Tucson, AZ. 
  • Szecsody JE, MJ Truex, L Zhong, N Qafoku, MD Williams, JP McKinley, Z Wang, J Bargar, DK Faurie, CT Resch, and JL Phillips. 2010. Remediation of Uranium in the Hanford Vadose Zone Using Ammonia Gas: FY 2010 Laboratory-Scale ExperimentsPNNL-20004, Pacific Northwest National Laboratory, Richland, WA. 
  • Szecsody JE, MJ Truex, L Zhong, MD Williams, CT Resch, and JP McKinley. 2010. Remediation of Uranium in the Hanford Vadose Zone Using Gas-Transported Reactants: Laboratory Scale Experiments in Support of the Deep Vadose Zone Treatability Test Plan for the Hanford Central Plateau PNNL-18879, Pacific Northwest National Laboratory, Richland, WA. 
  • Vermeul VR, JP McKinley, DR Newcomer, RD Mackley, and JM Zachara. 2010. "River-Induced Flow Dynamics in Long-Screen Wells and Impact on Aqueous Samples." Ground Water 49(4):515-524.  doi:10.1111/j.1745-6584.2010.00769.x
  • Zachara JM, BN Bjornstad, JN Christensen, ME Conrad, JK Fredrickson, MD Freshley, R Haggerty, G Hammon, DB Kent, A Konopka, PC Lichtner, C Liu, JP McKinley, CJ Murray, ML Rockhold, Y Rubin, VR Vermeul, RJ Versteeg, AL Ward, and C Zheng. 2010. Multi-Scale Mass Transfer Processes Controlling Natural Attenuation and Engineered Remediation: An IFRC Focused on Hanford’s 300 Area Uranium PlumePNNL-19209, Pacific Northwest National Laboratory, Richland, WA. 


  • Qafoku N, PE Dresel, JP McKinley, C Liu, SM Heald, CC Ainsworth, JL Phillips, and JS Fruchter. 2009. "Pathways of aqueous Cr(VI) attenuation in a slightly alkaline oxic subsurface ." Environmental Science & Technology 43(4):1071-1077. 
  • Fredrickson JK, JM Zachara, AE Plymale, SM Heald, JP McKinley, DW Kennedy, C Liu, and P Nachimuthu. 2009. "Oxidative Dissolution Potential of Biogenic and Abiogenic TcO2 in Subsurface Sediments." Geochimica et Cosmochimica Acta 73(8):962-976.  doi:10.1016/j.gca.2009.01.027
  • Michalsen MM, A Peacock, AN Smithgal, DC White, AM Spain, Y Sanchez-Rosario, LR Krumholz, SD Kelly, KM Kemner, JP McKinley, SM Heald, MA bogle, D Watson, and JD Istok. 2009. "Treatment of Nitric Acid-, U(VI)-, and Tc(VII)-Contaminated Groundwater in Intermediate-Scale Physical Models of an In Situ Biobarrier." Environmental Science & Technology 43(6):1952-1961. 
  • Qafoku N, RK Kukkadapu, JP McKinley, BW Arey, SD Kelly, CM Wang, CT Resch, and PE Long. 2009. "Uranium in Framboidal Pyrite from a Naturally Bioreduced Alluvial Sediment ." Environmental Science & Technology 43(22):8528-8534 .  doi:10.1021/es9017333
  • Szecsody JE, JP McKinley, FH Crocker, AT Breshears, BJ Devary, HL Fredrickson, and KT Thompson. 2009. SERDP ER-1421 Abiotic and Biotic Mechanisms Controlling In Situ Remediation of NDMA: Final ReportPNNL-18547, Pacific Northwest National Laboratory, Richland, WA. 
  • Szecsody JE, ML Rockhold, M Oostrom, RC Moore, CA Burns, MD Williams, L Zhong, JS Fruchter, JP McKinley, VR Vermeul, MA Covert, TW Wietsma, AT Breshears, and BJ Garcia. 2009. Sequestration of Sr-90 Subsurface Contamination in the Hanford 100-N Area by Surface Infiltration of a Ca-Citrate-Phosphate SolutionPNNL-18303, Pacific Northwest National Laboratory, Richland, WA. 


  • Baldwin BR, AD Peacock, MM Park, D Ogles, JD Istok, JP McKinley, CT Resch, and DC White. 2008. "Multilevel samplers as microcosms to assess microbial response to biostimulation." Ground Water 46(2):295-304.  doi:10.1111/j.1745-6584.2007.00411.x
  • Dresel PE, N Qafoku, JP McKinley, JS Fruchter, CC Ainsworth, C Liu, ES Ilton, and JL Phillips. 2008. Geochemical Characterization of Chromate Contamination in the 100 Area Vadose Zone at the Hanford SitePNNL-17674, Pacific Northwest National Laboratory, Richland, WA. 
  • Szecsody JE, JP McKinley, AT Breshears, and FH Crocker. 2008. "Abiotic/Biotic Degradation and Mineralization of N-Nitrosodimethylamine in Aquifer Sediments." Remediation 19(1):109-123.  doi:10.1002/rem.20195


