Publications

Papers from the Kostka Lab

This is the most up-to-date list of Kostka Lab publications, starting with the most recent papers in review. To download a .pdf copy of published papers, click on the .pdf link to the article below the citation.

Joel E. Kostka, Om Prakash, Will A. Overholt, Stefan J. Green, Gina Freyer, Andy Canion, Jonathan Delgardio, Nikita Norton, Terry C. Hazen and Markus Huettel. 2011. Hydrocarbon-Degrading Bacteria and the Bacterial Community Response in Gulf of Mexico Beach Sands Impacted by the Deepwater Horizon Oil Spill. Applied and Environmental Microbiology 77: 7962-7974.

Huettel, M., Chipman, L., Podgorski, D., Green, S., Magen, C., Niggemann, J., Ziervogel, K., Arnosti, C., Berg, P., Cooper, W. T., Dittmar, T., Kostka, J.E. 2010. Permeable shelf sands remove large amounts of dissolved organic carbon from coastal waters. Nature (in review).

T.A. Vishnivetskaya, C.C. Brandt, A.S. Madden, M.S. Drake, J.E. Kostka, D.M. Akob, K. Kuesel, and A.V. Palumbo. Microbial Community Changes in Response to Ethanol or Methanol Amendments for U(VI) Reduction. Applied and Environmental Microbiology (In press).

J. Sitte, D. M. Akob, C. Kaufmann, K. Finster, D. Banerjee, E.-M. Burkhardt, J. E. Kostka, A. C. Scheinost, G. Büchel and K. Küsel. 2010. Microbial Links between Sulfate Reduction and Metal Retention in Uranium- and Heavy Metal-Contaminated Soil. Applied and Environmental Microbiology 76: 3143-3152.


D. M. Akob, M. S. Humphrys, S. J. Green, L. Kerkhof, K.-J. Chin, K. Küsel, D. B. Watson, A. V. Palumbo, and J. E. Kostka. 2010. Metabolically Active Bacteria Mediating Electron Flow during Bioremediation of Uranium-Contaminated Subsurface Sediments. Geochimica et Cosmochimica Acta (in review).

J. E. Kostka and S.J. Green. 2010. Microorganisms and processes linked to uranium reduction and immobilization. In: Microbial Metal and Metalloid Metabolism: Advances and Applications, J. F. Stolz, Ronald S. Oremland (co-edit’s), American Society for Microbiology Press (in press).

T. M. Gihring, A. Canion, A. Riggs, M. Huettel, and J. E. Kostka. 2010. Denitrification in shallow, sublittoral Gulf of Mexico permeable sediments. Limnology and Oceanography 54: 43-54.


E.-M. Burkhardt, D.M. Akob, S. Bischoff, J. Sitte, J.E. Kostka, D. Banerjee, A.C. Scheinost, and Kirsten Kuesel. 2010. Impact of biostimulated redox processes on metal dynamics in an iron-rich creek soil of a former uranium mining area. Environmental Science & Technology 44: 177-183.

H. Gao, F. Schreiber, G. Collins, M. M. Jensen, J. E. Kostka, G. Lavik, D. de Beer, H. Zhou, M. M. M. Kuypers. 2010. Aerobic denitrification in permeable Wadden Sea sediments. The ISME Journal 4: 417-426.


S. J. Green, O. Prakash, T. M. Gihring, D. M. Akob, P. Jasrotia, P. M. Jardine, D. B. Watson, S. D. Brown, A. V. Palumbo, and J. E. Kostka. 2010. Denitrifying bacteria isolated from terrestrial subsurface sediments exposed to mixed-waste contamination. Applied and Environmental Microbiology 76: 3244-3254.


W. Wu, J. Carley, S.J. Green, J. Luo, S. D. Kelly, K. Lowe, T. Mehlhorn, S. Carroll, B. Boonchayanant, D. Watson, K. M. Kemner, J. Zhou, P. K. Kitanidis, J.E. Kostka, P. M. Jardine, and C. S. Criddle. 2010. Effects of nitrate on the stability of uranium in a bioreduced region of the subsurface. Environmental Science & Technology 44: 5104-5111.


L. Chipman, D. Podgorski, S.J. Green, J.E. Kostka, W. Cooper, and M. Huettel. 2010. Decomposition of plankton-derived DOM in permeable coastal sediments. Limnology and Oceanography 55: 857-871.


