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Fundamental and Computational Sciences Directorate

Staff information

Matthew Marshall

Ecosystem Science
Pacific Northwest National Laboratory
PO Box 999
MSIN: J4-18
Richland, WA 99352

PNNL Publications


  • Renslow RS, MJ Marshall, AE Tucker, WB Chrisler, and XY Yu. 2017. "In situ nuclear magnetic resonance microimaging of live biofilms in a microchannel." Analyst 142(13):2363-2371.  doi:10.1039/C7AN00078B


  • Hua X, MJ Marshall, Y Xiong, X Ma, Y Zhou, AE Tucker, Z Zhu, S Liu, and XY Yu. 2015. "Two-dimensional and three-dimensional dynamic imaging of live biofilms in a microchannel by time-of-flight secondary ion mass spectrometry." Biomicrofluidics 9(3):Article No. 031101.  doi:10.1063/1.4919807
  • Thomas M, K Kleese van Dam, MJ Marshall, AP Kuprat, JP Carson, CS Lansing, ZC Guillen, EA Miller, I Lanekoff, and J Laskin. 2015. "Towards adaptive, streaming analysis of x-ray tomography data." Synchrotron Radiation News 28(2):10-14.  doi:10.1080/08940886.2015.1013414


  • Heath BS, MJ Marshall, and J Laskin. 2014. "The Characterization of Living Bacterial Colonies Using Nanospray Desorption Electrospray Ionization Mass Spectrometry." In Engineering and Analyzing Multicellular Systems: Methods in Molecular Biology, vol. 1151, ed. L Sun and W Shou, pp. 199-208.  Springer, New York. 
  • Hua X, XY Yu, Z Wang, L Yang, B Liu, Z Zhu, AE Tucker, WB Chrisler, EA Hill, S Thevuthasan, Y Lin, S Liu, and MJ Marshall. 2014. "In situ molecular imaging of hydrated biofilm in a microfluidic reactor by ToF-SIMS." Analyst 139:1609-1613.  doi:10.1039/C3AN02262E
  • Thomas M, MJ Marshall, EA Miller, AP Kuprat, K Kleese van Dam, and JP Carson. 2014. "3D Imaging of Microbial Biofilms: Integration of Synchrotron Imaging and an Interactive Visualization Interface." In 36th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), August 26-30, 2014, Chicago, IL, pp. 3304 - 3307.  IEEE, Piscataway, NJ.  doi:10.1109/EMBC.2014.6944329
  • 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


  • Kleese van Dam K, JP Carson, AL Corrigan, DR Einstein, ZC Guillen, BS Heath, AP Kuprat, IT Lanekoff, CS Lansing, J Laskin, D Li, Y Liu, MJ Marshall, EA Miller, G Orr, P Pinheiro da Silva, S Ryu, CJ Szymanski, and M Thomas. 2013. "Velo and REXAN - Integrated Data Management and High Speed Analysis for Experimental Facilities." In Proceedings of the IEEE 8th International Conference on EScience, October 8-12, 2012, Chicago, Illinois.  IEEE Press, Los Alamitos, CA.  doi: 10.1109/eScience.2012.6404463
  • 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


  • Bailey KL, FA Tilton, DP Jansik, SJ Ergas, MJ Marshall, AL Miracle, and DM Wellman. 2012. "Growth Inhibition and Stimulation of Shewanella oneidensis MR-1 by Surfactants and Calcium Polysulfide." Ecotoxicology and Environmental Safety 80:195-202. 
  • Miller EA, X Xiao, MD Miller, PE Keller, TA White, and MJ Marshall. 2012. "Investigating biofilm structure using x-ray microtomography and gratings-based phase contrast." In Developments in X-Ray Tomography VIII, August 12, 1012, San Diego, California. Proceedings of the SPIE, vol. 8506, ed. SR Stock, p. Paper No. 85061H.  SPIE, Bellingham, WA.  doi:10.1117/12.930105


  • 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
  • Cao B, L Shi, RN Brown, Y Xiong, JK Fredrickson, MF Romine, MJ Marshall, MS Lipton, and H Beyenal. 2011. "Extracellular Polymeric Substances from Shewanella sp. HRCR-1 Biofilms: Characterization by Infrared Spectroscopy and Proteomics." Environmental Microbiology 13(4):1018-1031.  doi:10.1111/j.1462-2920.2010.02407.x
  • Cao B, B Ahmed, DW Kennedy, Z Wang, L Shi, MJ Marshall, JK Fredrickson, NG Isern, PD Majors, and H Beyenal. 2011. "Contribution of Extracellular Polymeric Substances from Shewanella sp. HRCR-1 Biofilms to U(VI) Immobilization." Environmental Science & Technology 45(13):5483-5490.  doi:10.1021/es200095j
  • Clarke TA, M Edwards, AJ Gates, A Hall, G White, J Bradley, CL Reardon, L Shi, AS Beliaev, MJ Marshall, Z Wang, N Watmough, JK Fredrickson, JM Zachara, JN Butt, and DJ Richardson. 2011. "Structure of a Bacterial Cell Surface Decaheme Electron Conduit." Proceedings of the National Academy of Sciences of the United States of America 108(23):9384-9389.  doi:10.1073/pnas.1017200108
  • 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
  • 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. 


