* student authors under my supervision

Geomicrobiology

Hao, C.B., Dong, H., and Zhang, H. (in press) Succession of acidophilic bacterial community during biooxidation of refractory gold-containing sulfides. Geomicrobiology Journal.

Jiang, H., Deng, S.*, Huang, Q.*, Dong, H., and Yu, B. (in press) Response of Aerobic Anoxygenic Phototrophic Bacterial Diversity to Environment Conditions in Saline Lakes and Daotang River on the Tibetan Plateau, NW China. Geomicrobiology Journal.

Dong, H., Jiang, H.*, Yu, B., Li, X.Q., and Zhang, C.L. (Invited, in press) Impacts of climate change and human activities on microbial ecosystems on the Tibetan Plateau, NW China. GSA Today.

Dong, H., Jaisi, D.P.*, Kim, J.W.,, and Zhang, G.* (2009) Microbe-clay mineral interactions. American Mineralogist, 94, 1505-1519.

Yang, S.J., Dong, H., and Lei, F.M. (2009) Phylogeography of regional fauna on the Tibetan Plateau: a Review. Progress in Natural Science, 19, 789-799.

Wu, J.Y., Guan, T.W., Jiang, H.*, Zhi, X.Y., Tang, S.K., Dong, H., Zhang, L.L., and Li, W.J. (2009) Diversity of actinobacterial community in saline sediments from Yunnan and Xinjiang, China. Extremophiles, 13, 623-632.

Zhang, G.*, Dong, H., Jiang, H.*, Kukkadapu, R.K., Kim, J.W., Eberl, D., and Xu, Z. (2009) Mineral transformations associated with iron redox cycling in the deep subsurface. American Mineralogist, 94, 1049-1058.

Mailloux, B.J., Alexandrova, E., Keimowitz, A., Wovkulich, K., Freyer, G., Herron, M., Stolz, J., Kenna, T., Pichler, T., Polizzotto, M., Dong, H., Bishop, M., and Knappett, P. (2009) Microbial mineral weathering for nutrient acquisition releases arsenic. Applied and Environmental Microbiology, 75, 2558-2565.

Pi, Y., Ye, Q., Jiang, H.*, Wang, P., Li, S., Noakes, J., Culp, R., Dong, H., and Zhang, C.L. (2009) Lipids and phylogenetic characterization of archaea affected by gas hydrates in the Gulf of Mexico. Geomicrobiology Journal, 26, 227-237.

Yu, B.S., Dong, H., Jiang, H.*, Lv, G.*, Eberl, D., Li, S., and Kim, J.W. (2009) The role of clay minerals in preservation of organic matter in sediments of Qinghai Lake, NW China. Clays & Clay Minerals, 57, 213-226.

Jaisi, D.P.*, Dong, H., Plymale, A.E., Fredrickson, J.K., Zachara, J.M., Heald, S., and Morton, J.P. (2009) Reduction and long-term immobilization of technetium by Fe(II) associated with clay mineral nontronite. Chemical Geology, 264, 127-138.

Song, Z.Q.^, Zhi, X.Y., Li, W.J., Jiang, H.^*, , Zhang, C.L., and Dong, H (2009) Actinobacterial diversity in hot springs in tengchong (China), Kamchatka (Russia)m and Nevada (USA), to be submitted to Geomicrobiology Journal, 26, 256-263.

Jiang, H.*, Dong, H., Deng, S., Yu, B., Huang, Q., and Wu, Q. (2009) Response of Archaeal Community Structure to Salinity Change in Lakes on the Tibetan Plateau, Northwestern China. Geomicrobiology Journal, 26, 289-297.

Jiang, H.*, Dong, H., Yu, B., Lv G., Deng, S., Berzins, N., and Dai, M. (2009) Diversity and abundance of ammonia-oxidizing archaea and bacteria in Qinghai Lake, Northwestern China. Geomicrobiology Journal, 26, 199-211.

