College of Agricultural Sciences

P. J. Bottomley and Myrold, D. D., “Biological nitrogen fixation: The return of N to the soil”, in Soil Microbiology, Ecology, and Biochemistry, 4thth ed., San Diego, CA: Academic Press, 2015, pp. 447-470.

P. J. Bottomley and Myrold, D. D., “Biological nitrogen fixation: The return of N to the soil”, in Soil Microbiology, Ecology, and Biochemistry, 3rdrd ed., Burlington, MA: Academic Press, 2007, pp. 365-387.

D. D. Myrold, Pett-Ridge, J., and Bottomley, P. J., “Nitrogen Mineralization and Assimilation at Millimeter Scales”, in Methods in Enzymolog, vol. 496, 2011.

D. D. Myrold and Bottomley, P. J., “Nitrogen mineralization and immobilization”, in Nitrogen in Agricultural Soils, Madison, WI: American Society of Agronomy, 2008, pp. 157-172.

F. W. R. Chaplen, Pérez, J., Bottomley, P. J., Buchanan, A., Murthy, G. S., Chang, J. H., and Sayavedra-Soto, L. A., “Elucidating the coupled dynamics of the nitrifying bacteria Nitrosomonas europaea and Nitrobacter winogradskyi grown in chemostat co-culture”, in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2014.

D. D. Myrold, Bottomley, P. J., Högberg, M. N., Högberg, P., and Sulzman, E. W., “Linking microbial communities to activity in soil with molecular and stable isotope techniques”, in Linking Management to Global Climate Challenges: The Proceedings of the International Symposium on Forest Soils and Ecosystem Health, Griffith University, Brisbane, Australia, 2007.

F. W. R. Chaplen, Pérez, J., Bottomley, P. J., Buchanan, A., Murthy, G. S., Chang, J. H., and Sayavedra-Soto, L. A., “Model integration for elucidating the coupled environmental dynamics of the nitrifying bacteria Nitrosomonas europaea and Nitrobacter winogradskyi”, in ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY, 2014.

L. H. Zeglin, Bottomley, P. J., Jumpponen, A., Rice, C. W., Arango, M., Lindsley, A. E., McGowan, A., Mfombep, P., and Myrold, D. D., “Altered precipitation regime affects the function and composition of soil microbial communities on multiple time scales”, Ecology, vol. 94, no. 10, pp. 2334 - 2345, 2013.

H. B. Runes, Jenkins, J. J., and Bottomley, P. J., “Atrazine degradation by bioaugmented sediment from constructed wetlands.”, Appl Microbiol Biotechnol, vol. 57, no. 3, pp. 427-32, 2001.

H. B. Runes, Bottomley, P. J., Lerch, R. N., and Jenkins, J. J., “Atrazine remediation in wetland microcosms.”, Environ Toxicol Chem, vol. 20, no. 5, pp. 1059-66, 2001.

L. H. Zeglin, Taylor, A. E., Myrold, D. D., and Bottomley, P. J., “Bacterial and archaeal amoA gene distribution covaries with soil nitrification properties across a range of land uses”, Environmental Microbiology Reports, vol. 3, no. 6, pp. 717 - 726, 2011.

S. A. Boyle, Yarwood, R. R., Bottomley, P. J., and Myrold, D. D., “Bacterial and fungal contributions to soil nitrogen cycling under Douglas fir and red alder at two sites in Oregon”, Soil Biology and Biochemistry, vol. 40, no. 2, pp. 443 - 451, 2008.

M. A. Williams, Myrold, D. D., and Bottomley, P. J., “Carbon flow from 13C-labeled straw and root residues into the phospholipid fatty acids of a soil microbial community under field conditions”, Soil Biology and Biochemistry, vol. 38, no. 4, pp. 759 - 768, 2006.

S. A. Boyle-Yarwood, Bottomley, P. J., and Myrold, D. D., “Community composition of ammonia-oxidizing bacteria and archaea in soils under stands of red alder and Douglas fir in Oregon”, Environmental Microbiology, vol. 107, no. 11, pp. 2956 - 2965, 2008.

G. Chaer, Fernandes, M., Myrold, D. D., and Bottomley, P. J., “Comparative Resistance and Resilience of Soil Microbial Communities and Enzyme Activities in Adjacent Native Forest and Agricultural Soils”, Microbial Ecology, vol. 58, no. 2, pp. 414 - 424, 2009.

P. J. Bottomley, Taylor, A. E., and Myrold, D. D., “A consideration of the relative contributions of different microbial subpopulations to the soil N cycle”, Frontiers in Microbiology, vol. 3, 2012.

M. L. Rockhold, Yarwood, R. R., Niemet, M. R., Bottomley, P. J., and Selker, J., “Considerations for modeling bacterial-induced changes in hydraulic properties of variably saturated porous media”, Advances in water resources, vol. 25, pp. 477–495, 2002.

X. Lu, Bottomley, P. J., and Myrold, D. D., “Contributions of ammonia-oxidizing archaea and bacteria to nitrification in Oregon forest soils”, Soil Biology and Biochemistry, vol. 85, pp. 54 - 62, 2015.

N. Vajrala, Bottomley, P. J., Stahl, D. A., Arp, D. J., and Sayavedra-Soto, L. A., “Cycloheximide prevents the de novo polypeptide synthesis required to recover from acetylene inhibition in Nitrosopumilus maritimus.”, FEMS Microbiol Ecol, vol. 88, no. 3, pp. 495-502, 2014.

M. A. Williams, Myrold, D. D., and Bottomley, P. J., “Distribution and fate of 13C-labeled root and straw residues from ryegrass and crimson clover in soil under western Oregon field conditions”, Biology and Fertility of Soils, vol. 42, no. 6, pp. 523 - 531, 2006.

A. E. Taylor, Zeglin, L. H., Wanzek, T. A., Myrold, D. D., and Bottomley, P. J., “Dynamics of ammonia-oxidizing archaea and bacteria populations and contributions to soil nitrification potentials”, The ISME Journal, vol. 6, no. 11, pp. 2024 - 2032, 2012.

L. A. Kluber, Tinnesand, K. M., Caldwell, B. A., Dunham, S. M., Yarwood, R. R., Bottomley, P. J., and Myrold, D. D., “Ectomycorrhizal mats alter forest soil biogeochemistry”, Soil Biology and Biochemistry, vol. 42, no. 9, pp. 1607 - 1613, 2010.

S. A. Kageyama, Posavatz, N. R., Jones, S. S., Waterstripe, K. E., Bottomley, P. J., Cromack, K., and Myrold, D. D., “Effects of disturbance scale on soil microbial communities in the Western Cascades of Oregon”, Plant and Soil, vol. 372, no. 1-2, pp. 459 - 471, 2013.

A. E. Taylor, Zeglin, L. H., Dooley, S., Myrold, D. D., and Bottomley, P. J., “Evidence for Different Contributions of Archaea and Bacteria to the Ammonia-Oxidizing Potential of Diverse Oregon Soils”, Applied and Environmental Microbiology, vol. 76, no. 23, pp. 7691 - 7698, 2010.

M. L. Rockhold, Yarwood, R. R., Niemet, M. R., Bottomley, P. J., and Selker, J., “Experimental observations and numerical modeling of coupled microbial and transport processes in variably saturated sand”, Vadose Zone Journal, vol. 4, pp. 407–417, 2005.