Reston Microbiology Lab


Peer-Reviewed Papers


James, J. B., A. L. Gunn, and D. M. Akob. 2019. Binning Singletons: Mentoring Through Networking at ASM Microbe 2019. mSphere, in press (mSphere00643-19).

Bushman, T. J., D. M. Akob, T. Bohu, A. Beyer, T. Woyke, N. Shapiro, A. Lapidus, H.-P. Klenk, and K. Küsel. 2019. Draft Genome Sequence of the Mn(II)-oxidizing bacterium Oxalobacteraceae sp. strain AB_14. Microbial Resource Announcements, 8(43): e01024-01019,

Akob, D. M., A. C. Mumford, D. S. Dunlap, and A. T. Poret-Peterson. 2019. Phylogenetic Techniques in Geomicrobiology. In J. Kenney, H. Veeramani, & D. Alessi (Eds.), Analytical Geomicrobiology: A Handbook of Instrumental Techniques (pp. 360-404). Cambridge: Cambridge University Press,

Ouyang, B., D. Renock, D. M. Akob. 2018. Effects of organic ligands and background electrolytes on barite dissolution. Geochemica et Cosmochimica Acta, 256:6-19,

Rose, L. D., D. M. Akob, S. Tuberty, J. Colby, D. Martin, S. Corsi, L. De Cicco. 2019. Use of high-throughput screening results to prioritize chemicals for potential adverse biological effects within a West Virginia Watershed. Science of the Total Environment, 677: 362-372

Hädrich, A., M. Taillefert, D. M. Akob, R. Cooper, U. Litzba, F. E. Wagner, S. Nietzsche, V. Ciobota, P. Rösch, J. Popp, and K. Küsel. 2019. Microbial Fe(II) oxidation by Sideroxydans lithotrophicus ES-1 in the presence of Schlöppnerbrunnen fen-derived humic acids. FEMS Microbiology Ecology 95(4): fiz034,


Shelton, J.L.K., R. S. Andrews, D. M. Akob, C. A. DeVera, A. C. Mumford, J. E. McCray, J. C. McIntosh. 2018. Microbial community composition of a hydrocarbon reservoir 40 years after a CO2 enhanced oil recovery flood. FEMS Microbiology Ecology, 94(10): fiy153

Smalling, K.L., Bunnell, J.F., Cohl, J., Romanok, K.M., Hazard, L., Monsen, K., Akob, D.M., Hansen, A., Hladik, M.L., Abdallah, N., Ahmed, Q., Assan, A., De Parsia, M., Griggs, A., McWayne-Holmes, M., Patel, N., Sanders, C., Shrestha, Y., Stout, S., and Williams, B., 2018. An initial comparison of pesticides and amphibian pathogens between natural and created wetlands in the New Jersey Pinelands, 2014–16: U.S. Geological Survey Open-File Report 2018–1077, 18 p.,

Akob, D. M., J. M. Sutton, J. L. Fierst, K. B. Haase, S. Baesman, G. W. Luther III, L. G. Miller, and R. S. Oremland. 2018. Acetylenotrophy: A Hidden but Ubiquitous Microbial Metabolism? FEMS Microbiology Ecology Mini-Review (invited), 94(8): 1-14,

Mumford, A.C., D. M. Akob, J. G. Klinges, I. M. Cozzarelli. 2018. Common hydraulic fracturing fluid additives alter the structure and function of anaerobic microbial communities. Applied and Environmental Microbiology, 84: e02729-17. [Link]


Cozzarelli, I. M., D. M. Akob, M. J. Baedecker, T. Spencer, J. Jaeschke, D. S. Dunlap, A. C. Mumford, A. T. Poret-Peterson, D. B. Chambers. 2017. Degradation of MCHM (4-methylcyclohexanemethanol) in Sediments from Elk River, West Virginia. Environmental Science and Technology, 51(21): 12139-12145. [Link]

Akob, D. M., S. M. Baesman, J. M. Sutton, J. L. Fierst, A. C. Mumford, Y. Shrestha, A. T. Poret-Peterson, S. Bennett, D. S. Dunlap, K. B. Haase, R. S. Oremland. 2017. Detection of Diazotrophy in the Acetylene-Fermenting Anaerobe, Pelobacter strain SFB93. Applied and Environmental Microbiology, 83(17): e01198-17. [Link]

Lazar, C.S., W. Stoll, R. Lehmann, M. Herrmann, V. Schwab, D. M. Akob, A. Nawaz, T. Wubet, F. Buscot, K.-U. Totsche, and K. Küsel. 2017. Archaea in carbonate-rock groundwater ecosystems differ with regard to autotrophy vs. heterotrophy. Archaea, 2017: 1-13. [Link]