  • Heald SM, JM Zachara, BH Jeon, JP McKinley, RK Kukkadapu, and DA Moore. 2007. "XAFS Study of the Chemical and Structural States of Technetium in Fe(III) Oxide Co-precipitates." In X-RAY Absorption Fine Structure - XAFS13: 13th International Conference. AIP Conference Proceedings, vol. 882, pp. 173-175.  American Institute of Physics, Melville, NY.  doi:10.1063/1.2644465
  • McKinley JP, JM Zachara, J Wan, DE Mccready, and SM Heald. 2007. "Geochemical Controls on Contaminant Uranium in Vadose Hanford Formation Sediments at the 200 Area and 300 Area, Hanford Site, Washington." Vadose Zone Journal 6(4):1004-1017.  doi:10.2136/vzj2006.0184
  • McKinley JP, JM Zachara, SC Smith, and C Liu. 2007. "Cation exchange reactions controlling desorption of Sr-90(2+) from coarse-grained contaminated sediments at the Hanford site, Washington." Geochimica et Cosmochimica Acta 71(2):305-325. 
  • Szecsody JE, CA Burns, RC Moore, JS Fruchter, VR Vermeul, MD Williams, DC Girvin, JP McKinley, MJ Truex, and JL Phillips. 2007. Hanford 100N Area Apatite Emplacement: Laboratory Results of Ca-Citrate-PO4 Solution Injection and Sr-90 Immobilization in 100N Sediments PNNL-16891, Pacific Northwest National Laboratory, Richland, WA. 
  • Zachara JM, CF Brown, JN Christensen, JA Davis, PE Dresel, C Liu, SD Kelly, JP McKinley, RJ Serne, and W Um. 2007. A Site Wide Perspective on Uranium Geochemistry at the Hanford SitePNNL-17031, Pacific Northwest National Laboratory, Richland, WA. 
  • 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


  • Kukkadapu RK, JM Zachara, JK Fredrickson, JP McKinley, DW Kennedy, SC Smith, and H Dong. 2006. "Reductive Biotransformation of Fe in Shale-Limestone Saprolite Containing Fe(III) Oxides and Fe(II)/Fe(III) Phyllosilicates." Geochimica et Cosmochimica Acta 70(14):3662-3676.  doi:10.1016/j.gca.2006.05.004
  • McKinley JP. 2006. "Mineralogic and compositional studies of barite samples." In Proceedings: Twenty-Third Gulf of Mexico Information Transfer Meeting, January 2005. OCS Study, MMS2005-066, ed. Melanie McKay and Judith Nides, pp. 3-4.  U.S. Dept. of the Interior, Minerals Management Service, New Orleans, LA. 
  • Catalano JG, JP McKinley, JM Zachara, SM Heald, SC Smith, and GE Brown, JR. 2006. "Changes in Uranium Speciation through a Depth Sequence of Contaminated Hanford Sediments." Environmental Science and Technology 40(8):2517-2524 . 
  • Kovacik WP, Jr, K Takai, MR Mormile, JP McKinley, FJ Brockman, JK Fredrickson, and WE Holben. 2006. "Molecular analysis of deep subsurface Cretaceous rock indicates abundant Fe(III)- and S°-reducing bacteria in a sulfate-rich environment." Environmental Microbiology 8(1):141-155.  doi:10.1111/j.1462-2920.2005.00876.x
  • Liu C, JM Zachara, W Yantasee, PD Majors, and JP McKinley. 2006. "Microscopic Reactive Diffusion of Uranium in the Contaminated Sediments at Hanford, United States." Water Resources Research 42(W12420):1-15.  doi:10.1029/2006WR005031
  • McKinley JP, JM Zachara, C Liu, SM Heald, BI Prenitzer, and B Kempshall. 2006. "Microscale Controls on the Fate of Contaminant Uranium in the Vadose Zone, Hanford Site, Washington." Geochimica et Cosmochimica Acta 70(8):1873-1887 .  doi:10.1016/j.gca.2005.10.037
  • Michalsen MM, BA Goodman, S Kelly, KM Kemner, JP McKinley, JW Stucki, and JD Istok. 2006. "Uranium and Technetium Bio-Immobilization in Intermediate-Scale Physical Models of an In Situ Bio-Barrier." Environmental Science & Technology 40(22):7048-7053. 
  • Schryver JC, CC Brandt, SM Pfiffner, AV Palumbo, AD Peacock, DC White, JP McKinley, and PE Long. 2006. "Application of Nonlinear Analysis Methods for Identifying Relationships Between Microbial Community Structure and Groundwater Geochemistry." Microbial Ecology 51(2):177-188.  doi:10.1007/s00248-004-0137-0


  • McKinley JP, JK Fredrickson, and FS Colwell. 2005. "Groundwater Microbial Communities, Part 9: Ecological and Hydrological Interactions." Chapter 106 in Encyclopedia of Hydrological Sciences, ed. M.G. Anderson.  John Wiley and Sons, Chichester, United Kingdom. 
  • Wang Z, JM Zachara, JP McKinley, and SC Smith. 2005. "Cryogenic Laser Induced U(VI) Fluorescence Studies of a U(VI) Substituted Natural Calcite: Implications to U(VI) Speciation in Contaminated Hanford Sediments." Environmental Science and Technology 39:2651-2659. 
  • Zachara JM, JA Davis, C Liu, JP McKinley, N Qafoku, DM Wellman, and SB Yabusaki. 2005. Uranium Geochemistry in Vadose Zone and Aquifer Sediments from the 300 Area Uranium PlumePNNL-15121, Pacific Northwest National Laboratory, Richland, WA. 


