Energy, Climate, & Infrastructure Security (ECIS)
ECISClimateCarbon ManagementMolecular Geochemistry

Molecular Geochemistry

Research

Geochemistry, mineralogy, and materials science specializing in application of chemical kinetics, mineral equilibria, molecular spectroscopy, and molecular simulation to complex multicomponent and multiphase systems; particular emphasis on the use of molecular simulation and various spectroscopies to understand material behavior.

Capabilities

  • Atomistic simulation with applications to geochemistry and materials science
  • Molecular dynamics (classical and ab initio)
  • Grand canonical Monte Carlo
  • Quantum chemistry (density functional theory)
  • Reactive transport modeling
  • Nuclear magnetic resonance spectroscopy
  • Inelastic neutron scattering spectroscopy
  • Infrared/Raman vibrational spectroscopy

Molecular Geochemistry Facilities

Geochemistry group computer clusters; 42-node AMD and Apple clusters with 100 processors.

Geochemistry group computer clusters; 42-node AMD and Apple clusters with 100 processors.

Red Sky is a 217-teraflop supercomputer at Sandia National Laboratories, comprised of SUN X6275 blades with 18,544 computing cores.

Red Sky is a 217-teraflop supercomputer at Sandia National Laboratories, comprised of SUN X6275 blades with 18,544 computing cores.

Geochemistry Molecular Modeling Publications

Nanoporous Materials

  • J.A. Greathouse, N.W. Ockwig, L.J. Criscenti, T.R. Guilinger, P. Pohl, and M.D. Allendorf (2010) Computational screening of metal-organic frameworks for large-molecule chemical Sensing.  Physical Chemistry Chemical Physics, in press.
  • R.K. Raghunandan, J.L. Herberg, B. Jacobs, A. Highley, R. Behrens, N.W. Ockwig, J.A. Greathouse, and M.D. Allendorf (2010) Metal-organic frameworks as templates for nanoscale NaAlH4.  Journal of the American Chemical Society, 131(37), 13198-13199.  http://dx.doi.org/10.1021/ja904431x
  • J.A. Greathouse and M.D. Allendorf (2009) Adsorption and separation of noble gases by IRMOF-1:  Grand canonical Monte Carlo simulations.  Industrial & Engineering Chemistry Research.  48(7), 3425-3431.  http://dx.doi.org/10.1021/ie801294n
  • J.A. Greathouse and M.D. Allendorf (2008) Force field validation for molecular dynamics simulations of IRMOF-1 and other isoreticular zinc carboxylate coordination polymers.  Journal of Physical Chemistry C, 112, 5795-5802.  http://dx.doi.org/10.1021/jp076853w
  • N.W. Ockwig, R.T. Cygan, L.J. Criscenti, and T.M. Nenoff (2008) Molecular dynamics studies of nanoconfined water in clinoptilolite and heulandite zeolites.  Physical Chemistry Chemical Physics, 10(6), 800-807.  http://dx.doi.org/10.1039/b711949f
  • N.W. Ockwig, R.T. Cygan, M.A. Hartl, L.L. Daemen, and T.M. Nenoff (2008) Incoherent inelastic neutron scattering studies of nanoconfined water in clinoptilolite and heulandite zeolites.  Journal of Physical Chemistry C, 112(35), 13629-13634.  http://dx.doi.org/10.1021%2Fjp803770v
  • T.M. Nenoff, N.W. Ockwig, R.T. Cygan, T.M. Alam, K. Leung, J.D. Pless, H. Xu, M.A. Hartl, and L.L. Daemen (2007) Role of water in selectivity of niobate-based octahedral molecular sieves.  Journal of Physical Chemistry C, 111(35), 13212-13221.  http://dx.doi.org/10.1021/jp073969j
  • J.A. Greathouse and M.D. Allendorf (2006) The interaction of water with MOF-5 simulated by molecular dynamics.  Journal of the American Chemical Society, 128, 10678-10679.  http://dx.doi.org/10.1021/ja063506b

