Peter J. Bottomley - Publications

Affiliations: 
Oregon State University, Corvallis, OR 
Area:
Microbiology Biology

125 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Sedlacek CJ, Giguere AT, Dobie MD, Mellbye BL, Ferrell RV, Woebken D, Sayavedra-Soto LA, Bottomley PJ, Daims H, Wagner M, Pjevac P. Transcriptomic Response of Nitrosomonas europaea Transitioned from Ammonia- to Oxygen-Limited Steady-State Growth. Msystems. 5. PMID 31937676 DOI: 10.1128/mSystems.00562-19  0.6
2018 Mellbye BL, Giguere AT, Murthy GS, Bottomley PJ, Sayavedra-Soto LA, Chaplen FWR. Genome-Scale, Constraint-Based Modeling of Nitrogen Oxide Fluxes during Coculture of and . Msystems. 3. PMID 29577088 DOI: 10.1128/mSystems.00170-17  0.6
2018 Giguere AT, Taylor AE, Myrold DD, Mellbye BL, Sayavedra-Soto LA, Bottomley PJ. Nitrite-oxidizing activity responds to nitrite accumulation in soil. Fems Microbiology Ecology. PMID 29360963 DOI: 10.1093/femsec/fiy008  0.6
2017 Mellbye BL, Spieck E, Bottomley PJ, Sayavedra-Soto LA. A survey of putative quorum sensing genes in nitrifying bacteria reveals acyl-homoserine lactone production in ammonia- and nitrite-oxidizing bacteria from the genera Nitrosospira, Nitrobacter, and Nitrospira. Applied and Environmental Microbiology. PMID 28887424 DOI: 10.1128/AEM.01540-17  0.6
2017 Mellbye BL, Davis EW, Spieck E, Chang JH, Bottomley PJ, Sayavedra-Soto LA. Draft Genome Sequence of Nitrobacter vulgaris Strain Ab1, a Nitrite-Oxidizing Bacterium. Genome Announcements. 5. PMID 28473388 DOI: 10.1128/genomeA.00290-17  0.6
2016 Taylor AE, Giguere AT, Zoebelein CM, Myrold DD, Bottomley PJ. Modeling of soil nitrification responses to temperature reveals thermodynamic differences between ammonia-oxidizing activity of archaea and bacteria. The Isme Journal. PMID 27996979 DOI: 10.1038/ismej.2016.179  0.44
2016 Mellbye BL, Giguere AT, Bottomley PJ, Sayavedra-Soto LA. Quorum Quenching of Nitrobacter winogradskyi Suggests that Quorum Sensing Regulates Fluxes of Nitrogen Oxide(s) during Nitrification. Mbio. 7. PMID 27795404 DOI: 10.1128/mBio.01753-16  0.6
2016 Rice MC, Norton JM, Valois F, Bollmann A, Bottomley PJ, Klotz MG, Laanbroek HJ, Suwa Y, Stein LY, Sayavedra-Soto L, Woyke T, Shapiro N, Goodwin LA, Huntemann M, Clum A, et al. Complete genome of Nitrosospira briensis C-128, an ammonia-oxidizing bacterium from agricultural soil. Standards in Genomic Sciences. 11: 46. PMID 27471578 DOI: 10.1186/s40793-016-0168-4  0.72
2016 Mellbye BL, Giguere A, Chaplen F, Bottomley PJ, Sayavedra-Soto LA. Steady state growth under inorganic carbon limitation increases energy consumption for maintenance and enhances nitrous oxide production in Nitrosomonas europaea. Applied and Environmental Microbiology. PMID 27016565 DOI: 10.1128/AEM.00294-16  0.72
2015 Mellbye BL, Bottomley PJ, Sayavedra-Soto LA. Nitrite-Oxidizing Bacterium Nitrobacter winogradskyi Produces N-Acyl-Homoserine Lactone Autoinducers. Applied and Environmental Microbiology. 81: 5917-26. PMID 26092466 DOI: 10.1128/AEM.01103-15  0.72
2015 Taylor AE, Taylor K, Tennigkeit B, Palatinszky M, Stieglmeier M, Myrold DD, Schleper C, Wagner M, Bottomley PJ. Inhibitory effects of C2 to C10 1-alkynes on ammonia oxidation in two Nitrososphaera species. Applied and Environmental Microbiology. 81: 1942-8. PMID 25576608 DOI: 10.1128/AEM.03688-14  0.72
2015 Pérez J, Buchanan A, Mellbye B, Ferrell R, Chang JH, Chaplen F, Bottomley PJ, Arp DJ, Sayavedra-Soto LA. Interactions of Nitrosomonas europaea and Nitrobacter winogradskyi grown in co-culture. Archives of Microbiology. 197: 79-89. PMID 25362506 DOI: 10.1007/s00203-014-1056-1  0.72
2015 Giguere AT, Taylor AE, Myrold DD, Bottomley PJ. Nitrification responses of soil ammonia-oxidizing archaea and bacteria to ammonium concentrations Soil Science Society of America Journal. 79: 1366-1374. DOI: 10.2136/sssaj2015.03.0107  0.72