T.M. Gihring, G. Lavik, M. Kuypers, and J.E. Kostka. 2010. Direct determination of nitrogen cycling rates and pathways in Arctic fjord sediments (Svalbard, Norway). Limnology and Oceanography 55: 740-752.


O. Prakash, T. M. Gihring, D. D. Dalton, K.-J. Chin, S. J. Green, D. M. Akob, G. Wanger, and J. E. Kostka. 2010. Geobacter daltonii sp. nov., an iron(III)- and uranium(VI)-reducing bacterium isolated from the shallow subsurface exposed to mixed heavy metal and hydrocarbon contamination. International Journal of Systematic and Evolutionary Microbiology 60: 546-553.


T.M. Gihring, M. Humphrys, H.J. Mills, M. Huettel, J.E. Kostka. 2009 Identification of phytodetritus-degrading microbial communities in sublittoral Gulf of Mexico sands. Limnol. Oceanogr., 54: 1073–1083.


Ribeiro, F.R., J.D. Fabris, J. E. Kostka, P. Komadel, and J. W. Stucki. 2009. Comparisons of Structural Iron Reduction in Smectites by Bacteria and Dithionite: II. A variable-temperature Mössbauer spectroscopic study of Garfield nontronite. Pure and Applied Chemistry 81: 1499-1509.


J.-H. Hyun, J. S. Mok, H. Y. Cho, S. H. Kim, J. E. Kostka. 2009 Rapid organic matter mineralization coupled to iron cycling in intertidal mud flats of the Han River estuary, Yellow Sea. Biogeochemistry 92: 231–224.


S. Winch, H. J. Mills, J. E. Kostka, D. Fortin, D. R.S. Lean. 2009 Identification of sulfate-reducing bacteria in methylmercury contaminated mine tailings by analysis of SSU ribosomal RNA genes. FEMS Microbiol. Ecol. FEMS Microbiol Ecol 68: 94–107.


H. J. Mills, E. Hunter, M. Humphrys, L. Kerkhof, L. McGuinness, M. Huettel, and J. E. Kostka. 2008. Characterization of Nitrifying, Denitrifying, and Overall Bacterial Community Structure in Permeable Marine Sediments of the Northeastern Gulf of Mexico. Applied and Environmental Microbiology 74: 4440-4453.


D. M. Akob, H. J. Mills, T. M. Gihring, L. Kerkhof, J. W. Stucki, Kuk-Jeong Chin, Kirsten Kuesel, Anthony V. Palumbo, David B. Watson, and Joel E. Kostka. 2008. Functional diversity and electron donor dependence of microbial populations capable of U(VI) reduction in radionuclide contaminated subsurface sediments. Applied and Environmental Microbiology 74: 3159-3170.


M. Bloethe, D.M. Akob, J.E. Kostka, K. Walter, H.L. Drake, and K. Kuesel. 2008. Heterogeniety of Fe(III)-reducing microorganisms in coal mining lake sediments caused by a pH gradient. Applied and Environmental Microbiology 74: 1194-1197.


Li, O., K. Lee, J.E. Kostka, J.W. Stucki, and W. Bleam. 2008. Iron L-edge studies of smectite clays. Clays and Clay Minerals (In press).

J. W. Stucki, K. Lee, B. A. Goodman, and J. E. Kostka. 2007. Effects of in situ biostimulation on iron mineral speciation in a sub-surface soil. Geochimica Cosmochimica Acta 71: 835-843.


D. M. Akob, H. J. Mills, D. L. Swofford, J. E. Kostka. 2007. Metabolically-Active Microbial Communities in Uranium-Contaminated Subsurface Sediments. FEMS Microbiology Ecology 59: 95-107.


J.-H. Hyun, A. C. Smith and J. E. Kostka. 2007. Relative significance of sulfate- and iron(III) reduction to organic matter mineralization and its controls in contrasting habitats of the Georgia saltmarsh. Applied Geochemistry 22:2637-2651.


L. Edwards, K. Kuesel, H. Drake, and J.E. Kostka. 2007. Electron flow in acidic subsurface sediments cocontaminated with nitrate and uranium during nuclear weapons production. Geochimica et Cosmochimica Acta 71: 643-654.


E.M. Hunter, H.J. Mills, and J.E. Kostka. 2006. Microbial community diversity associated with carbon and nitrogen cycling in permeable shelf sediments. Applied and Environmental Microbiology 72: 5689-5701.


J.W. Stucki and J.E. Kostka. 2006. Microbial reduction of iron in smectite. Compte Rendu Geosciences 338: 468-475.

