Alison M. Cupples, Ph.D.
Environmental Microbiology

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Peer - Reviewed Journal Articles

• Sun, W., X. Sun and A.M. Cupples. Anaerobic MTBE degrading microorganisms identified in wastewater treatment plant samples using stable isotope probing, Applied and Environmental Microbiology, in press

• Sun, W. and A. M. Cupples. 2012. Diversity of five anaerobic toluene degrading microbial communities investigated using stable isotope probing (SIP), Applied and Environmental Microbiology, 78: 972-980.

• Cupples, A. M. 2011. The use of nucleic acid based stable isotope probing to identify the microorganisms responsible for anaerobic benzene and toluene biodegradation, Journal of Microbiological Methods, 85, 83-91.

• Xie, S., W. Sun, C. Luo and A. M. Cupples. 2011. Novel aerobic benzene degrading microorganisms identified in three soils by stable isotope probing, Biodegradation, 22, 71-81.

• Cha, J. and A. M. Cupples. 2010. Triclocarban and triclosan biodegradation at field concentrations and the resulting leaching potentials in three agricultural soils, Chemosphere, 81, 494-499.

• Xie, S., W. Sun, C. Luo and A. M. Cupples. 2010. Stable isotope probing identifies novel m-xylene degraders in soil microcosms from contaminated and uncontaminated sites, Water, Air and Soil Pollution, 212, 113-122.

• Sun, W., S. Xie, C. Luo and A. M. Cupples. 2010. Direct link between toluene degradation in contaminated-site microcosms and a Polaromonas strain, Applied and Environmental Microbiology, 76: 956-959.

• Luo, C., S. Xie, W. Sun, X. Li and A. M. Cupples. 2009. Identification of a novel toluene-degrading bacterium from the candidate phylum TM7 as determined by DNA-stable isotope probing, Applied and Environmental Microbiology, 75: 4644-4647.

• Cha, J. and A. M. Cupples. 2009. Detection of the antimicrobials triclocarban and triclosan in agricultural soils following land application of municipal biosolids, Water Research, 43: 2522-2530.

• Cupples, A. M. 2008. Real-time PCR quantification of Dehalococcoides populations: methods and applications. Journal of Microbiological Methods, 72: 1-11.

• Cupples, A. M., E. A. Shaffer, J. C. Chee-Sanford, and G. K. Sims. 2007. DNA buoyant density shifts during 15N DNA stable isotope probing. Microbiological Research, 162: 328-334.

• Cupples, A. M. and G. K. Sims. 2007. Identification of in situ 2,4-dichlorophenoxyacetic acid-degrading soil microorganisms using DNA-stable isotope probing. Soil Biology and Biochemistry, 39: 232-238.

• Cupples, A. M., R. A. Sanford, and G. K. Sims. 2005. Dehalogenation of the herbicides bromoxynil (3,5-dibromo-4-hydroxybenzonitrile) and ioxynil (3,5-diiodino-4-hydroxybenzonitrile) by Desulfitobacterium chlororespirans . Applied and Environmental Microbiology. 71: 3741-3746.

• Cupples, A. M., A. M. Spormann and P. L. McCarty. 2004. Comparative evaluation of chloroethene dechlorination to ethene by Dehalococcoides -like microorganisms. Environmental Science and Technology, 38: 4768-4774.

• Cupples, A. M., A. M. Spormann and P. L. McCarty. 2004. Vinyl chloride and cis-dichloroethene dechlorination kinetics and microorganism growth under substrate limiting conditions. Environmental Science and Technology, 38: 1102-1107.

• Cupples, A. M., A. M. Spormann, and P. L. McCarty. 2003. Growth of a Dehalococcoides -like microorganism on vinyl chloride and cis-dichloroethene as electron acceptors as determined by competitive PCR. Applied and Environmental Microbiology. 69: 953-959.

• Cupples, A. M., G. K. Sims, R. P. Hultgen and S. E. Hart. 2000. Effect of soil conditions of the degradation of chloransulam-methyl. Journal of Environmental Quality 29: 786- 794.

• Sims, G. K. and A. M. Cupples. 1999. Factors controlling degradation of pesticides in soil. Pesticide Science 55: 598-601.

• David, M. B., A. M. Cupples, G. B. Lawrence, G. Shi, K. Vogt and P. M. Wargo. 1998. Effect of chronic nitrogen additions on soil nitrogen fractions in Red Spruce stands. Water, Air and Soil Pollution 105: 183-192.

Conference Proceedings, Reports and Book Chapters

• Cupples, A. M. Final Report SERDP. 2010. Development of biomarkers for assessing in situ RDX biodegradation potential. Project Number: ER 1606 (final report).

• Shaffer, E., G. K. Sims, A. M. Cupples, C. Smyth, J. Chee-Sanford and A. Skinner. 2010. Atrazine biodegradation in a Cisne soil exposed to a major spill. International Journal of Soil, Sediment and Water (conference proceeding).

• Cupples, A. M., J. B. Rose, and I. Xagoraraki. 2010. New molecular methods for detection of water-borne pathogens, Environmental Microbiology, Wiley Publications (book chapter).

• Sims, G. K., R. P. Hultgren, A. M. Cupples, and R. J. Hudson. 2001. Role of ionization in bacterial uptake and soil sorption of agrochemicals. pp. 268-270 Proc. 3rd Int. Conf. on Groundwater Qual., Univ. of Sheffield, UK (conference proceeding).

• Hultgren, R. P., E. Elverson, A. M. Cupples, R. J. Hudson, and G. K. Sims. 2000. Bacterial uptake and soil sorption of ionizable agrochemicals. In Specialty Chemicals. Symp. Proc. Am. Chem. Soc. 40(1):192-194 (conference proceeding).