University of Toronto Department of Geology
Microbial Geochemistry Laboratory
www.geomicrobiology.ca
Refereed Journal Publications
2008
Ferris FG, Magalhaes E. 2008. Interfacial energetics of bacterial silicification. Geomicrobiol. J. 25: 333-337.
Kyle JE, Pedersen K, Ferris FG. 2008. Virus mineralization at low pH in the Rio Tinto, Spain. Geomicrobiol. J. 25: 338-345.
Kyle, JE, Eydal HSC, Ferris FG, Pedersen K. 2008. Viruses in granitic groundwater from 69 to 450 m depth of the Aspo hard rock laboratory, Sweden. ISME Journal publication online, February 2008 ; doi:10.1038/ismej.2008.18
2007
Phoenix VR, Korenevsky AA, Ferris FG, Gorby YA, Beveridge TJ. 2007. Influence of Lipopolysaccharide on the Surface Proton-Binding Behavior of Shewanella spp. Current Microbiology 55: 152-157.
Omelon CR, Pollard WH, Ferris FG. 2007. Inorganic species distribution and microbial diversity within high Arctic cryptoendolithic habitats. Microbial Ecology 54: 740-752
2006
Omelon CR, Pollard WH, and Ferris FG. 2006. Chemical and ultrastructural characterization of high Arctic cryptoendolithic habitats. Geomicrobiol. J. 23: 189-200
Omelon, C.R., Pollard, W.H., and Ferris, F.G. 2006. Environmental controls on microbial colonization of high Arctic cryptoendolithic habitats. Polar Biology 30: 19-29
Mitchell, AC and Ferris, FG. 2006. The influence of Bacillus Pasteurii on the nucleation and growth of Calcium Carbonate. Geomicrobiology Journal 23: 213-226
Phoenix, VR, Bennett, PC, Summers Engel, A, Tyler SW, and Ferris FG. 2006 Chilean high-altitude hot spring sinters: a model system for UV screening mechanisms by early Precambrian cyanobacteria. Geobiology 4: 15-28
Mitchell AC, Ferris FG 2006. Effect of strontium contaminants upon the size and solubility of calcite crystals precipitated by the bacterial hydrolysis of urea. Environ. Sci. Technol. 40: 1008-1014
2005
Mitchell, AC and Ferris FG. 2005. The co-precipitation of Sr into calcite precipitates induced by bacterial ureolysis in artificial groundwater: temperature and kinetic dependence. Geochim. Cosmochim. Acta 69: 4199-4210.
Phoenix VR, Renaut RW, Jones B, and Ferris FG. 2005. Bacterial S-layer preservation and rare arsenic-antimony-sulphide bioimmobilization in siliceous sediments from Champagne Pool hot spring, Waiotapu, New Zealand. J. Geol. Soc. 162: 323-331.
Ferris, F.G. 2005. Biogeochemical properties of bacteriogenic iron oxides. Geomicrobiol. J. 22: 79-85
Martinez, RE and Ferris, FG. 2005. Review of the surface chemical heterogeneity of bacteriogenic iron oxides: Proton and Cadmium Sorption. American J. Sci. 305: 854-871.
Kulczycki E, Fowle DA, Fortin D, and Ferris FG. 2005. Sorption of cadmium and lead by bacteria-ferrihydrite composites. Geomicrobiol. J. 22: 299-310.
2004
Kennedy, CB, Scott, SD, Ferris, FG. 2004 Hydrothermal phase stabilization of 2-line ferrihydrite by bacteria. Chem. Geol. 212, 269-277.
Ferris, FG, Hallbeck, L, Kennedy, CB, Pedersen, K. 2004. Geochemistry of
acidic Rio Tinto headwaters and role of bacteria in solid phase metal
partitioning. Chem. Geol. 212, 291-300.
James, RE, Ferris, FG. 2004 Evidence for microbial-mediated iron oxidation at a neutrophilic groundwater spring. Chem. Geol. 212, 301-311.
Yee, N, Fowle, DA, Ferris, FG. 2004. A Donnan potential model for metal
sorption onto Bacillus subtilis. Geochim. Cosmochim. Acta. 68, 3657-3664.
Fujita, Y, Redden, GD, Ingram, JC, Cortez, MM, Ferris, FG, Smith, RW. 2004. Strontium incorporation into calcite generated by bacterial ureolysis. Geochim. Cosmochim. Acta 68, 3261-3270.