Navarro, J.B., Flores, A., Ross, C., Rosen, M.R., Dong, H., Briegel, A., Zhang, G.*, Jensen, G.J., Moser, D.P., and Hedlund, B.P. (2009) Microbial community succession in an ephemeral hypereutrophic Mojave Desert playa lake. Microbial Ecology, 57, 307-320.

Jiang, H.*, Dong, H., Yu, B.S., Lv, G.*, Deng, S.*, Wu, Y., Dai, M., and Jiao, N. (2009) Abundance and diversity of aerobic anoxygenic phototrophic bacteria in saline lakes on the Tibetan Plateau. FEMS Microbiology Ecology, 67(2), 268-278.

Jaisi, D.P.*, Liu, C.X., Dong, H., Blake, R.E., and Fein, J.B. (2008) Fe(II) sorption onto nontronite (NAu-2), Geochimica et Cosmochimica Acta, 72, 5361–5371.

Wang, J., Wu, Y., Jiang, H.*, Li, C., Dong, H., Wu, Q., Soininen, J., and Shen, J. (2008) High beta diversity of bacteria in shallow terrestrial subsurface. Environmental Microbiology, 10(10), 2537-2549.

Jaisi, D.P.*, Ji, S.*, Dong, H., Blake, R.E., Eberl, D.D., and Kim J.W. (2008) Role of Microbial Fe(III) Reduction and Solution Chemistry in Aggregation and Settling of Suspended Particles in the Mississippi River Delta Plain, Louisiana, USA. Clays & Clay Minerals, 56(4), 416-428.

Jaisi, D.P.*, Dong, H. and Morton, J.P. (2008) Speciation of Fe(II) during Fe(III) reduction in nontronite and their reactivity towards Tc(VII) reduction, Clays & Clay Minerals, 56, 175-189.

Jiang, H.*, Dong, H., Yu, B., Ye, Q., Shen, J., Rowe, H., and Zhang, C.L. (2008) Dominance of putative marine benthic archaea in Qinghai lake, Northwestern China, Environmental Microbiology, 10, 2355-2367.

Weng, H.X., Sun, X.W., Weng, J.K., Qin, Y.C., and Dong, H. (2008) Crucial roles of iron in the groth of Prorocentrum micans Ehrenberg (dinophyceae). Journal of Costal Research, 24, 176-183.

Dong, H. (2008) Microbial life in extreme environments: linking geological and microbiological processes. In Links between Geological Processes, microbial activities, and evolution of life. (eds.) Y. Dilek, H. Furnes, and K. Muehlenbachs, ISBN 978-4020-8305-1, pp. 237-280

Dong, H., and Yu, B. (2007) Geomicrobiological processes in extreme environments: a review. Episodes, 30(3) , 202-216.

Zhang, G.*^, Kim, J.W.^, Dong, H., and Sommer, A.J. (2007) Microbial effects in the smectite to illite reaction: role of organic matter intercalated in the interlayer. American Mineralogist, ^: equal contribution, 92, 1401-1410.

Zhang, G*, Dong, H., and Kim, J.W. (2007) Microbial reduction of structural Fe3+ in nontronite by a thermophilic bacterium and its role in promoting the smectite to illite reaction, American Mineralogist, 92, 1411-1419.

Jiang, H.*, Dong, H., Ji, S.*, Ye, Y., Wu, N., and Morton, J.P. (2007) Microbial diversity in the deep marine sediments from the Qiongdongnan Basin in South China Sea. Geomicrobiology Journal, 24, 505-517.

Jiang, H.*, Dong, H., Yu, B., Liu, X., Li, Y., Ji, S.*, and Zhang, C.L. (2007) Microbial response to salinity change I Lake Chaka, a hypersaline lake on Tibetan Plateau. Environmental Microbiology, 9(10), 2603-2621.

Dong, H., Rech, J.A., Jiang, H.*, Sun, H., and Buck, B.J. (2007) Endolithic cyanobacteria in soil gypsum: occurrences in Atacama (Chile), Mojave (USA), and Al-Jafr Basin (Jordan) Deserts. Journal of Geophysical Research-Biogeosciences, 112, doi:10.1029/2006JG000385..