  • Bouhenni R, GJ Vora, JC Biffinger, S Shirodkar, KL Brockman, R Ray, P Wu, BJ Johnson, EM Biddle, MJ Marshall, LA Fitzgerald, B Little, JK Fredrickson, AS Beliaev, BR Ringeisen, and D Saffarini. 2010. "The role of Shewanella oneidensis MR-1 outer surface structures in extracellular electron transfer." Electroanalysis 22(7-8):856-864. 
  • Marshall MJ, AS Beliaev, and JK Fredrickson. 2010. "Microbiological Transformations of Radionuclides in the Subsurface." Chapter 4 in Environmental Microbiology, Second Edition, ed. R. Mitchell; J.-D. Gu, pp. 96-114.  Wiley-Blackwell, Hoboken, NJ. 
  • 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
  • Turse JE, MJ Marshall, JK Fredrickson, MS Lipton, and SJ Callister. 2010. "An empirical strategy for characterizing bacterial proteomes across species in the absence of genomic sequences." PLoS One 5(11):Article No.: e13968.  doi:10.1371/journal.pone.0013968


  • Hartshorne RS, CL Reardon, DE Ross, J Nuester, TA Clarke, AJ Gates, PC Mills, JK Fredrickson, JM Zachara, L Shi, AS Beliaev, MJ Marshall, M Tien, SL Brantley, JN Butt, and D Richardson. 2009. "Characterization of an electron conduit between bacteria and the extracellular environment." Proceedings of the National Academy of Sciences of the United States of America 106(52):22169-22174.  doi:10.1073/pnas.0900086106
  • 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. 
  • Popa R, R Popa, MJ Marshall, H Nguyen, BM Tebo, and S Brauer. 2009. "Limitations and Benefits of ARISA Intra-genomic Diversity Fingerprinting ." Journal of Microbiological Methods 78(2):111-118.  doi:10.1016/j.mimet.2009.06.005
  • Sharp J, EJ Schofield, H Veeramani, E Suvorova, DW Kennedy, MJ Marshall, A Mehta, JR Bargar, and R Bernier-Latmani. 2009. "Structural similarities between biogenic uraninites produced by phylogenetically and metabolically diverse bacteria." Environmental Science & Technology 43(21):8295-8301. 


  • 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
  • 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
  • Wang Z, C Liu, X Wang, MJ Marshall, JM Zachara, KM Rosso, M Dupuis, JK Fredrickson, SM Heald, and L Shi. 2008. "Kinetics of Reduction of Fe(III) Complexes by Outer Membrane Cytochromes MtrC and OmcA of Shewanella oneidensis MR-1." Applied and Environmental Microbiology 74(21):6746-6755.  doi:10.1128/AEM.01454-08
  • Zhang H, X Tang, GR Munske, NL Zakharova, L Yang, C Zheng, MA Wolff, N Tolic, GA Anderson, L Shi, MJ Marshall, JK Fredrickson, and JE Bruce. 2008. "In Vivo Identification of the Outer Membrane Protein OmcA-MtrC Interaction Network in Shewanella oneidensis MR-1 Cells Using Novel Hydrophobic Chemical Cross-Linkers." Journal of Proteome Research 7(4):1712-1720.  doi:10.1021/pr7007658


  • Shi L, B Chen, Z Wang, DA Elias, MU Mayer, YA Gorby, S Ni, BH Lower, DW Kennedy, DS Wunschel, HM Mottaz, MJ Marshall, EA Hill, AS Beliaev, JM Zachara, JK Fredrickson, and TC Squier. 2006. "Isolation of a High-Affinity Functional Protein Complex between OmcA and MtrC: Two Outer Membrane Decaheme c-type Cytochromes of Shewanella oneidensis MR-1 ." Journal of Bacteriology 188(13):4705-4714.  doi:10.1128/JB.01966-05
  • 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. 


  • Elias DA, ME Monroe, MJ Marshall, MF Romine, AS Beliaev, JK Fredrickson, GA Anderson, RD Smith, and MS Lipton. 2005. "Global detection and characterization of hypothetical proteins in Shewanella oneidensis MR-1 using LC-MS based proteomics based proteomics." Proteomics 5(12):3120-3130.  doi:10.1002/pmic.200401140

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