Hallberg, R, Ferris, FG. 2004. Biomineralization by Gallionella.
Geomicrobiol. J. 21, 325-330.
Martinez, RE, Pedersen, K, Ferris, FG. 2004. Cadmium complexation by bacteriogenic iron oxides from a subterranean environment. J. Colloid Interface Sci. 275, 82-89
Ferris, FG, Phoenix, V, Fujita, Y, Smith, RW. 2004. Kinetics of calcite precipitation induced by ureolytic bacteria at 10 to 20 degrees C in artificial groundwater. Geochim. Cosmochim. Acta 68, 1701-1710.
Chatellier, X, West, MM, Rose, J, Fortin, D, Leppard, GG, Ferris, FG. 2004. Characterization of iron-oxides formed by oxidation of ferrous ions in the presence of various bacterial species and inorganic ligands. Geomicrobiol. J. 21, 99-112.
Yee, N, Benning, LG, Phoenix, VR, Ferris, FG. 2004 Characterization of metal-cyanobacteria sorption reactions: A combined macroscopic and infrared spectroscopic investigation. Environ. Sci. Technol. 38, 775-782.
Martinez, RE, Smith, DS, Pedersen, K, Ferris, FG. 2003. Surface chemical heterogeneity of bacteriogenic iron oxides from a subterranean environment. Environ. Sci. Technol. 37, 5671-5677.
Kennedy, CB, Scott, SD, Ferris, FG. 2003. Characterization of bacteriogenic iron oxide deposits from Axial Volcano, Juan de Fuca Ridge, northeast Pacific Ocean. Geomicrobiol. J. 20, 199-214.
Yee, N., Phoenix, V.R., Konhauser, K.O., Benning, L.G., and Ferris, F.G. 2003. The effect of cyanobacteria on silica precipitation at neutral pH: Implications for bacterial silicification in geothermal hot springs. Chem. Geol. 199, 83-90.
Smith, D.S. and F.G. Ferris. 2003. Specific surface chemical interactions between hydrous ferric oxide and iron reducing bacteria determined using pK spectra. Journal of Colloid and Interface Science 266, 60-67
C.B. Kennedy, S.D. Scott and F.G. Ferris. 2003. Ultrastructure and potential sub-seafloor evidence of bacteriogenic iron oxides from Axial Volcano, Juan de Fuca Ridge, north-east Pacific Ocean. FEMS Microbiology Ecology 43: 247-254
Phoenix, V.R., K. O. Konhauser and F. G. Ferris. 2003. Experimental study of iron and silica immobilization by bacteria in mixed Fe-Si systems: implications for microbial silicification in hot-springs. Can. J. Earth Sci. 40, 1669-1678.
Konhauser, K.O., T. Hamade, R. Raiswell, R.C. Morris, F.G. Ferris, G. Southam, and D.E. Canfield. 2002. Could bacteria have formed the Precambrian banded iron formations? Geology 30: 1079-1082.
Phoenix, V.R., R.E. Martinez,1 K.O. Konhauser, and F.G. Ferris. 2002. Characterization and Implications of the Cell Surface Reactivity of Calothrix sp. Strain KC97. Appl. Environ. Microbiol. 68: 4827-4834.
Roden, E.E., M.R. Leonardo, and F.G. Ferris. 2002. Immobiliztion of strontium during iron biomineralization coupled to dissimilatory hydrous ferric oxide reduction. Geochim. Cosmochim. Acta 66: 2823-2839.
Martinez, RE, Smith, DS, Kulczycki, E, Ferris, FG. 2002. Determination of intrinsic bacterial surface acidity constants using a donnan shell model and a continuous pK(a) distribution method. J. Colloid Interface Sci. 253, 130-139.
Kulczycki, E., F.G. Ferris, and D. Fortin. 2002. Impact of cell wall structure on the behavior of bacterial cells as sorbents of cadmium and lead. Geomicrobiol. J. 19, 553-565.
Martinez, R. and F.G. Ferris. 2001. Chemical equilibrium modeling techniques for the analysis of high resolution bacterial metal sorption data. Journal of Colloid and Interface Science, 243: 73-80.
Smith, D.S. and F.G. Ferris. 2001. Computational and experimental approaches to studying metal interactions with microbial biofilms. Methods in Enzymology 337: 225-242.
