Katherine D. McMahon - Publications

Civil and Environmental Engr University of Wisconsin, Madison, Madison, WI 
Environmental Engineering, Ecology Biology, Microbiology Biology

115 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
2021 Tran PQ, Bachand SC, McIntyre PB, Kraemer BM, Vadeboncoeur Y, Kimirei IA, Tamatamah R, McMahon KD, Anantharaman K. Depth-discrete metagenomics reveals the roles of microbes in biogeochemical cycling in the tropical freshwater Lake Tanganyika. The Isme Journal. PMID 33564113 DOI: 10.1038/s41396-021-00898-x  1
2021 Berg M, Goudeau D, Olmsted C, McMahon KD, Yitbarek S, Thweatt JL, Bryant DA, Eloe-Fadrosh EA, Malmstrom RR, Roux S. Host population diversity as a driver of viral infection cycle in wild populations of green sulfur bacteria with long standing virus-host interactions. The Isme Journal. PMID 33452481 DOI: 10.1038/s41396-020-00870-1  1
2020 Lawson CE, Nuijten GHL, de Graaf RM, Jacobson TB, Pabst M, Stevenson DM, Jetten MSM, Noguera DR, McMahon KD, Amador-Noguez D, Lücker S. Autotrophic and mixotrophic metabolism of an anammox bacterium revealed by in vivo C and H metabolic network mapping. The Isme Journal. PMID 33082573 DOI: 10.1038/s41396-020-00805-w  1
2020 McDaniel EA, Peterson BD, Stevens SLR, Tran PQ, Anantharaman K, McMahon KD. Expanded Phylogenetic Diversity and Metabolic Flexibility of Mercury-Methylating Microorganisms. Msystems. 5. PMID 32817383 DOI: 10.1128/mSystems.00299-20  1
2020 Fernandez L, Peura S, Eiler A, Linz AM, McMahon KD, Bertilsson S. Diazotroph Genomes and Their Seasonal Dynamics in a Stratified Humic Bog Lake. Frontiers in Microbiology. 11: 1500. PMID 32714313 DOI: 10.3389/Fmicb.2020.01500  1
2020 Schulz F, Roux S, Paez-Espino D, Jungbluth S, Walsh D, Denef VJ, McMahon KD, Konstantinidis KT, Eloe-Fadrosh EA, Kyrpides N, Woyke T. Giant virus diversity and host interactions through global metagenomics. Nature. PMID 31968354 DOI: 10.1038/S41586-020-1957-X  1
2019 Paez-Espino D, Zhou J, Roux S, Nayfach S, Pavlopoulos GA, Schulz F, McMahon KD, Walsh D, Woyke T, Ivanova NN, Eloe-Fadrosh EA, Tringe SG, Kyrpides NC. Diversity, evolution, and classification of virophages uncovered through global metagenomics. Microbiome. 7: 157. PMID 31823797 DOI: 10.1186/S40168-019-0768-5  1
2019 Lawson CE, Harcombe WR, Hatzenpichler R, Lindemann SR, Löffler FE, O'Malley MA, García Martín H, Pfleger BF, Raskin L, Venturelli OS, Weissbrodt DG, Noguera DR, McMahon KD. Common principles and best practices for engineering microbiomes. Nature Reviews. Microbiology. PMID 31548653 DOI: 10.1038/S41579-019-0255-9  1
2019 Camejo PY, Oyserman BO, McMahon KD, Noguera DR. Integrated Omic Analyses Provide Evidence that a " Accumulibacter phosphatis" Strain Performs Denitrification under Microaerobic Conditions. Msystems. 4. PMID 30944872 DOI: 10.1128/mSystems.00193-18  1
2019 He S, Lau MP, Linz AM, Roden EE, McMahon KD. Extracellular Electron Transfer May Be an Overlooked Contribution to Pelagic Respiration in Humic-Rich Freshwater Lakes. Msphere. 4. PMID 30674644 DOI: 10.1128/mSphere.00436-18  1
2018 Linz AM, He S, Stevens SLR, Anantharaman K, Rohwer RR, Malmstrom RR, Bertilsson S, McMahon KD. Freshwater carbon and nutrient cycles revealed through reconstructed population genomes. Peerj. 6: e6075. PMID 30581671 DOI: 10.7717/Peerj.6075  1
2018 Dwulit-Smith JR, Hamilton JJ, Stevenson DM, He S, Oyserman BO, Moya-Flores F, Garcia SL, Amador-Noguez D, McMahon KD, Forest KT. acI Actinobacteria Assemble a Functional Actinorhodopsin with Natively-synthesized Retinal. Applied and Environmental Microbiology. PMID 30315080 DOI: 10.1128/Aem.01678-18  1
2018 Rohwer RR, Hamilton JJ, Newton RJ, McMahon KD. TaxAss: Leveraging a Custom Freshwater Database Achieves Fine-Scale Taxonomic Resolution. Msphere. 3. PMID 30185512 DOI: 10.1128/mSphere.00327-18  1
2018 Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, ... ... McMahon KD, et al. Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology. 36: 660. PMID 29979671 DOI: 10.1038/Nbt0718-660A  1
2018 Garcia SL, Buck M, Hamilton JJ, Wurzbacher C, Grossart HP, McMahon KD, Eiler A. Model Communities Hint at Promiscuous Metabolic Linkages between Ubiquitous Free-Living Freshwater Bacteria. Msphere. 3. PMID 29848762 DOI: 10.1128/mSphere.00202-18  1
2018 Korosh TC, Dutcher A, Pfleger BF, McMahon KD. Inhibition of Cyanobacterial Growth on a Municipal Wastewater Sidestream Is Impacted by Temperature. Msphere. 3. PMID 29507895 DOI: 10.1128/mSphere.00538-17  1