K. Lee, J.E. Kostka, and J.W. Stucki. 2006. Comparisons of structural iron reduction in smectites by bacteria and dithionite: an infrared spectroscopic study. Clays and Clay Minerals 54: 195-208.


S. G. Wakeham, A. P. McNichol, J.E. Kostka, and T.K. Pease. 2006. Natural-abundance radiocarbon as a tracer of assimilation of petroleum carbon by bacteria in saltmarsh sediments. Geochimica et Cosmochimica Acta 70: 1761-1771.


E. Kristensen and J.E. Kostka. 2005. Macrofaunal burrows and irrigation in marine sediment: microbiological and biogeochemical interactions. In: Interactions between Macro- and Microorganisms in Marine Sediments, E. Kristensen, J.E. Kostka, R. Haese (edit's), American Geophysical Union, Washington, DC, 390 pp.


S.L. Dollhopf, J. Hyun, A.C. Smith, H.J. Adams, S. O'Brien, and J.E. Kostka. 2005. Quantification of ammonia-oxidizing bacteria and controls of nitrification in saltmarsh sediments. Applied and Environmental Microbiology 71:240-246.


C. Koretsky, A. Roychoudhury, E. Voillier, C. Moore, J.E. Kostka, T. DiChristina, P. Van Cappellen. 2005. Salt marsh pore water geochemistry does not correlate with microbial community structure. Estuarine, Coastal, and Shelf Science 62:233.


A.C. Smith, J.E. Kostka, R. Devereux, and D.F. Yates. 2004. Seasonal composition and activity of sulfate-reducing prokaryotic communities in seagrass bed sediments. Aquatic Microbial Ecology 37: 183-195.


Y. Furukawa, A.C. Smith, J.E. Kostka, J. Watkins, and C.R. Alexander. 2004. Quantification of macrobenthic impacts on diagenesis using a multicomponent inverse model in saltmarsh sediments. Limnology and Oceanography 49: 2058-2072.


N.N. North, S.L. Dollhopf, L. Petrie, J.D. Istok, D.L. Balkwill, and J.E. Kostka. 2004. A Change in Bacterial Community Structure During in situ Biostimulation of Subsurface Sediment Cocontaminated with Uranium and Nitrate. Applied and Environmental Microbiology 70: 4911-4920.


L. Petrie, N.N. North, S.L. Dollhopf, D.L. Balkwill, and J.E. Kostka. 2003. Enumeration and characterization of iron(III)-reducing microbial communities from acidic subsurface sediments contaminated with uranium (VI). Applied and Environmental Microbiology 69: 7467-7479.


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

B. Gribsholt, J.E. Kostka, and E. Kristensen. 2003. Impact of fiddler crabs and plant roots on sediment biogeochemistry in a Georgia salt marsh. Marine Ecology Progress Series 259: 237-251.


A. Roychoudhury, J.E. Kostka, P. Van Cappellen. 2003. Pyritization: A palaeoenvironmental and redox proxy reevalauted. Estuarine, Coastal, and Shelf Science 57:1183-1193.


A. Roychoudhury, P. Van Cappellen, J.E. Kostka, E. Voillier. 2003. Kinetics of microbially-mediated reactions: dissimilatory sulfate reduction in saltmarsh sediments (Sapelo Island, Georgia, USA). Estuarine, Coastal, and Shelf Science 56: 999-1008.


J. Cervini-Silva, J.E. Kostka, R.A. Larson, J.W. Stucki, and J. Wu. 2003. Promoted dehydrochlorination of 1,1,1-trichloroethane and pentachloroethane by microbially-reduced ferruginous smectite. Environmental Toxicology and Chemistry 22: 1046-1050.


R.A. Jahnke, C.R. Alexander, and J.E. Kostka. 2003. Advective pore water input of nutrients to the Satilla River Estuary, Georgia, USA. Estuarine, Coastal and Shelf Science 56:641-653.


J.E. Kostka, D. Dalton, H. Skelton, S. Dollhopf, and J.W. Stucki. 2002. Growth of iron(III)-reducing bacteria on clay minerals as the sole electron acceptor and a growth yield comparison on a variety of oxidized iron forms. Applied and Environmental Microbiology 68: 6256-6262.


J.E. Kostka, B. Gribsholt, E. Petrie, D. Dalton, H. Skelton, and E. Kristensen. 2002. The rates and pathways of carbon oxidation in bioturbated saltmarsh sediments. Limnology & Oceanography 47:230-240.