2015 Lu X, Bottomley PJ, Myrold DD. Contributions of ammonia-oxidizing archaea and bacteria to nitrification in Oregon forest soils Soil Biology and Biochemistry. 85: 54-62. DOI: 10.1016/j.soilbio.2015.02.034  0.72
2014 Vajrala N, Bottomley PJ, Stahl DA, Arp DJ, Sayavedra-Soto LA. Cycloheximide prevents the de novo polypeptide synthesis required to recover from acetylene inhibition in Nitrosopumilus maritimus. Fems Microbiology Ecology. 88: 495-502. PMID 24606542 DOI: 10.1111/1574-6941.12316  0.72
2013 Zeglin LH, Bottomley PJ, Jumpponen A, Rice CW, Arango M, Lindsley A, McGowan A, Mfombep P, Myrold DD. Altered precipitation regime affects the function and composition of soil microbial communities on multiple time scales. Ecology. 94: 2334-45. PMID 24358718 DOI: 10.1890/12-2018.1  0.72
2013 Taylor AE, Vajrala N, Giguere AT, Gitelman AI, Arp DJ, Myrold DD, Sayavedra-Soto L, Bottomley PJ. Use of aliphatic n-alkynes to discriminate soil nitrification activities of ammonia-oxidizing thaumarchaea and bacteria Applied and Environmental Microbiology. 79: 6544-6551. PMID 23956393 DOI: 10.1128/AEM.01928-13  0.72
2013 Vajrala N, Martens-Habbena W, Sayavedra-Soto LA, Schauer A, Bottomley PJ, Stahl DA, Arp DJ. Hydroxylamine as an intermediate in ammonia oxidation by globally abundant marine archaea. Proceedings of the National Academy of Sciences of the United States of America. 110: 1006-11. PMID 23277575 DOI: 10.1073/pnas.1214272110  0.72
2013 Kageyama SA, Posavatz NR, Jones SS, Waterstripe KE, Bottomley PJ, Cromack K, Myrold DD. Effects of disturbance scale on soil microbial communities in the Western Cascades of Oregon Plant and Soil. 372: 459-471. DOI: 10.1007/s11104-013-1760-7  0.72
2012 Bottomley PJ, Taylor AE, Myrold DD. A consideration of the relative contributions of different microbial subpopulations to the soil N cycle. Frontiers in Microbiology. 3: 373. PMID 23109931 DOI: 10.3389/fmicb.2012.00373  0.44
2012 Taylor AE, Zeglin LH, Wanzek TA, Myrold DD, Bottomley PJ. Dynamics of ammonia-oxidizing archaea and bacteria populations and contributions to soil nitrification potentials Isme Journal. 6: 2024-2032. PMID 22695861 DOI: 10.1038/ismej.2012.51  0.72
2012 Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Global analysis of the Nitrosomonas europaea iron starvation stimulon. Archives of Microbiology. 194: 305-13. PMID 22173827 DOI: 10.1007/s00203-011-0778-6  0.72
2012 Bottomley PJ, Taylor AE, Myrold DD. A consideration of the relative contributions of different microbial subpopulations to the soil N cycle Frontiers in Microbiology. 3. DOI: 10.3389/fmicb.2012.00373  0.72
2011 Zeglin LH, Taylor AE, Myrold DD, Bottomley PJ. Bacterial and archaeal amoA gene distribution covaries with soil nitrification properties across a range of land uses. Environmental Microbiology Reports. 3: 717-26. PMID 23761362 DOI: 10.1111/j.1758-2229.2011.00290.x  0.44
2011 Myrold DD, Pett-Ridge J, Bottomley PJ. Nitrogen mineralization and assimilation at millimeter scales. Methods in Enzymology. 496: 91-114. PMID 21514461 DOI: 10.1016/B978-0-12-386489-5.00004-X  0.72
2011 Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Role of a Fur homolog in iron metabolism in Nitrosomonas europaea. Bmc Microbiology. 11: 37. PMID 21338516 DOI: 10.1186/1471-2180-11-37  0.72
2011 Zeglin LH, Taylor AE, Myrold DD, Bottomley PJ. Bacterial and archaeal amoA gene distribution covaries with soil nitrification properties across a range of land uses Environmental Microbiology Reports. 3: 717-726. DOI: 10.1111/j.1758-2229.2011.00290.x  0.72
2010 Taylor AE, Zeglin LH, Dooley S, Myrold DD, Bottomley PJ. Evidence for different contributions of archaea and bacteria to the ammonia-oxidizing potential of diverse oregon soils Applied and Environmental Microbiology. 76: 7691-7698. PMID 20889792 DOI: 10.1128/AEM.01324-10  0.72
2010 Vajrala N, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Role of Nitrosomonas europaea NitABC iron transporter in the uptake of Fe3+-siderophore complexes. Archives of Microbiology. 192: 899-908. PMID 20737137 DOI: 10.1007/s00203-010-0620-6  0.72