Mailloux, B.J., Devlin, S., Fuller, M.E., Onstott, T.C., DeFlaun, M.F., Choi, K.H., Green-Blum, M., Swift, D.J.P., McCarthy, J., and Dong, H.(2007) The limited role of aquifer heterogeneity on metal reduction in an Atlantic coastal plain determined by push-pull tests. Applied Geochemistry, 22, 974-995.

Weng, H., Qin, Y.C., Sun, X.W., Dong, H and Chen Q.H. (2007) Iron and phosphorus effects on the growth of Cryptomonas sp. (Cryptophyceae) and their availability in sediments from the Pearl River Estuary, China. Estuarine, Coastal and Shelf Science, 73, 501-509.

Scheibe, T.D., Dong, H., and Xie, Yulong (2007) Correlation between bacterial attachment rate coefficients and hydraulic conductivity and its effects on field-scale bacterial transport. Invited submission to a special issue in Advances in Water Resources, 30, 1571-1582

Jaisi, D.P.*, Dong, H., and Liu, C. (2007) Kinetic analysis of microbial reduction of Fe(III) in nontronite. Environmental Science and Technology, 41, 2437-2444.

DeFlaun, M. F., Fredrickson, J. K, Dong, H., Pfiffner, S. M., Onstott, T. C., Balkwill, D .L., Streger, S. H., Stackebrandt, E., Knoessen, S. and van Heerden, E. (2007) Isolation and characterization of a Geobacillus thermoleovorans species from an ultra-deep South African gold mine, Systematic and Applied Microbiology, 30, 152-164.

Jaisi, D.P.*, Dong, H. and Liu, C. (2007) Influence of biogenic Fe(II) on the extent of microbial reduction of Fe(III) in clay mineral nontronite, illite and chlorite. Geochimica et Cosmochimica Acta, 71, 1145-1158.

Jaisi, D.P.*, Dong, H., Kim, J.W., He, Z., and Morton, J.P. (2007) Particle aggregation kinetics during microbial reduction of Fe(III) in nontronite. Clays & Clay Minerals, 1, 98-109.

Cai, C.F., Dong, H., Li, H., Xiao, X., Ou, G., and Zhang, C. (2007) Mineralogical and geochemical evidence for coupled bacterial uranium mineralization and hydrocarbon oxidation in the Shashagetai deposit, NW China. Chemical Geology, 236, 167-179

Kukkadapu, R.K., Zachara, J.M., Fredrickson, J.K., McKinley, J.P., Kennedy, D.W., Smith, S.C., and Dong, H. (2006) Reductive biotransformation of Fe in shale-limestone saprolite containing Fe(III) oxides and Fe(II)/Fe(III) phyllosilicates. Geochimica et Cosmochimica Acta, 70, 3662-3676.

Jiang, H.*, Dong, H., Zhang, G.*, Yu, B., Chapman, L.R., and Fields, M.W. (2006) Microbial diversity in water and ssediment of Lake Chaka: an inland hyersaline lake in Northwestern China. Applied and Environmental Microbiology, 72(6), 3832-3845.

Zhang, G.*, Dong, H., Jiang, H.*, Xu, Z. and Eberl D. (2006) Unique microbial community in drilling fluid from Chinese Continental Scientific Deep Drilling. Geomicrobiological Journal, 23, 1-16.

Dong, H., Scheibe, T.D., Johnson, W.P., *Monkman, C.M. and Fuller, M.E. (2006) Direct determination of change of bacterial collision efficiency with transport distance in field scale bacterial transport experiments. Ground Water, 44(3), 415-429.

Dong, H., *Zhang, G., Yu, B., *Jiang, H., Chapman, L.R., and Fields, M.W. (2006) Microbial diversity in sediments of saline Qinghai Lake, China: linking geochemical controls to microbial ecology, Microbial Ecology, 51(1), 65-82.