J.E. Kostka, A. Roychoudhury, P. Van Cappellen. 2002. Rates and controls of anaerobic microbial respiration across spatial and temporal gradients in saltmarsh sediments. Biogeochemistry 60: 49-76.


B.J. Campbell, C. Jeanthon, J.E. Kostka, A. Reysenbach, G.W. Luther, and S.C. Cary. 2001. Growth and phylogenetic properties of novel epsilon Proteobacteria enriched from Alvinella pompejana and deepsea hydrothermal vents. Applied and Environmental Microbiology 67:4566-4572.


J.C. Xu, J.W. Stucki, J. Wu, J.E. Kostka, and G.K. Sims. 2001. Fate of Atrazine and Alachlor in redox-treated ferruginous smectite. Environmental Toxicology and Chemistry 20: 2717-2724.

J.K. King, J.E. Kostka, M.E. Frischer, F.M. Saunders, and R.A. Jahnke. 2001. Quantitative relationship that demonstrates mercury methylation rates in marine sediments are based on community composition and activity of sulfate-reducing bacteria. Environmental Science and Technology 35: 2491-2496.


J. K. King, J. E. Kostka, M. E. Frischer, and F. M. Saunders. 2000. Sulfate-Reducing Bacteria Methylate Mercury at Variable Rates in Pure Culture and in Marine Sediments. Applied and Environmental Microbiology 66: 2430-2437.


Kostka, J.E., Haefele, E., Viehweger, R., and J.W. Stucki. Respiration and Dissolution of Fe(III)-containing Clay Minerals by Bacteria. 1999. Environmental Science and Technology 33:3127-3133.


Kostka, J.E., Wu, J.; Nealson, K.H.; and J.W. Stucki. 1999. The impact of structural Fe(III) reduction by bacteria on the surface chemistry of clay minerals. Geochimica et Cosmochimica Acta 63:3705-3713.


Kostka, J.E., Thamdrup, B., Glud, R.N, and D.E. Canfield. 1999. Rates and Pathways of Carbon Oxidation in Permanently Cold Arctic Sediments. Marine Ecology Progress Series 180: 7-21.


Kostka, J.E., and K.H. Nealson. 1998. Isolation, cultivation, and characterization of iron- and manganese-reducing bacteria. Chapter 3. In: Techniques in Microbial Ecology, edit. by R.S. Burlage et al., Oxford University Press, New York, 468 pp.

Kostka, J.E., J.W. Stucki, K.H. Nealson, and J. Wu. 1996. Reduction of structural Fe(III) in smectite by a pure culture of Shewanella putrefaciens strain MR-1. Clays and Clay Minerals 44: 522-529.


Kostka, J.E., and K.H. Nealson. 1995. Dissolution and reduction of magnetite by bacteria. Environmental Science and Technology 29: 2535-2540.

Kostka, J.E., and G.W. Luther III. 1995. Seasonal cycling of Fe in saltmarsh sediments. Biogeochemistry 29:159-181.


Kostka, J.E., G.W. Luther, and K.H. Nealson. 1995. Chemical and biological reduction of soluble Mn(III): potential importance as an environmental oxidant. Geochim.Cosmochim. Acta 59: 885-894.


Kostka, J.E., and G.W. Luther III. 1994. Partitioning and speciation of solid phase Fe in saltmarsh sediments. Geochim. Cosmochim. Acta 58: 1701-1710.

Perry, K.A., J.E. Kostka, G.W. Luther III, and K.H. Nealson. 1993. Mediation of sulfur speciation by a Black Sea facultative anaerobe. Science 259:801-803.


Luther, G.W., J.E. Kostka, T.M. Church, B. Sulzberger, and W. Stumm. 1992. Seasonal Fe cycling in the salt marsh sedimentary environment: the importance of ligand complexes with Fe(II) and Fe(III) in the dissolution of Fe(III) minerals and pyrite, respectively. Marine Chemistry 40:81-103.


Luther, G.W., T.G. Ferdelman, J.E. Kostka, E.J. Tsamakis, and T.M. Church. 1991.Temporal and spatial variability of reduced sulfur species and porewater parameters in salt marsh sediments. Biogeochemistry 14:57-88.


Luther, G.W., T.G. Ferdelman, C.H. Culberson, J.E. Kostka, and J. Wu. 1991. Iodine chemistry in the water column of the Chesapeake Bay: evidence for organic iodine forms. Est. Coast. Shelf Sci. 32:267