2010 Taylor AE, Arp DJ, Bottomley PJ, Semprini L. Extending the alkene substrate range of vinyl chloride utilizing Nocardioides sp. strain JS614 with ethene oxide Applied Microbiology and Biotechnology. 87: 2293-2302. PMID 20582588 DOI: 10.1007/s00253-010-2719-8  0.72
2010 Yarwood SA, Bottomley PJ, Myrold DD. Soil microbial communities associated with Douglas-fir and red alder stands at high- and low-productivity forest sites in Oregon, USA. Microbial Ecology. 60: 606-17. PMID 20449582 DOI: 10.1007/s00248-010-9675-9  0.72
2010 Sayavedra-Soto LA, Gvakharia B, Bottomley PJ, Arp DJ, Dolan ME. Nitrification and degradation of halogenated hydrocarbons--a tenuous balance for ammonia-oxidizing bacteria. Applied Microbiology and Biotechnology. 86: 435-44. PMID 20146060 DOI: 10.1007/s00253-010-2454-1  0.72
2010 Kluber LA, Tinnesand KM, Caldwell BA, Dunham SM, Yarwood RR, Bottomley PJ, Myrold DD. Ectomycorrhizal mats alter forest soil biogeochemistry Soil Biology and Biochemistry. 42: 1607-1613. DOI: 10.1016/j.soilbio.2010.06.001  0.72
2009 Cooley RB, Bottomley PJ, Arp DJ. Growth of a non-methanotroph on natural gas: ignoring the obvious to focus on the obscure. Environmental Microbiology Reports. 1: 408-13. PMID 23765894 DOI: 10.1111/j.1758-2229.2009.00060.x  0.72
2009 Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Thauera butanivorans sp. nov., a C2-C9 alkane-oxidizing bacterium previously referred to as 'Pseudomonas butanovora'. International Journal of Systematic and Evolutionary Microbiology. 59: 1576-8. PMID 19528200 DOI: 10.1099/ijs.0.000638-0  0.72
2009 Cooley RB, Dubbels BL, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Kinetic characterization of the soluble butane monooxygenase from Thauera butanivorans, formerly 'Pseudomonas butanovora'. Microbiology (Reading, England). 155: 2086-96. PMID 19383682 DOI: 10.1099/mic.0.028175-0  0.72
2009 Gvakharia BO, Bottomley PJ, Arp DJ, Sayavedra-Soto LA. Construction of recombinant Nitrosomonas europaea expressing green fluorescent protein in response to co-oxidation of chloroform. Applied Microbiology and Biotechnology. 82: 1179-85. PMID 19247648 DOI: 10.1007/s00253-009-1914-y  0.72
2009 Chaer GM, Fernandes MF, Myrold DD, Bottomley PJ. Shifts in microbial community composition and physiological profiles across a gradient of induced soil degradation Soil Science Society of America Journal. 73: 1327-1334. DOI: 10.2136/sssaj2008.0276  0.72
2009 Chaer GM, Myrold DD, Bottomley PJ. A soil quality index based on the equilibrium between soil organic matter and biochemical properties of undisturbed coniferous forest soils of the Pacific Northwest Soil Biology and Biochemistry. 41: 822-830. DOI: 10.1016/j.soilbio.2009.02.005  0.72
2008 Starkenburg SR, Arp DJ, Bottomley PJ. Expression of a putative nitrite reductase and the reversible inhibition of nitrite-dependent respiration by nitric oxide in Nitrobacter winogradskyi Nb-255. Environmental Microbiology. 10: 3036-42. PMID 18973623 DOI: 10.1111/j.1462-2920.2008.01763.x  0.72
2008 Starkenburg SR, Arp DJ, Bottomley PJ. D-Lactate metabolism and the obligate requirement for CO2 during growth on nitrite by the facultative lithoautotroph Nitrobacter hamburgensis. Microbiology (Reading, England). 154: 2473-81. PMID 18667580 DOI: 10.1099/mic.0.2008/018085-0  0.72
2008 Boyle-Yarwood SA, Bottomley PJ, Myrold DD. Community composition of ammonia-oxidizing bacteria and archaea in soils under stands of red alder and Douglas fir in Oregon. Environmental Microbiology. 10: 2956-65. PMID 18393992 DOI: 10.1111/j.1462-2920.2008.01600.x  0.72
2008 Norton JM, Klotz MG, Stein LY, Arp DJ, Bottomley PJ, Chain PS, Hauser LJ, Land ML, Larimer FW, Shin MW, Starkenburg SR. Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Applied and Environmental Microbiology. 74: 3559-72. PMID 18390676 DOI: 10.1128/AEM.02722-07  0.72