Seabaugh, J.L.*, Dong, H., Kukkadapu, R.K., Eberl, D., Morton, J.P., and Kim, J.W. (2006) Microbial reduction of Fe(III) in the Fithian and Muloorina illites: contrasting extents and rates of bioreduction. Clays & Clay Minerals, 54(1), 67-79.

Kim, J.W., Furukawa, Y., Dong, H., Newell, S.W. (2005) The role of microbial Fe(III) reduction in the clay flocculation. Clays & Clay Minerals, 53(6), 572-579.

*Jaisi, D.P., and Kukkadapu, R.K., Eberl, D.D., and Dong, H. (2005) Control of Fe(III) site occupancy on the extent and rate of microbial Fe(III) reduction in nontronite. Geochimica et Cosmochimica Acta, 69, 5429-5440

*Zhang, G., Dong, H., Xu, Z., Zhao, D., and Zhang, C. (2005) Bacterial diversity in ultra-high pressure rocks and fluids from the Chinese Continental Scientific Drilling in China. Applied and Environmental Microbiology, 71 (6), 3213-3227.

Hall, J.A., Mailloux, B.J., Long, K., Onstott, T.C., Fuller, M.E., Dong, H., DeFlaun, M.F. (2005) The effect of physical and chemical heterogeneity on the transport of bioaugmented organisms as inferred from in-situ short-core pulse experiments through sandy porous media, Journal of Contaminant Hydrology, 76, 295-314.

Ams, D.A., Fein, J.B., Dong, H., and Maurice, P.A. (2004) Experimental measurements of the adsorption of Bacillus subtilis and Pseudomonas mendocina onto Fe-oxyhydroxide-coated and uncoated quartz grains. Geomicrobiology Journal, 21, 511-519.

Kim, J.^, Dong, H.^, *Seabaugh, J., Newell, S.W. and Eberl, D.D. (2004) Role of microbes in the smectite to illite reaction. Science, 303, 830-832, 2004. ^Equal contribution.

Dong, H., Kostka, J.E. and Kim, J. (2003) Microscopic evidence for microbial dissolution of smectite. Clays and Clay Minerals, 51(3), 502-512.

Mailloux, B.J., Fuller, M.E., Onstott, T.C., Hall, J., Dong, H., DeFlaun, M.F., Streger, S.H., Rothmel, R.K., Green, M., Swift, D.J.P., Radke. J. (2003). The role of physical, chemical, and microbial heterogeneity on the field-scale transport and attachment of bacteria. Water Resources Research, 39(6), 1142-1157.

Musslewhite, C.L., McInerney, M.J., Onstott, T.C., Dong, H., Green, M.X., Swift, D., Macnaughton, S., White, D.C., Murray, C. (2003) The factors controlling microbial distribution and activity in the shallow subsurface. Geomicrobiology Journal, 20, 1-17.

Dong, H., Kukkadapu, R.K., Fredrickson, J.K., Zachara, J.M., Kennedy, D.W. and Kostandarithes, H.M. (2003) Microbial reduction of structural Fe(III) in illite and goethite, Environmental Science and Technology, 37(7), 1268-1276.

Streger, S.H., Vainberg, S., Dong, H., and Hatzinger, P.B. (2002) Enhancing Transport of Hydrogenophaga flava ENV735 for Bioaugmentation into Aquifers Contaminated with Methyl tert-Butyl Ether Applied and Environmental Microbiology, 68, 5571-5579.

Dong, H. Significance of electrophoretic mobility distribution to bacterial transport (2002) Journal of Microbiological Methods, 51 (1), 83-93.

Dong, H., Rothmel, R., Onstott, T.C., Fuller, M.E., DeFlaun, M.F., Dunlap, R., and Fletcher, M. (2002) Simultaneous Transport of Two Bacterial Strains in Intact Cores from Oyster, Virginia: Biological Effects and Numerical Modeling. Applied and Environmental Microbiology, 68 (5), 2120-2132.