Layered Minerals

  • G. Zhang, Z. Wei, R.E. Ferrell, S.J. Guggenheim, R.T. Cygan, and J. Luo (2010) Evaluation of the elasticity normal to the basal plane of non-expandable 2:1 phyllosilicates by nanoindentation.  American Mineralogist, 95(5-6), 863-869.  http://dx.doi.org/10.2138/am.2010.3398
  • R.T. Cygan, J.A. Greathouse, H. Heinz, A.G. Kalinichev (2009) Molecular models and simulations of layered materials.  Journal of Materials Chemistry, 19(17), 2470-2481.  http://dx.doi.org/10.1039/b819076c
  • J.A. Greathouse, J.S. Durkin, J.P. Larentzos, R.T. Cygan (2009) Implementation of a Morse potential to model hydroxyl behavior in phyllosilicates.  Journal of Chemical Physics, 130(13), 134713.  http://dx.doi.org/10.1063/1.3103886
  • N.W. Ockwig, J.A. Greathouse, J.S. Durkin, R.T. Cygan, L.L. Daemen, and T.M. Nenoff (2009) Nanoconfined water in magnesium-rich 2:1 phyllosilicates.  Journal of the American Chemical Society, 131(23), 8155-8162.  http://dx.doi.org/10.1021/ja900812m
  • J.P. Larentzos, J.A. Greathouse, and R.T. Cygan (2007) An ab initio and classical molecular dynamics investigation of the structural and vibrational properties of talc and pyrophyllite.  Journal of Physical Chemistry C, 111(34), 12752-12759.  http://dx.doi.org/10.1021/jp072959f
  • I.F. Vasconcelos, B.A. Bunker, and R.T. Cygan (2007) Molecular dynamics modeling of ion adsorption to the basal surfaces of kaolinite.  Journal of Physical Chemistry C, 111(18), 6753-6762.  http://dx.doi.org/10.1021/jp065687
  • P.S. Braterman and R.T. Cygan (2006) Vibrational spectroscopy of brucite:  A molecular simulation investigation.  American Mineralogist, 91(7), 1188-1196.  http://dx.doi.org/10.2138/am.2006.2094
  • J.A. Greathouse and R.T. Cygan (2006) Water structure and aqueous uranyl (VI) adsorption equilibria onto external surfaces of beidellite, montmorillonite, and pyrophyllite:  Results from molecular simulations.  Environmental Science & Technology, 40(12), 3865-3871.  http://dx.doi.org/10.1021/es052522q
  • J.A. Greathouse and R.T. Cygan (2005) Molecular dynamics simulation of uranyl(VI) sorption equilibria onto an external montmorillonite surface.  Physical Chemistry Chemical Physics, 7(20), 3580-3586.  http://dx.doi.org/10.1039/b509307d
  • J. Wang, A.G. Kalinichev, R.J. Kirkpatrick, and R.T. Cygan (2005) Structure, energetics, and dynamics of water adsorbed on the muscovite (001) surface:  A molecular dynamics simulation.  Journal of Physical Chemistry B, 109(33), 15893-15905.  http://dx.doi.org/10.1021/jp045299c

Waste Forms

  • A.E. Ismail, J.A. Greathouse, P.S. Crozier, and S.M. Foiles (2010) Electron-ion coupling effects on simulations of radiation damage in pyrochlore waste forms.  Journal of Physics:  Condensed Matter, 22(22), 225405.  http://dx.doi.org/10.1088/0953-8984/22/22/225405

Water Treatment

Gas Hydrates

  • J.A. Greathouse, R.T. Cygan, R.A. Bradshaw, E.H. Majzoub, and B.A. Simmons (2007) Computational and spectroscopic studies of dichlorofluroethane hydrate structure and stability.  Journal of Physical Chemistry C, 111(45), 16787-16795.  http://dx.doi.org/10.1021/jp072968o
  • J.A. Greathouse, R.T. Cygan, and B.A. Simmons (2006) Vibrational spectra of methane clathrate hydrates from molecular dynamics simulation.  Journal of Physical Chemistry B, 110(13), 6428-6431.  http://dx.doi.org/10.1021/jp060471t