Orem, W., M. Varonka, L. Crosby, K. Haase, K. Loftin, M. Hladik, D. M. Akob, C. Tatu, A. Mumford, J. Jaeschke, A. Bates, T. Schell, and I.M. Cozzarelli. Organic Geochemistry and Toxicology of a Stream Impacted by Unconventional Oil and Gas Wastewater Disposal Operations. Applied Geochemistry, 80: 155-167. [Link]

Sutton, J. M., S. M. Baesman, J. L. Fierst, A. T. Poret-Peterson, R. S. Oremland, D. S. Dunlap, and D. M. Akob. Complete Genome Sequences of two Acetylene Fermenting Pelobacter acetylenicus Strains. Genome Announcements, 5:e01572-16. [Link]

Sutton, J. M., S. M. Baesman, J. L. Fierst, A. T. Poret-Peterson, R. S. Oremland, D. S. Dunlap, and D. M. Akob. Complete Genome Sequence of the Acetylene Fermenting Pelobacter strain SFB93. Genome Announcements, 5:e01573-16. [Link]

Fahrenfeld, N.L., H. Delos Reyes, A. Eramo, D. M. Akob, I.M. Cozzarelli, and A. Mumford. 2017. Shifts in microbial community structure and function in surface waters impacted by unconventional oil and gas wastewaters revealed by metagenomics, Science of the Total Environment, 580: 1205–1213. [Link]

Cozzarelli, I. M., K.J. Skalak, D. B. Kent, M.A. Engle, A. Benthem, A.C. Mumford, K. Haase, A. Farag, D. Harper, S. C. Nagel, L.R. Iwanowicz, W. H. Orem, D. M. Akob, J. B. Jaeschke, J. Galloway, M. Kohler, D. L. Stoliker, G. Jolly. 201. Environmental Signatures and Effects of a Spill of Untreated Oil and Gas Wastewater in the Williston Basin, North Dakota. Science of the Total Environment, 579C: 1782-1795. [Link]

Ouyang, B., D. M. Akob, D. S. Dunlap, and D. Renock. 2017. Microbially mediated barite dissolution in anoxic brines. Applied Geochemistry, 76: 51-59. [Link]


Shelton, J. L., D. M. Akob, J. C. McIntosh, N. Fierer, J. R. Spear, P. D. Warwick, J. E. McCray. Environmental Drivers of Differences in Microbial Community Structure in Crude Oil Reservoirs across a Methanogenic Gradient. Frontiers in Microbiology 7:1535. [Link].

Akob, D.M., A. Mumford, W. H. Orem, M. Engle, J.G. Klinges, D. B. Kent and I. M. Cozzarelli. Wastewater Disposal from Unconventional Oil and Gas Development Degrades Stream Quality at a West Virginia Injection Facility. Environmental Science and Technology, 50 (11): 5517–5525. [Link].

Kassotis, C.D., L.R. Iwanowicz, D.M. Akob, I.M. Cozzarelli, A.C. Mumford, W.H. Orem, and S.C. Nagel. 2016. Endocrine Disrupting Activities of Surface Water Associated with a West Virginia Oil and Gas Industry Wastewater Disposal Site. Science of the Total Environment, 557–558: 901–910. [Link].

Akob, D. M., Sumy, D., Hermes, J., and Horsfall, F. 2016. CAREER PROFILES: Options and Insights. Oceanography 29(1): 106-110. [Link]

Bohu, T., D.M. Akob, M. Abratis, C.S. Lazar, and K. Küsel. 2016. Biological low pH Mn(II) oxidation in a manganese deposit influenced by acidic heavy metal-rich groundwater. Applied and Environmental Microbiology, 82 (10): 3009 –3021. [Link]

Fabisch, M., G. Freyer, C. A. Johnson, G. Büchel, D. M. Akob, T. R. Neu, and K. Küsel. 2016. Dominance of ‘Gallionella capsiferriformans’ and heavy metal association with Gallionella-like stalks in metal-rich pH 6 mine water discharge. Geobiology, 14: 68–90. [Link]


Bohu, T., C. Santelli, D. M. Akob, T. R. Neu, V. Ciobota, P. Rösch, J. Popp, S. Nietzsche, and K. Küsel. 2015. Characterization of pH dependent Mn(II) oxidation strategies and acidic pH bixbyite formation by Mesorhizobium australicum T-G1. Frontiers in Microbiology, 6: e734. [Link]