Dong, H., Onstott, T.C., Ko., C.H., Elimelech, M., Hollingsworth, A.D., DeFlaun, M.F., Derick G. Brown and Brian J. Mailloux (2002) Theoretical Prediction of Collision Efficiency Between an Adhesion-Deficient Bacterium and Aquifer Sediments. Colloids and Surfaces B: Biointerfaces, 24 (3-4), 229-245.

Dong, H., Onstott, T.C., DeFlaun, M.F., Fuller, M.E., Streger, S.H., Rothmel, R.K., and Mailloux, B.J. (2002) Relative dominance of physical vs. chemical effects on the transport of adhesion deficient bacteria in intact cores South Oyster, VA. Environmental Science and Technology, 36, 891-900.

Balkwill, D, J Chen, MF DeFlaun, F Dobbs, H Dong, JK Fredrickson, ME Fuller, M Green, T Ginn, T Griffin, WE Holben, SS Hubbard, WP Johnson, PE Long, B Mailloux, E Majer, M McInerney, CJ Murray, TC Onstott, TJ Phelps, T Scheibe, DP Swift, DC White and FJ Wobber (2001) Breakthroughs In Field-Scale Bacterial Transport. EOS, 82, 417-425.

Fuller, M.E., Dong, H., Brian J. Mailloux, Onstott, T.C., and DeFlaun, M.F. (2000) Examining bacterial transport in intact cores from Oyster, Virginia: Effect of facies type on bacterial breakthrough and retention. Water Resource Research, 36, 2417-2431.

Dong, H., Onstott, T.C., Fredrickson, J. K., and Zachara, J.M. (2000) Mineral transformation associated with the microbial reduction of magnetite, Chemical Geology Special Volume on Advances in Geomicrobiology, 169, 299-318.

Dong, H., Onstott, T.C., DeFlaun, M.F., Fuller, M.E., Gillespie, K., and Fredrickson, J.K. (1999) Development of radiographic and microscopic techniques for the characterization of bacterial transport in intact sediment cores from Oyster, VA. Journal of Microbiological Methods, 37, 139-154.

Fredrickson, J. K., J. M. Zachara, D. W. Kennedy, H. Dong, T. C. Onstott, N. W. Hinman, and S. W. Li. (1998) Biogenic iron mineralization accompanying the dissimilatory reduction of hydrous ferric oxide by a groundwater bacterium. Geochim. Cosmochim. Acta 62:3239-3257.

Onstott, T.C., Tobin, K.J., Dong, H., DeFlaun, M.F., Fredrickson, J.K., Bailey, T., Brockman, F., Kieft, T., Peacock, A., White, D.C., Balkwill, D., Phelps, T.J., and Boone, D.R. (1997) The deep gold mines of South Africa: Windows into the subsurface biosphere", SPIE 42nd Annual Mtg. Proceedings, 3111, 344-357.

Clay Mineralogy, paleoclimotology, and others

Liu, X.Q., Dong, H., Yang, X.D., Herzschuh, U., Shen, J., Wang, S.M., Zhang, E.L., and Wang, Y.B. (2009) Late Holocene forcing of the Asian winter and summer monsoon as evidenced by proxy records from the northern Qinghai-Tibetan Plateau. Earth and Planetary Science Letters, 280, 276-284.

Yu, B.S., Dong, H., Widom, E., Chen, J., and Lin C. (2009) Geochemistry of basal Cambrian black shales and cherts from the Northern Tarim Basin, Northwest China: implications for depositional setting and tectonic history. Journal of Asian Earth Sciences, 34, 418-436.

Liu, X., Dong, H., Rech, J.A., Matsumoto, R., Yang, B., and Wang, Y. (2008) Evolution of Chaka Salt Lake in NW China in response to climatic change during the latest Pleistocene-Holocene. Quaternary Science Reviews, 27, 867-879.

Dong, H. (2005) Interstratified illite-smectite: a review of contributions of TEM data to crystal chemical relations and reaction mechanisms. Clay Science, 12, supplement 1, 6-12.