  • Fredrickson JK, JM Zachara, DW Kennedy, RK Kukkadapu, JP McKinley, SM Heald, C Liu, and AE Plymale. 2004. "Reduction of TcO4- by sediment-associated biogenic Fe(II)." Geochimica et Cosmochimica Acta 68(15):3171-3187. 
  • Liu C, JM Zachara, O Qafoku, JP McKinley, SM Heald, and Z Wang. 2004. "Dissolution of Uranyl Microprecipitates from Subsurface Sediments at Hanford Site, USA." Geochimica et Cosmochimica Acta 68(22):4519-4537. 
  • 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. 
  • Newby DT, DW Reed, LM Petzke, AL Igoe, ME Delwiche, FF Roberto, JP McKinley, MJ Whiticar, and FS Colwell. 2004. "Diversity of methanotroph communities in a basalt aquifer." FEMS Microbiology Ecology 48:333-344. 
  • Zachara JM, CC Ainsworth, GE Brown, JR, JG Catalano, JP McKinley, O Qafoku, SC Smith, JE Szecsody, SJ Traina, and JA Warner. 2004. "Chromium Speciation and Mobility in a High Level Nuclear Waste Vadose Zone Plume." Geochimica et Cosmochimica Acta 68(1):13-30. 


  • Liu C, JM Zachara, SC Smith, JP McKinley, and CC Ainsworth. 2003. "Desorption Kinetics of Radiocesium from Subsurface Sediments at Hanford Site, USA." Geochimica et Cosmochimica Acta 67(16):2893-2912. 
  • Moser DP, JK Fredrickson, DR Geist, EV Arntzen, AD Peacock, SMW Li, CM Spadoni, and JP McKinley. 2003. "Biogeochemical Processes and Microbial Characteristics Across Groundwater - Surface Water Boundaries of the Hanford Reach of the Columbia River." Environmental Science and Technology 37(22):5127-5134. 


  • Zachara JM, SC Smith, C Liu, JP McKinley, RJ Serne, and PL Gassman. 2002. "Sorption of Cs+ to Micaceous Subsurface Sediments from the Hanford Site, USA." Geochimica et Cosmochimica Acta 66(2):193-211. 


  • Chang YJ, AD Peacock, PE Long, JR Stephen, JP McKinley, SJ Mcnaughton, AKMA Hussain, AM Saxton, and DC White. 2001. "Diversity and characterization of sulfate-reducing bacteria in groundwater at a uranium mill tailings site." Applied and Environmental Microbiology 67(7):3149-3160. 
  • McKinley JP, CJ Zeissler, JM Zachara, RJ Serne, RM Lindstrom, HT Schaef, and RD Orr. 2001. "Distribution and Retention of 137Cs in Sediments at the Hanford Site, Washington." Environmental Science and Technology 35(17):3433-3441. 
  • Zeissler CJ, RM Lindstrom, and JP McKinley. 2001. "Radioactive particle analysis by digital autoradiography." Journal of Radioanalytical and Nuclear Chemistry 248(2):407-412. 


  • McKinley JP, TO Stevens, and F Westall. 2000. "Microfossils and Paleoenvironments in Deep Subsurface Basalt Samples." Geomicrobiology Journal 17:1-12. 
  • Wildung RE, YA Gorby, KM Krupka, NJ Hess, SMW Li, AE Plymale, JP McKinley, and JK Fredrickson. 2000. "Effect of Electron Donor and Solution Chemistry on the Products of Dissimilatory Reduction of Technetium by Shewanella putrefaciens." Applied and Environmental Microbiology 66(6):2451-2460. 
  • Ivanova IA, JR Stephen, YJ Chang, J Bruggemann, PE Long, JP McKinley, GA Kowalchuk, DC White, and SJ Mcnaughton. 2000. "A survey of 16S rRNA and amoA genes related to autotrophic ammonia-oxidising bacteria of the B-subdivision of the Class Proteobacteria in contaminated groundwater." Canadian Journal of Microbiology 46:1012-1020. 
  • Stevens TO, and JP McKinley. 2000. "Abiotic Controls on H2 Production from Basalt-Water Reactions and Implications for Aquifer Biogeochemistry." Environmental Science and Technology 34:826-831. 


  • Onstott TC, TJ Phelps, FS Colwell, DB Ringelberg, DC White, DR Boone, JP McKinley, TO Stevens, PE Long, DL Balkwill, WT Griffin, and T Kieft. 1998. "Observations pertaining to the origin and ecology of microorganisms recovered from the deep subsurface of Taylorsville Basin, Virginia." Geomicrobiology Journal 15(4):353-385. 

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