2008 Starkenburg SR, Larimer FW, Stein LY, Klotz MG, Chain PS, Sayavedra-Soto LA, Poret-Peterson AT, Gentry ME, Arp DJ, Ward B, Bottomley PJ. Complete genome sequence of Nitrobacter hamburgensis X14 and comparative genomic analysis of species within the genus Nitrobacter. Applied and Environmental Microbiology. 74: 2852-63. PMID 18326675 DOI: 10.1128/AEM.02311-07  0.72
2008 Doughty DM, Kurth EG, Sayavedra-Soto LA, Arp DJ, Bottomley PJ. Evidence for involvement of copper ions and redox state in regulation of butane monooxygenase in Pseudomonas butanovora. Journal of Bacteriology. 190: 2933-8. PMID 18281403 DOI: 10.1128/JB.01409-07  0.72
2008 Kurth EG, Doughty DM, Bottomley PJ, Arp DJ, Sayavedra-Soto LA. Involvement of BmoR and BmoG in n-alkane metabolism in 'Pseudomonas butanovora'. Microbiology (Reading, England). 154: 139-47. PMID 18174133 DOI: 10.1099/mic.0.2007/012724-0  0.72
2008 Kageyama SA, Posavatz NR, Waterstripe KE, Jones SJ, Bottomley PJ, Cromack K, Myrold DD. Fungal and bacterial communities across meadow-forest ecotones in the western Cascades of Oregon Canadian Journal of Forest Research. 38: 1053-1060. DOI: 10.1139/X07-221  0.72
2008 Boyle SA, Yarwood RR, Bottomley PJ, Myrold DD. Bacterial and fungal contributions to soil nitrogen cycling under Douglas fir and red alder at two sites in Oregon Soil Biology and Biochemistry. 40: 443-451. DOI: 10.1016/j.soilbio.2007.09.007  0.72
2007 Doughty DM, Halsey KH, Vieville CJ, Sayavedra-Soto LA, Arp DJ, Bottomley PJ. Propionate inactivation of butane monooxygenase activity in 'Pseudomonas butanovora': biochemical and physiological implications. Microbiology (Reading, England). 153: 3722-9. PMID 17975080 DOI: 10.1099/mic.0.2007/008441-0  0.72
2007 Taylor AE, Dolan ME, Bottomley PJ, Semprini L. Utilization of fluoroethene as a surrogate for aerobic vinyl chloride transformation. Environmental Science & Technology. 41: 6378-83. PMID 17948782 DOI: 10.1021/es0701255  0.72
2007 Halsey KH, Doughty DM, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Evidence for modified mechanisms of chloroethene oxidation in Pseudomonas butanovora mutants containing single amino acid substitutions in the hydroxylase alpha-subunit of butane monooxygenase. Journal of Bacteriology. 189: 5068-74. PMID 17496103 DOI: 10.1128/JB.00189-07  0.72
2007 Gvakharia BO, Permina EA, Gelfand MS, Bottomley PJ, Sayavedra-Soto LA, Arp DJ. Global transcriptional response of Nitrosomonas europaea to chloroform and chloromethane. Applied and Environmental Microbiology. 73: 3440-5. PMID 17369330 DOI: 10.1128/AEM.02831-06  0.72
2007 Cliff JB, Bottomley PJ, Gaspar DJ, Myrold DD. Nitrogen mineralization and assimilation at millimeter scales Soil Biology and Biochemistry. 39: 823-826. DOI: 10.1016/j.soilbio.2006.10.005  0.72
2007 Williams MA, Myrold DD, Bottomley PJ. Carbon flow from 13C-labeled clover and ryegrass residues into a residue-associated microbial community under field conditions Soil Biology and Biochemistry. 39: 819-822. DOI: 10.1016/j.soilbio.2006.09.011  0.72
2007 Rockhold ML, Yarwood RR, Niemet MR, Bottomley PJ, Brockman FJ, Selker JS. Visualization and modeling of the colonization dynamics of a bioluminescent bacterium in variably saturated, translucent quartz sand Advances in Water Resources. 30: 1593-1607. DOI: 10.1016/j.advwatres.2006.05.026  0.72
2007 Taylor AE, Bottomley PJ, Dolan ME, Semprini L. Utilization of fluoroethene as a surrogate for aerobic vinyl chloride degradation Battelle Press - 9th International in Situ and On-Site Bioremediation Symposium 2007. 1: 756.  0.72
2006 Halsey KH, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Site-directed amino acid substitutions in the hydroxylase alpha subunit of butane monooxygenase from Pseudomonas butanovora: Implications for substrates knocking at the gate. Journal of Bacteriology. 188: 4962-9. PMID 16788204 DOI: 10.1128/JB.00280-06  0.72