Akob, D. M., I. M. Cozzarelli, D. S. Dunlap, E. L. Rowan and M. M. Lorah. 2015. Organic and Inorganic Composition and Microbiology of Produced Waters from Pennsylvania Shale Gas Wells. Applied Geochemistry, 60:116-125. [Link]

Beulig, F., V. B. Heuer, D. M. Akob, B. Viehweger, M. Elvert, M. Herrmann, K.-U. Hinrichs, and K. Küsel. 2015. Carbon flow from volcanic CO2 into soil microbial communities of a wetland mofette. The ISME Journal, 9(3): 746-59. [Link]

Herrmann. M., A. Rusznyák, D. M. Akob, I. Schulze, S. Opitz, K.-U. Totsche, and K. Küsel. 2015. Large fractions of CO2-fixing microorganisms in pristine limestone aquifers appear to be involved in the oxidation of reduced sulfur and nitrogen compounds. Applied and Environmental Microbiology, 81(7): 2384-2394. [Link]

Ritter, D., J. C. McIntosh, D. Vinson, E. Barnhart, D. M. Akob, M. Fields, A. Cunningham, W. Orem. Enhanced Microbial Coalbed Methane Generation: A Review of Potential and Limitations. International Journal of Coal Geology, 146: 28–41. [Link]


Akob, D. M., T. Bo Hu, A. Beyer, F. Schäffner, M. Händel, D. Merten, G. Büchel, K.-U. Totsche, and K. Küsel. 2014. Identification of Mn(II)-oxidizing bacteria from a low pH contaminated former uranium mine. Applied and Environmental Microbiology, 80(16): 5086-5097. [Link]


Fabisch, M., F. Beulig, D. M. Akob, and K. Küsel. 2013. Surprising abundance of Gallionella-related iron oxidizers in creek sediments at pH 4.4 or at high heavy metal concentrations. Frontiers in Terrestrial Microbiology, 4: 390. [Link]

Keiner, R., A. Rusznyak, D. M. Akob, S. Hanf, K. Küsel, J. Popp, and T. Frosch. 2013. Raman spectroscopy – an innovative and versatile tool to follow the respirational activity and carbonate biomineralization of important cave bacteria. Analytical Chemistry, 85(18): 8708–8714 (DOI: 10.1021/ac401699d).

Risse-Buhl, U., M. Herrmann, D. M. Akob, P. Geesink, N. Pizani, W. Schönborn, K.-U. Totsche and K. Küsel. 2012 Phagotrophic protist diversity in the groundwater of a karstic aquifer - morphological and molecular analysis. Journal of Eukaryotic Microbiology, 60(5): 467–479 (DOI: 10.1111/jeu.12054.


Gray, S. M., D. M. Akob, S. J. Green, and J. E. Kostka. 2012. The predictability of bacterial composition within the Sarracenia purpurea model system: local scale differences and relationships with the other members of the food web. PLoS One 7(12): e50969.

Akob, D. M.*, S. H. Lee*, M. Sheth, K. Küsel, D. B. Watson, A.V. Palumbo, J.E. Kostka, and K.-J. Chin. 2012. Gene expression correlates with process rates quantified for sulfate- and Fe(III)-reducing bacteria in U(VI)-contaminated sediments. Frontiers in Terrestrial Microbiology, 3:280. *Equal contribution.

Rusznyák, A., D. M. Akob, S. Nietzsche, K. Eusterhues, K. U. Totsche, T. R. Neu, T. Frosch, J. Popp, R. Keiner, J. Geletneky, L. Katzschmann, E.-D. Schulze, and K. Küsel. 2012. Calcite biomineralization by bacterial isolates from the recently discovered pristine karstic Herrenberg Cave. Applied and Environmental Microbiology 78(4): 1157–1167.


Akob, D. M.nd K. Küsel. 2011. Where microorganisms meet rocks in the Earth's Critical Zone. Biogeosciences 8, 3531-3543.

Akob, D. M., L. Kerkhof, K. Küsel, D. B. Watson, A. V. Palumbo, and J. E. Kostka. 2011. Linking specific heterotrophic bacterial populations to bioreduction of uranium and nitrate using stable isotope probing in contaminated subsurface sediments. Applied and Environmental Microbiology. 77(22):8197-8200

Burkhardt, E.-M., S. Bischoff, D. M. Akob, G. Büchel, and K. Küsel. 2011. Heavy metal tolerance of Fe(III)-reducing microbial communities in a contaminated creek bank soil. Applied and Environmental Microbiology 77(9): 3132-3136.