Peacor, D.R., Bauluz, B., Dong, H., Tillick, D. and Yan, Y. (2002) TEM and AEM Evidence for High Mg Contents of 1M Illite: Absence of 1M Polytypism in Normal Prograde Diagenetic Sequences, Clays & Clay Minerals, 50, 757-765.

Dong, H., Peacor, D.R., Merriman, R.J. and Kemp, S.J. (2002) Brinrobertsite: a new R1 interstratified pyrophyllite/smectite-like clay mineral: Characterization and geological origin, Mineralogical Magzine, 66(4), 605-617.

Masuda, H., Peacor, D.R., and Dong, H. (2001) TEM study of conversion of smectite to illite in mudstones of the Nankai Trough, Contrast with coeval bentonites. Clays & Clay Minerals, 49, 109-118

Murphy, S.F., Brantley, S.L., White, A.F., Dong, H. and Blum, A.E. (1998) The rate and mechanism of biotite weathering in a tropical forest soil, Luquillo Moutains, Puerto Rico. Geochimica et Cosmochimica Acta, 62, 227-243.

Dong, H., Peacor, D.R., Murphy, S.F. (1998) TEM study of progressive alteration of igneous biotite to kaolinite throughout a weathered soil profile. Geochimica et Cosmochimica Acta, 62, 1881-1887.

Elliott, W.C., Savin, S.M., Dong, H. and Peacor, D.R. (1997) The oxygen isotope geochemistry of clay minerals formed in a saprolite in the Piedmont Province, Virginia. Cheimcal Geology, 142, 201-211.

Dong, H., Peacor, D.R. and Freed, R.L. (1997) Phase relations among smectite, R1 I/S and illite. American Mineralogist, 82, 379-391.

Dong, H. and Peacor, D.R. (1996) TEM observations of coherent stacking relations in smectite, I/S and illite of shales: evidence for MaEwan crystallites and dominance of 2M1 polytypism. Clays & Clay Minerals, 44, 257-275.

Radiogenic Isotope Geochemistry

Zhang, Z., Shen, K., and Dong, H. (2009) Petrological and geochronological constraints on the formation, subduction and exhumation of the continental crust in the southern Sulu orogen, eastern-central China. Tectonophysics, 475, 291-307

Liu, F., Xu, Z., Liou, J.G., Dong, H., and Xue, H. (2007) Ultrahigh-pressure mineral assemblages in zircons from surface to 5158-m depth cores in the main drill hold of Chinese Continental Scientific Drilling Project, SW Sulu, China. International Geology Review, 49(5), 454-478.

Lin, L.H., Onstott, T.C. and Dong, H. (2000) Recoil redistribution of 39Ar in fine-grained minerals, implication for clay 40Ar/39Ar geochronology, Geochim. Cosmochim. Acta, 64, 3965-3974.

Dong, H., Hall, C.M., Peacor, D.R., Halliday, A.N. and Pevear, D.R. (2000) Thermal 40Ar/39Ar separation of diagenetic from detrital illitic clays in Gulf Coast shales. Earth and Planetary Science Letters, 175, 309-325.

Hall, C.M., Higueras, P., Kesler, S.E., Hernandez, R.L., Dong, H. and Halliday, A.N. (1997) Dating of alteration episodes related to mercury mineralization in the Almaden District, Spain. Earth and Planetary Science Letters, 148, 287-298.

Dong, H., Hall, C.M., Halliday, A.N. and Peacor, D.R. (1997) 40Ar-39Ar illite dating of late Caledonian (Acadian) metamorphism and cooling of K-bentonites and slates from the Welsh Basin. Earth and Planetary Science Letters, 150, 337-357.

Dong, H., Hall, C.M., Halliday, A.N. and Peacor, D.R. (1997) Laser 40Ar-39Ar dating of microgram-size illite samples and implication for thin section dating. Geochimica et Cosmochima Acta, 61, 3803-3808.

Dong, H., Hall, C.M., Peacor, D.R. and Halliday, A.N. (1995) Mechanisms of argon retention in clays revealed by laser 40Ar-39Ar dating. Science, 267, 355-359.