2006 Doughty DM, Sayavedra-Soto LA, Arp DJ, Bottomley PJ. Product repression of alkane monooxygenase expression in Pseudomonas butanovora. Journal of Bacteriology. 188: 2586-92. PMID 16547046 DOI: 10.1128/JB.188.7.2586-2592.2006  0.72
2006 Starkenburg SR, Chain PS, Sayavedra-Soto LA, Hauser L, Land ML, Larimer FW, Malfatti SA, Klotz MG, Bottomley PJ, Arp DJ, Hickey WJ. Genome sequence of the chemolithoautotrophic nitrite-oxidizing bacterium Nitrobacter winogradskyi Nb-255. Applied and Environmental Microbiology. 72: 2050-63. PMID 16517654 DOI: 10.1128/AEM.72.3.2050-2063.2006  0.72
2006 Yarwood RR, Rockhold ML, Niemet MR, Selker JS, Bottomley PJ. Impact of microbial growth on water flow and solute transport in unsaturated porous media Water Resources Research. 42. DOI: 10.1029/2005WR004550  0.72
2006 Boyle SA, Rich JJ, Bottomley PJ, Cromack K, Myrold DD. Reciprocal transfer effects on denitrifying community composition and activity at forest and meadow sites in the Cascade Mountains of Oregon Soil Biology and Biochemistry. 38: 870-878. DOI: 10.1016/j.soilbio.2005.08.003  0.72
2006 Taylor AE, Bottomley PJ. Nitrite production by Nitrosomonas europaea and Nitrosospira sp. AV in soils at different solution concentrations of ammonium Soil Biology and Biochemistry. 38: 828-836. DOI: 10.1016/j.soilbio.2005.08.001  0.72
2006 Williams MA, Myrold DD, Bottomley PJ. 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. 38: 759-768. DOI: 10.1016/j.soilbio.2005.07.001  0.72
2006 Bottomley PJ, Yarwood RR, Kageyama SA, Waterstripe KE, Williams MA, Cromack K, Myrold DD. Responses of soil bacterial and fungal communities to reciprocal transfers of soil between adjacent coniferous forest and meadow vegetation in the Cascade Mountains of Oregon Plant and Soil. 289: 35-45. DOI: 10.1007/s11104-006-9095-2  0.72
2006 Williams MA, Myrold DD, Bottomley PJ. 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. 42: 523-531. DOI: 10.1007/s00374-005-0046-5  0.72
2006 Arp DJ, Bottomley PJ. Nitrifiers: More than 100 years from isolation to genome sequences Microbe. 1: 229-234.  0.72
2006 Bottomley PJ, Myrold DD. Biological N inputs Soil Microbiology, Ecology and Biochemistry: Third Edition. 365-387.  0.72
2005 Doughty DM, Sayavedra-Soto LA, Arp DJ, Bottomley PJ. Effects of dichloroethene isomers on the induction and activity of butane monooxygenase in the alkane-oxidizing bacterium "Pseudomonas butanovora". Applied and Environmental Microbiology. 71: 6054-9. PMID 16204521 DOI: 10.1128/AEM.71.10.6054-6059.2005  0.72
2005 Sayavedra-Soto LA, Doughty DM, Kurth EG, Bottomley PJ, Arp DJ. Product and product-independent induction of butane oxidation in Pseudomonas butanovora. Fems Microbiology Letters. 250: 111-6. PMID 16055278 DOI: 10.1016/j.femsle.2005.06.058  0.72
2005 Halsey KH, Sayavedra-Soto LA, Bottomley PJ, Arp DJ. Trichloroethylene degradation by butane-oxidizing bacteria causes a spectrum of toxic effects. Applied Microbiology and Biotechnology. 68: 794-801. PMID 15754184 DOI: 10.1007/s00253-005-1944-z  0.72
2005 Rockhold ML, Yarwood RR, Niemet MR, Bottomley PJ, Selker JS. Experimental observations and numerical modeling of coupled microbial and transport processes in variably saturated sand Vadose Zone Journal. 4: 407-417. DOI: 10.2136/vzj2004.0087  0.72
2005 McMahon SK, Williams MA, Bottomley PJ, Myrold DD. Dynamics of microbial communities during decomposition of carbon-13 labeled ryegrass fractions in soil Soil Science Society of America Journal. 69: 1238-1247. DOI: 10.2136/sssaj2004.0289  0.72
2004 Bottomley PJ, Taylor AE, Boyle SA, McMahon SK, Rich JJ, Cromack K, Myrold DD. Responses of nitrification and ammonia-oxidizing bacteria to reciprocal transfers of soil between adjacent coniferous forest and meadow vegetation in the Cascade Mountains of Oregon. Microbial Ecology. 48: 500-8. PMID 15696383 DOI: 10.1007/s00248-004-0215-3  0.72