Lu, S., S. Gischkat, M. Reiche, D. M. Akob, K. B. Hallberg, and K. Küsel. 2010. Ecophysiology of Fe-cycling Bacteria in Acidic Sediments. Applied and Environmental Microbiology 76 (24): 8174-8183.

Vishnivetskaya, T. A., C. C. Brandt, A. S. Madden, M. S. Drake, J. E. Kostka, D. M. Akob, K. Küsel, and A. V. Palumbo. 2010. Microbial Community Changes in Response to Ethanol or Methanol Amendments for U(VI) Reduction. Applied and Environmental Microbiology 76(17): 5728-5735.

Sitte, J., D. M. Akob, C. Kaufmann, K. Finster, D. Banerjee, E.-M. Burkhardt, J. E. Kostka, A. Scheinost, Georg 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(10): 3143–3152.

Green, S. J., 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 from the terrestrial subsurface exposed to mixed waste contamination. Applied and Environmental Microbiology 76(10): 3244–3254.

Burkhardt, E.-M., D. M. Akob, S. Bischoff, J. Sitte, J. E. Kostka, D. Banerjee, A. C. Scheinost, K. Küsel. 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(1): 177-183.

Prakash, O., T.M. Gihring, D.D. Dalton, K.-J. Chin, S.J. Green, D.M. Akob, G. Wanger, 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.


Akob, D. M., 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.

Blöthe, M., D.M. Akob, K. Walter, J.E. Kostka, H.L. Drake, and K. Küsel. 2008. Heterogeneity of Fe(III)-reducing microorganisms in coal-mining lake sediments caused by a pH gradient. Applied and Environmental Microbiology 74(4): 1019–102.

Before 2008

Akob, D. M., 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.

Diaz, M. C., D. Akob, & C. S. Cary. 2004. Denaturing gradient gel electrophoresis of nitrifying microbes associated with tropical sponges. Proceedings of the 6th International Sponge Conference, Rapallo, Italy, 2002. Bollettino dei Musei e degli Istituti biologici dell'Università di Genova 68: 279–289.

Data Releases

Mumford, A.C., 2019, Sediment composition data from northern Pennsylvania: U.S. Geological Survey data release,

Baesman, S. M., D. M. Akob, and R. S. Oremland, 2019, Growth Characteristics of Pelobacter acetylenovorans, strain SFB93, sp. nov., a diazotrophic, acetylene fermenting anaerobe isolated from San Francisco Bay intertidal sediments: U.S. Geological Survey data release,

Rose, L.D., Akob, D.M., Tuberty, S.R., Corsi, S.R., DeCicco, L.A., Colby, J.D. and Martin, D.J., 2018, Chemistry of waters collected in the Wolf Creek and Buffalo Creek watersheds in West Virginia in 2016: U.S. Geological Survey Data Release,

Romanok, K.M, Smalling, K.L., Bunnell, J.F., Cohl, J.A., Hazard, L., Monsen, K., Laidig, K.J., Akob, D.M., Hansen, A., Hladik, M.L., Abdalla, N., Ahmed, Q., Assan, A., Burritt, P.M., De Parsia, M., Griggs, A.L., McWayne-Holmes, M., Patel, N., Sanders, C.J., Shrestha, Y., Sobel, M.C., and Stout, S.M., 2018, Current-use pesticides and emerging amphibian pathogens in natural ponds, excavated ponds and stormwater basins from 24 sites varying in land-use classifications throughout the New Jersey Pinelands, 2014–2016: U.S. Geological Survey Data Release,

Shelton, J.L., DeVera, C.A., Morrissey, E.A., Akob, D., Andrews, R., Mumford, A., Brennan, S., and Plampin, M., 2018, Microbiology of the greater Bravo Dome region: U.S. Geological Survey Data Release,

Mumford, A.C, Akob, D.M., Klinges, J.G., and Cozzarelli, I.M., 2018, Data for Common hydraulic fracturing fluid additives alter the structure and function of anaerobic microbial communities: U.S. Geological Survey Data Release,

Cozzarelli, I. M., Akob, D. M., Baedecker, M. J., Spencer, T., Jaeschke, J., Dunlap, D. S., Mumford, A., Poret-Peterson, A. T. 2017. MCHM Degradation Studies Data Release. U.S. Geological Survey Data Release,

Akob, D. M., S. M. Baesman, S. Bennett and R. S. Oremland. 2017. Discovery of Two Biological Mechanisms for Acetylene Metabolism in a Single Organism. U.S. Geological Survey Data Release,