Smith, D.S. and F.G. Ferris. 2001. Proton binding by hydrous ferric oxide and aluminum oxide surfaces interpreted using fully optimized continuous pK spectra. Environmental Science and Technology, 35: 4637-4642.
Parmar, N., Y. Gorby, and F.G. Ferris. 2001. Formation of green rust and immobilization of nickel in response to bacterial reduction of hydrous ferric oxide. Geomicrobiology Journal. 18: 375-385.
Chatellier, X., D. Fortin, M.M. West, G.G. Leppard, and F.G. Ferris. 2001. Effect of the presence of bacterial surfaces during the synthesis of Fe oxides by oxidation of ferrous ions. European Journal of Mineralogy 13: 705-714.
Small, T.D., L.A. Warren, and F.G. Ferris. 2001. Influence of ionic strength on strontium sorption to bacteria, Fe(III)-oxide, and composite bacteria-Fe(III) oxide surfaces. Applied Geochemistry, 16: 939-946.
Sokolov, I., D.S. Smith, G.S. Henderson, Y.A. Gorby, and F.G. Ferris. 2001. Cell surface electrochemical heterogeneity of the Fe(III)-reducing bacteria Shewanella putrefaciens. Environmental Science and Technology 35: 341-347.
Warren, L.A., P. Maurice, N. Parmar, and F.G. Ferris. 2001. Microbially mediated carbonate precipitation: implications for interpreting calcite preciptation and for solid phase capture of inorganic contaminants. Geomicrobiology J. 18: 93-115.
Warren, L.A., P. Maurice, N. Parmar, and F.G. Ferris. 2001. Microbially mediated carbonate precipitation: implications for interpreting calcite preciptation and for solid phase capture of inorganic contaminants. Geomicrobiology J. 18: 93-115.
Ferris, F.G., R.O. Hallberg, B. Lyven, and K. Pedersen. 2000. Retention of strontium, cesium, lead, and uranium by bacterial iron oxides from a subterranean environment. Appl. Geochem. 15: 1035-1042.
Fujita, Y., F.G. Ferris, R.D. Lawson, F.S. Colwell, and R.W. Smith. 2000. Calcium carbonate precipitation by ureolytic subsurface bacteria. Geomicrobiology Journal 17: 305-318.
Parmar, N., L.A. Warren, E.E. Roden, and F.G. Ferris. 2000. Solid phase capture of strontium by the iron reducing bacteria Shewanella alga strain BrY. Chem. Geol. 169: 281-288.
Small, T.D. L.A. Warren, E.E. Roden, and F.G. Ferris. 1999. Sorption of strontium by bacteria, Fe(III) oxide and bacteria-Fe(III) oxide composites. Environmental Science and Technology 33: 4465-4470.
Cox, J.S., D.S. Smith, L.A. Warren, and F.G. Ferris. 1999. Characterizing heterogeneous bacterial surface functional groups using discrete affinity spectra for proton binding. Environmental Science and Technology 33: 4514-4521.
Ferris, F.G., K.O. Konhauser, B. Lyven, and K. Pedersen. 1999. Accumulation of metals by bacteriogenic iron oxides in a subterranean environment. Geomicrobiology J. 16: 181-192.
Warren, L.A. and F.G. Ferris. 1998. Continuum between sorption and precipitation of Fe(III) on bacterial cell surfaces. Environmental Science and Technology 32: 2331-2337.
Fortin, D., F.G. Ferris, and S.D. Scott. 1998. Formation of Fe-silicates and Fe-oxides on bacterial surfaces in samples collected near hydrothermal vents on the Southern Explorer Ridge in the northeast Pacific Ocean. Am. Mineralogist 83: 1399-1408.
Fortin, D, and F.G. Ferris. 1998. Precipitation of dissolved silica, sulfate, and iron on bacterial surfaces. Geomicrobiology J. 15: 309-324.
Warren, L.A. and F.G. Ferris. 1998. Solid phase partitioning of uranium and copper in the presence of hydrous ferric oxide and bacteria. Procedings of the 9th International Symposium on Water-Rock Interactions, G.B. Arehart and J.R. Hulston, editors, A.A. Balkema, Rotterdam, 115-117.
Howell, J.R., R.J. Donahoe, E.E. Roden, and F.G. Ferris. 1998. Effects of microbial iron oxide reduction on pH and alkalinity in anaerobic bicarbonate-buffered media: implications for metal mobility. Mineralogical Magazine 62A: 657-658.