2004 Yeager CM, Arthur KM, Bottomley PJ, Arp DJ. Trichloroethylene degradation by toluene-oxidizing bacteria grown on non-aromatic substrates. Biodegradation. 15: 19-28. PMID 14971854 DOI: 10.1023/B:BIOD.0000009947.09125.35  0.72
2004 Butler JL, Bottomley PJ, Griffith SM, Myrold DD. Distribution and turnover of recently fixed photosynthate in ryegrass rhizospheres Soil Biology and Biochemistry. 36: 371-382. DOI: 10.1016/j.soilbio.2003.10.011  0.72
2004 Cliff JB, Gaspar DJ, Bottomley PJ, Myrold DD. Peak fitting to resolve CN- isotope ratios in biological and environmental samples using TOF-SIMS Applied Surface Science. 231: 912-916. DOI: 10.1016/j.apsusc.2004.03.169  0.72
2003 Butler JL, Williams MA, Bottomley PJ, Myrold DD. Microbial community dynamics associated with rhizosphere carbon flow. Applied and Environmental Microbiology. 69: 6793-800. PMID 14602642 DOI: 10.1128/AEM.69.11.6793-6800.2003  0.72
2003 Rich JJ, Heichen RS, Bottomley PJ, Cromack K, Myrold DD. Community composition and functioning of denitrifying bacteria from adjacent meadow and forest soils. Applied and Environmental Microbiology. 69: 5974-82. PMID 14532052 DOI: 10.1128/AEM.69.10.5974-5982.2003  0.72
2003 Mintie AT, Heichen RS, Cromack K, Myrold DD, Bottomley PJ. Ammonia-oxidizing bacteria along meadow-to-forest transects in the Oregon cascade mountains Applied and Environmental Microbiology. 69: 3129-3136. PMID 12788707  0.72
2003 Runes HB, Jenkins JJ, Moore JA, Bottomley PJ, Wilson BD. Treatment of atrazine in nursery irrigation runoff by a constructed wetland. Water Research. 37: 539-50. PMID 12688688 DOI: 10.1016/S0043-1354(02)00310-X  0.72
2002 Cliff JB, Gaspar DJ, Bottomley PJ, Myrold DD. Exploration of inorganic C and N assimilation by soil microbes with time-of-flight secondary ion mass spectrometry. Applied and Environmental Microbiology. 68: 4067-73. PMID 12147508 DOI: 10.1128/AEM.68.8.4067-4073.2002  0.72
2002 Yarwood RR, Rockhold ML, Niemet MR, Selker JS, Bottomley PJ. Noninvasive quantitative measurement of bacterial growth in porous media under unsaturated-flow conditions. Applied and Environmental Microbiology. 68: 3597-605. PMID 12089048 DOI: 10.1128/AEM.68.7.3597-3605.2002  0.72
2002 Rockhold ML, Yarwood RR, Niemet MR, Bottomley PJ, Selker JS. Considerations for modeling bacterial-induced changes in hydraulic properties of variably saturated porous media Advances in Water Resources. 25: 477-495. DOI: 10.1016/S0309-1708(02)00023-4  0.72
2002 Cliff JB, Bottomley PJ, Haggerty R, Myrold DD. Modeling the effects of diffusion limitations on nitrogen-15 isotope dilution experiments with soil aggregates Soil Science Society of America Journal. 66: 1868-1877.  0.72
2001 Runes HB, Jenkins JJ, Bottomley PJ. Atrazine degradation by bioaugmented sediment from constructed wetlands. Applied Microbiology and Biotechnology. 57: 427-32. PMID 11759697 DOI: 10.1007/s002530100792  0.72
2001 Yeager CM, Bottomley PJ, Arp DJ. Requirement of DNA repair mechanisms for survival of Burkholderia cepacia G4 upon degradation of trichloroethylene. Applied and Environmental Microbiology. 67: 5384-91. PMID 11722883 DOI: 10.1128/AEM.67.12.5384-5391.2001  0.72
2001 Uesugi SL, Yarwood RR, Selker JS, Bottomley PJ. A model that uses the induction phase of lux gene-dependent bioluminescence in Pseudomonas fluorescens HK44 to quantify cell density in translucent porous media. Journal of Microbiological Methods. 47: 315-22. PMID 11714522 DOI: 10.1016/S0167-7012(01)00337-2  0.72
2001 Runes HB, Bottomley PJ, Lerch RN, Jenkins JJ. Atrazine remediation in wetland microcosms. Environmental Toxicology and Chemistry / Setac. 20: 1059-66. PMID 11337869  0.72
2001 Yeager CM, Bottomley PJ, Arp DJ. Cytotoxicity associated with trichloroethylene oxidation in Burkholderia cepacia G4. Applied and Environmental Microbiology. 67: 2107-15. PMID 11319088 DOI: 10.1128/AEM.67.5.2107-2115.2001  0.72
2001 Whalen JK, Bottomley PJ, Myrold DD. Short-term nitrogen transformations in bulk and root-associated soils under ryegrass Soil Biology and Biochemistry. 33: 1937-1945. DOI: 10.1016/S0038-0717(01)00121-3  0.72