Surface Processes

  • L.J. Criscenti, R.T. Cygan, A.S. Kooser, and H.K. Moffat (2008) Water and halide adsorption to corrosion surfaces:  Molecular simulations of atmospheric interactions with aluminum oxyhydroxide and gold.  Chemistry of Materials, 20(14), 4682-4693.  http://dx.doi.org/10.1021%2Fcm702781r
  • R.T. Cygan, C.T. Stevens, R.W. Puls, S.B. Yabusaki, R.D. Wauchope, C.J. McGrath, C.J., G.P. Curtis, M.D. Siegel, L.A. Veblen, and D.R. Turner (2007) Research activities at U.S. government agencies in subsurface reactive transport modeling.  Vadose Zone Journal, 6(4), 805-822.  http://dx.doi.org/10.2136/vzj2006.0091
  • T.D. Perry, R.T. Cygan, and R. Mitchell (2007) Molecular models of a hydrated calcite mineral surface.  Geochimica et Cosmochimica Acta, 71(24), 5876-5887.  http://dx.doi.org/10.1016/j.gca.2007.08.030
  • K.J. Johnson, R.T. Cygan, and J.B. Fein (2006) Molecular simulations of metal adsorption to bacterial surfaces.  Geochimica et Cosmochimica Acta, 70(20), 5075-5088.  http://dx.doi.org/10.1016/j.gca.2006.07.028
  • T.D. Perry, R.T. Cygan, and R. Mitchell (2006) Molecular models of alginic acid:  Interactions with calcium ions and calcite surfaces.  Geochimica et Cosmochimica Acta, 70(14), 3508-3532.  http://dx.doi.org/10.1016/j.gca.2007.08.030
  • S.J. Altman, M.L. Rivers, M. Reno, R.T. Cygan, and A.A. McLain (2005) Characterization of sorption sites on aggregate soil samples using synchrotron X-ray computerized microtomography.  Environmental Science & Technology, 39(8), 2679-2685.  http://dx.doi.org/10.1021/es049103y

Technical Reports

  • F.D. Hansen, E.L. Hardin, R.P. Rechard, G.A. Freeze, D.C. Sassani, P.V. Brady, C.M. Stone, M.J. Martinez, J.F. Holland, T. Dewers, K.N. Gaither, S.R. Sobolik, and R.T. Cygan (2010) Shale disposal of U.S. high-level radioactive waste.  Report SAND2010-2843, Sandia National Laboratories.  DOWNLOAD PDF HERE
  • R.W. Bradshaw, J.A. Greathouse, R.T. Cygan, B.A. Simmons, D.E. Dedrick, and E.H. Majzoub (2008) Desalination utilizing clathrate hydrates (LDRD final report).  Report SAND2007-6565, Sandia National Laboratories.   DOWNLOAD PDF HERE
  • R.T. Cygan, T.M. Alam, C.J. Brinker, B.C. Bunker, J.S. Clawson, L.J. Criscenti, P.S. Crozier, D. Farrow, P.J. Feibelman, B.L. Frankamp, G.P. Holland, J.E. Houston, D.L. Huber, Y.-B. Jiang, K. Leung, C.D. Lorenz, T.M. Nenoff, M.D. Nyman, N.W. Ockwig, C.J. Orendorff, J.D. Pless, S.B. Rempe, S. Singh, M.J. Stevens, K. Thuermer, F.B. van Swol, S. Varma, R.C. Major, M.J. McGrath, J.I. Sepmann, X. Zhu, J.L. Cecchi, Z. Chen, D.R. Dunphy, H. Gerung, D.J. Kissel, N. Liu, G.K. Xomeritakis, J.A. Anderson, A. Travesset, L.L. Daemen, M.A. Hartl, and H. Xu (2008) Exploiting interfacial water properties for desalination and purification applications.  Report SAND2008-5729, Sandia National Laboratories.  DOWNLOAD PDF HERE
  • J.A. Greathouse, M.D. Allendorf, and J.C. Sanders (2008) Computational investigation of noble gas adsorption and separation by nanoporous materials.  Report SAND2008-6687, Sandia National Laboratories.  DOWNLOAD PDF HERE
  • G.E. Hammond and R.T. Cygan (2007) Geoquìmico:  An interactive tool for comparing sorption conceptual models (surface complexation modeling versus KD).  Report SAND2007-7091, Sandia National Laboratories.  DOWNLOAD PDF HERE
  • S.L. Rempe, D. Sabo, J.S. Clawson, J.A. Greathouse, K. Leung, R.T. Cygan, M.G. Martin, T.M. Alam, and S. Varma (2007) Fuel traps:  Mapping stability via water association.  Report SAND2007-1643, Sandia National Laboratories.   DOWNLOAD PDF HERE
  • R.T. Cygan and J.A. Greathouse (2005) Frontiers of interfacial water research:  Workshop report.  Report SAND2005-6220, Sandia National Laboratories.  DOWNLOAD PDF HERE
  • Z.R. Tian, L.J. Criscenti, E.D. Spoerke, B.B. McKenzie, R.T. Cygan, J.A. Voigt, and M.L. Machesky (2005) Solution-based nanoengineering of materials.  Report SAND2005-0860, Sandia National Laboratories. DOWNLOAD PDF HERE

Contact Us

Technical Staff

Louise J. Criscenti

Postdocs and Students

Marie Parkes
Stephanie Teich-McGoldrick
Todd Zeitler

Computer Software R&D Staff

David B. Hart

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