Fortin, D., F.G. Ferris, and T.J. Beveridge. 1997. Surface-mediated mineral development by bacteria. Reviews in Mineralogy 35: 161-180.
Ferris, F.G. 1997. Formation of authigenic minerals by bacteria, In, Mineralogical Association of Canada short course on Biological-Mineralogical interactions, L. Groat and J.M. McIntosh, editors, Mineralogical Association of Canada, vol 25, 187-208.
Ferris, F.G., J.B. Thompson, and T.J. Beveridge. 1997. Modern freshwater stromatolites and thrombolites from Kelly Lake, British Columbia. PALIOS 12: 213-219.
Ferris, F.G. and E. Lowson. 1997. Ultrastructure and geochemistry of endolithic microorganisms in limestone of the Niagara Escarpment. Can. J. Microbiol. 43: 211-219.
Konhauser, K.O. and F.G. Ferris. 1996. Diversity of iron and silica precipitation by microbial mats in hydrothermal waters, Iceland: Implications for Precambrian iron formations. Geology 24: 323-326.
Ferris, F.G., L.G. Stehmeier, A. Kantzas, and F.M. Mourits. 1996. Bacteriogenic mineral plugging. Can. J. Petrol. Technol. 35: 56-61
Schultze-Lam, S., F.G. Ferris, B. Sherwood Lollar, and J.P. Gerits. 1996. Ultrastructure and seasonal growth patterns of microbial mats in a temperate climate saline-alkaline lake, Goodenough Lake, British Columbia, Canada. Can. J. Microbiol. 42: 147-161.
Schultze-Lam, S., F.G. Ferris, K.O. Konhauser, and R.G. Wiese. 1995 In situ silicification of an Icelandic hotspring microbial mat: implications for microfossil formation. Can. J. Earth Sci. 32: 2021-2026
Ferris, F.G., C.M. Fratton, J.P. Gerits, S. Schultze-Lam, and B. Sherwood Lollar. 1995. Microbial precipitation of a strontium carbonate phase at a groundwater discharge zone near Rock Creek, British Columbia, Canada. Geomicrobiol. J. 13: 57-67
Doig, F., B. Sherwood Lollar, and F.G. Ferris. 1995. Microbial communities in deep Canadian Shield groundwaters - an in situ biofilm experiment. Geomicrobiology J. 13: 91-101.
Konhauser, K.O., W.S. Fyfe, S. Schultze-Lam, and T.J. Beveridge. 1994. Iron phosphate precipitation by epilithic microbial biofilms in Arctic Canada. Can. J. Earth Sci. 31: 1320-1324.
Ferris, F.G., R.G. Wiese, and W.S. Fyfe. 1994. Precipitation of carbonate minerals by microorganisms: implications for silicate weathering and the global carbon dioxide budget. Geomicrobiol. J. 12: 1-13.
Konhauser, K.O., S. Schultze-Lam, F.G. Ferris, W.S. Fyfe, F.J. Longstaffe, and T.J. Beveridge. 1994. Mineral precipitation by epilithic biofilms in the Speed River, Ontario, Canada. Appl. Environ. Microbiol. 60: 549-553.
Ferris, F.G. 1993. Microbial biomineralization in natural environments. Earth Sci. 47: 233-250.
Konhauser, K.O., W.S. Fyfe, F.G. Ferris, and T.J. Beveridge. 1993. Metal sorption and mineral precipitation by bacteria in two Amazonian river systems: Rio Solimoes and Rio Negro, Brazil. Geology 21: 1103-1106.
Ferris, F.G., T.R. Jack, and B.J. Bramhill. 1992 Corrosion products associated with attached bacteria at an oil field water injection plant. Can. J. Microbiol. 38: 1320-1324.
Tazaki, K., F.G. Ferris, R.G. Wiese, and W.S. Fyfe. 1992. Iron and graphite associated with fossil bacteria in chert. Chem. Geol. 95: 313-325.
Voordouw, G., V. Niviere, F.G. Ferris, PM. Fedorak, and D.W.S. Westlake. 1990. Distribution of hydrogenase genes in Desulfovibrio spp. and their use in identification of species from oil field environments. Appl. Environ. Microbiol. 56: 3748-3754.