2000 Duddleston KN, Bottomley PJ, Porter AJ, Arp DJ. New insights into methyl bromide cooxidation by Nitrosomonas europaea obtained by experimenting with moderately low density cell suspensions. Applied and Environmental Microbiology. 66: 2726-31. PMID 10877761 DOI: 10.1128/AEM.66.7.2726-2731.2000  0.72
2000 Duddleston KN, Bottomley PJ, Porter A, Arp DJ. Effects of soil and water content on methyl bromide oxidation by the ammonia-oxidizing bacterium Nitrosomonas europaea Applied and Environmental Microbiology. 66: 2636-2640. PMID 10831449 DOI: 10.1128/AEM.66.6.2636-2640.2000  0.72
2000 Whalen JK, Bottomley PJ, Myrold DD. Carbon and nitrogen mineralization from light- and heavy-fraction additions to soil Soil Biology and Biochemistry. 32: 1345-1352. DOI: 10.1016/S0038-0717(00)00040-7  0.72
1999 Yeager CM, Bottomley PJ, Arp DJ, Hyman MR. Inactivation of toluene 2-monooxygenase in Burkholderia cepacia G4 by alkynes. Applied and Environmental Microbiology. 65: 632-9. PMID 9925593  0.72
1999 Bottomley PJ, Sawyer TE, Boersma L, Dick RP, Hemphill DD. Winter cover crop enhances 2,4-D mineralization potential of surface and subsurface soil Soil Biology and Biochemistry. 31: 849-857. DOI: 10.1016/S0038-0717(98)00184-9  0.72
1999 Mendes IC, Bandick AK, Dick RP, Bottomley PJ. Microbial biomass and activities in soil aggregates affected by winter cover crops Soil Science Society of America Journal. 63: 873-881.  0.72
1998 Mendes IC, Bottomley PJ. Distribution of a population of Rhizobium leguminosarum bv. trifolii among different size classes of soil aggregates Applied and Environmental Microbiology. 64: 970-975.  0.72
1998 Hommes NG, Russell SA, Bottomley PJ, Arp DJ. Effects of soil on ammonia, ethylene, chloroethane, and 1,1,1- trichloroethane oxidation by Nitrosomonas europaea Applied and Environmental Microbiology. 64: 1372-1378.  0.72
1995 Brockwell J, Bottomley PJ. Recent advances in inoculant technology and prospects for the future Soil Biology and Biochemistry. 27: 683-697. DOI: 10.1016/0038-0717(95)98649-9  0.72
1995 Brockwell J, Bottomley PJ, Thies JE. Manipulation of rhizobia microflora for improving legume productivity and soil fertility: A critical assessment Plant and Soil. 174: 143-180. DOI: 10.1007/BF00032245  0.72
1995 Strain SR, Whittam TS, Bottomley PJ. Analysis of genetic structure in soil populations of Rhizobium leguminosarum recovered from the USA and the UK Molecular Ecology. 4: 105-114.  0.72
1994 Strain SR, Leung K, Whittam TS, de Bruijn FJ, Bottomley PJ. Genetic Structure of Rhizobium leguminosarum biovar trifolii and viciae Populations Found in Two Oregon Soils under Different Plant Communities. Applied and Environmental Microbiology. 60: 2772-8. PMID 16349348  0.72
1994 Leung K, Wanjage FN, Bottomley PJ. Symbiotic characteristics of Rhizobium leguminosarum bv. trifolii isolates which represent major and minor nodule-occupying chromosomal types of field- grown subclover (Trifolium subterraneum L.) Applied and Environmental Microbiology. 60: 427-433.  0.72
1994 Leung K, Yap K, Dashti N, Bottomley PJ. Serological and ecological characteristics of a nodule-dominant serotype from an indigenous soil population of Rhizobium leguminosarum bv. trifolii Applied and Environmental Microbiology. 60: 408-415.  0.72
1994 Bottomley PJ, Cheng HH, Strain SR. Genetic structure and symbiotic characteristics of a Bradyrhizobium population recovered from a pasture soil Applied and Environmental Microbiology. 60: 1754-1761.  0.72
1994 Leung K, Strain SR, De Bruijn FJ, Bottomley PJ. Genotypic and phenotypic comparisons of chromosomal types within an indigenous soil population of Rhizobium leguminosarum bv. trifolii Applied and Environmental Microbiology. 60: 416-426.  0.72
1993 Bottomley PJ. Microbial activity in soil Current Opinion in Biotechnology. 4: 318-322. DOI: 10.1016/0958-1669(93)90102-3  0.72
1990 Bottomley PJ, Maggard SP. Determination of viability within serotypes of a soil population of Rhizobium leguminosarum bv. trifolii Applied and Environmental Microbiology. 56: 533-540. PMID 2407187  0.72
1989 Busse MD, Bottomley PJ. Nitrogen-fixing characteristics of alfalfa cultivars nodulated by representatives of an indigenous Rhizobium meliloti serogroup Plant and Soil. 117: 255-262. DOI: 10.1007/BF02220719  0.72
1988 Almendras AS, Bottomley PJ. Cation and phosphate influences on the nodulating characteristics of indigenous serogroups of Rhizobium trifolii on soil grown Trifolium subterraneum L Soil Biology and Biochemistry. 20: 345-351. DOI: 10.1016/0038-0717(88)90015-6  0.72
1988 Valdivia B, Dughri MH, Bottomley PJ. Antigenic and symbiotic characterization of indigenous Rhizobium leguminosarum bv. tripolii recovered from root nodules of Trifolium pratense L. sown into subterranean clover pasture soils Soil Biology and Biochemistry. 20: 267-274. DOI: 10.1016/0038-0717(88)90002-8  0.72
1987 Demezas DH, Bottomley PJ. Influence of soil and nonsoil environments on nodulation by Rhizobium trifolii Applied and Environmental Microbiology. 53: 596-597.  0.72
1985 Jenkins MB, Bottomley PJ. Composition and field distribution of the population of Rhizobium meliloti in root nodules of uninoculated field-grown alfalfa Soil Biology and Biochemistry. 17: 173-179. DOI: 10.1016/0038-0717(85)90112-9  0.72
1984 Dughri MH, Bottomley PJ. Soil acidity and the composition of an indigenous population of Rhizobium tripolii in nodules of different cultivars of Trifolium subterraneum L Soil Biology and Biochemistry. 16: 405-411. DOI: 10.1016/0038-0717(84)90041-5  0.72
1984 Demezas DH, Bottomley PJ. IDENTIFICATION OF TWO DOMINANT SEROTYPES OF RHIZOBIUM TRIFOLII IN ROOT NODULES OF UNINOCULATED FIELD-GROWN SUBCLOVER Soil Science Society of America Journal. 48: 1067-1071.  0.72
1983 Dughri MH, Bottomley PJ. Complementary methodologies to delineate the composition of Rhizobium trifolii populations in root nodules Soil Science Society of America Journal. 47: 939-945.  0.72
1983 Bottomley PJ, Jenkins MB. Some characteristics of Rhizobium meliloti isolates from alfalfa fields in Oregon Soil Science Society of America Journal. 47: 1153-1157.  0.72
1980 Bottomley PJ, Van Baalen C, Tabita FR. Heterocyst differentiation and tryptophan metabolism in the cyanobacterium Anabaena sp. CA Archives of Biochemistry and Biophysics. 203: 204-213. PMID 6773477  0.72
1979 Bottomley PJ, Grillo JF, Van Baalen C, Tabita FR. Synthesis of nitrogenase and heterocysts by Anabaena sp. CA in the presence of high levels of ammonia Journal of Bacteriology. 140: 938-943. PMID 118162  0.72
1979 Grillo JF, Bottomley PJ, Van Baalen C, Tabita FR. A mutant of Anabaena sp. CA with oxygen-sensitive nitrogenase activity Biochemical and Biophysical Research Communications. 89: 685-693. PMID 114179 DOI: 10.1016/0006-291X(79)90684-3  0.72
1979 Stacey G, Bottomley PJ, Van Baalen C, Tabita FR. Control of heterocyst and nitrogenase synthesis in cyanobacteria Journal of Bacteriology. 137: 321-326. PMID 104963  0.72
1978 Bottomley PJ, Van Baalen C. Dark hexose metabolism by photoautotrophically and heterotrophically grown cells of the blue-green alga (cyanobacterium) Nostoc sp. strain mac Journal of Bacteriology. 135: 888-894. PMID 99438  0.72
1978 Bottomley PJ, Van Baalen C. Characteristics of heterotrophic growth in the blue-green alga Nostoc sp. strain Mac Journal of General Microbiology. 107: 309-318.  0.72
1976 Bottomley PJ, Stewart WD. ATP pools and transientss in the blue-green alga, Anabaena cylindrica. Archives of Microbiology. 108: 249-58. PMID 821448 DOI: 10.1007/BF00454849  0.72
1976 Bottomley PJ, Stewart WDP. The measurement and significance of atp pools in filamentous blue-green algae British Phycological Journal. 11: 69-82. DOI: 10.1080/00071617600650111  0.72
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