Flemming, C.A., F.G. Ferris, T.J. Beveridge, and G.W. Bailey. 1990. Remobilization of toxic heavy metals adsorbed to bacterial wall-clay composites. Appl. Environ. Microbiol. 56: 3191-3203.
Thompson, J.B. and F.G. Ferris. 1990. Cyanobacterial precipitation of gypsum, calcite, and magnesite from natural alkaline lake water. Geology 18: 995-998.
Ferris, F.G. 1990. Immobilization and mineralization of metallic ions by bacteria. Energy Sources 12: 371-375.
Thompson, J.B., F.G. Ferris, and D. Smith. 1990. Geomicrobiology and sedimentology of the mixolimnion and chemocline in Fayetteville Green Lake, New York. Palios 5: 52-75.
Tazaki, K., F.G. Ferris, R.G. Wiese, and W.S. Fyfe. 1990. Bacterial lepidocrocite and hematite in chert. Soc. Geol. Mem. 85: 35-44.
Mullen, M.D., D.C. Wolf, F.G. Ferris, T.J. Beveridge, C.A. Flemming, and G.W. Bailey. 1989. Bacterial sorption of heavy metals. Appl. Environ. Microbiol. 55: 3143-3149.
Walker, S.G., C.A. Flemming, F.G. Ferris, T.J. Beveridge, and G.W. Bailey. 1989. Physicochemcial interaction of Escherichia coli cell envelopes and Bacillus subtilis cell walls with two clays and ability of the composite to immobilize heavy metals from solution. Appl. Environ. Microbiol. 55: 2976-2984
Ferris, F.G., S. Schultze, T.C. Witten, W.S. Fyfe, and T.J. Beveridge. 1989. Metal interactions with microbial biofilms in acidic and neutral pH environments. Appl. Environ. Microbiol. 55: 1249-1257.
Ferris, F.G., W.S. Fyfe, T. Witten, S. Schultze, and T.J. Beveridge. 1989. Effect of mineral substrate hardness on the population density of epilithic microorganisms in two Ontario rivers. Can. J. Microbiol. 35: 744-747.
Ferris, F.G., K. Tazaki, and W.S. Fyfe. 1989. Iron oxides in acid mine drainage environments and their association with bacteria. Chem. Geol. 74: 321-330.
Dubreuil, J.D., S.M. Logan, S. Cubbage, D. Ni Eidhin, W.D. McCubbin, C.M. Kay, T.J. Beveridge, F.G. Ferris, and T.J. Trust. 1988. Structural and biochemical analyses of a surface array protein of Campylobacter fetus. J. Bacteriol. 170: 4165-4173.
Ferris, F.G., W.S. Fyfe, and T.J. Beveridge. 1988. Metallic ion binding by Bacillus subtilis: Implications for the fossilization of microorganisms. Geology 16: 149-152.
Ferris, F.G., W.S. Fyfe, and T.J. Beveridge. 1987. Bacteria as nucleation sites for authigenic minerals in a metal contaminated lake sediment. Chem. Geol. 63: 225-232.
Ferris, F.G., W.S. Fyfe, and T.J. Beveridge. 1987. Manganese-oxide deposition in a hot spring microbial mat. Geomicrobiol. J. 5: 33-42.
Ferris, F.G., T.J. Beveridge, and W.S. Fyfe. 1986. Iron-silica crystallite nucleation by bacteria in a geothermal sediment. Nature (London) 320: 609-611.
Ferris, F.G. and T.J. Beveridge. 1986. Physicochemical roles of soluble metallic ions in the outer membrane of Escherichia coli. Can. J. Microbiol. 32: 594-601.
Ferris, F.G. and T.J. Beveridge. 1986. Site specificity of metallic ion binding in Escherichia coli lipopolysaccharide. Can. J. Microbiol. 32: 52-55.
Ferris, F.G. and T.J. Beveridge. 1985. Binding of a paramagnetic metal cation to Escherichia coli K-12 outer membrane vesicles. FEMS Microbiol. Lett. 24: 43-46.
Ferris, F.G., T.J. Beveridge, M.L. Marceau-Day, and A.D. Larson. 1984. Structure and cell envelope associations of flagellar basal complexes of Vibrio cholera and Campylobacter fetus. Can. J. Microbiol. 30: 322-333.
McCaig, R. and F.G. Ferris. 1984. The development of the electron microscope and its application to the brewing industry. J. Am. Brew. Chem. 42: 152-159.