2018 Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, ... ... McMahon KD, et al. Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology. 36: 196. PMID 29406516 DOI: 10.1038/Nbt0218-196A  1
2017 Garcia SL, Stevens SLR, Crary B, Martinez-Garcia M, Stepanauskas R, Woyke T, Tringe SG, Andersson SGE, Bertilsson S, Malmstrom RR, McMahon KD. Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations. The Isme Journal. PMID 29222442 DOI: 10.1038/S41396-017-0001-0  1
2017 Camejo PY, Owen BR, Martirano J, Ma J, Kapoor V, Domingo JS, McMahon KD, Noguera DR. Corrigendum to "Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors" [Water Res. 102 (2016) 125-137]. Water Research. 127: 258. PMID 29153149 DOI: 10.1016/J.Watres.2017.10.056  1
2017 Korosh TC, Markley AL, Clark RL, McGinley LL, McMahon KD, Pfleger BF. Engineering photosynthetic production of L-lysine. Metabolic Engineering. PMID 29111438 DOI: 10.1016/J.Ymben.2017.10.010  1
2017 Roux S, Chan LK, Egan R, Malmstrom RR, McMahon KD, Sullivan MB. Ecogenomics of virophages and their giant virus hosts assessed through time series metagenomics. Nature Communications. 8: 858. PMID 29021524 DOI: 10.1038/S41467-017-01086-2  1
2017 Hall MW, Rohwer RR, Perrie J, McMahon KD, Beiko RG. Ananke: temporal clustering reveals ecological dynamics of microbial communities. Peerj. 5: e3812. PMID 28966891 DOI: 10.7717/Peerj.3812  1
2017 He S, Stevens SLR, Chan LK, Bertilsson S, Glavina Del Rio T, Tringe SG, Malmstrom RR, McMahon KD. Ecophysiology of Freshwater Verrucomicrobia Inferred from Metagenome-Assembled Genomes. Msphere. 2. PMID 28959738 DOI: 10.1128/mSphere.00277-17  1
2017 Camejo PY, Santo Domingo J, McMahon KD, Noguera DR. Genome-Enabled Insights into the Ecophysiology of the Comammox Bacterium "Candidatus Nitrospira nitrosa". Msystems. 2. PMID 28905001 DOI: 10.1128/mSystems.00059-17  1
2017 Hamilton JJ, Garcia SL, Brown BS, Oyserman BO, Moya-Flores F, Bertilsson S, Malmstrom RR, Forest KT, McMahon KD. Metabolic Network Analysis and Metatranscriptomics Reveal Auxotrophies and Nutrient Sources of the Cosmopolitan Freshwater Microbial Lineage acI. Msystems. 2. PMID 28861526 DOI: 10.1128/mSystems.00091-17  1
2017 Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, ... ... McMahon KD, et al. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology. 35: 725-731. PMID 28787424 DOI: 10.1038/Nbt.3893  1
2017 Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD. Erratum for Linz et al., "Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes". Msphere. 2. PMID 28744483 DOI: 10.1128/mSphere.00296-17  1
2017 Linz AM, Crary BC, Shade A, Owens S, Gilbert JA, Knight R, McMahon KD. Bacterial Community Composition and Dynamics Spanning Five Years in Freshwater Bog Lakes. Msphere. 2. PMID 28680968 DOI: 10.1128/mSphere.00169-17  1
2017 Lawson CE, Wu S, Bhattacharjee AS, Hamilton JJ, McMahon KD, Goel R, Noguera DR. Metabolic network analysis reveals microbial community interactions in anammox granules. Nature Communications. 8: 15416. PMID 28561030 DOI: 10.1038/Ncomms15416  1
2017 Bhattacharjee AS, Wu S, Lawson CE, Jetten MS, Kapoor V, Domingo JW, McMahon KD, Noguera DR, Goel R. Whole community metagenomics in two different anammox configurations: process performance and community structure. Environmental Science & Technology. PMID 28306234 DOI: 10.1021/Acs.Est.6B05855  1
2017 Oyserman BO, Martirano JM, Wipperfurth S, Owen BR, Noguera DR, McMahon KD. Community Assembly and Ecology of Activated Sludge Under Photosynthetic Feast/Famine Conditions. Environmental Science & Technology. PMID 28240542 DOI: 10.1021/Acs.Est.6B03976  1
2016 Paez-Espino D, Chen IA, Palaniappan K, Ratner A, Chu K, Szeto E, Pillay M, Huang J, Markowitz VM, Nielsen T, Huntemann M, K Reddy TB, Pavlopoulos GA, Sullivan MB, Campbell BJ, ... ... McMahon K, et al. IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses. Nucleic Acids Research. PMID 27799466 DOI: 10.1093/Nar/Gkw1030  1
2016 Camejo PY, Owen BR, Martirano J, Ma J, Kapoor V, Santo Domingo J, McMahon KD, Noguera DR. Candidatus Accumulibacter phosphatis clades enriched under cyclic anaerobic and microaerobic conditions simultaneously use different electron acceptors. Water Research. 102: 125-137. PMID 27340814 DOI: 10.1016/J.Watres.2016.06.033  1
2016 Oyserman BO, Moya F, Lawson CE, Garcia AL, Vogt M, Heffernen M, Noguera DR, McMahon KD. Ancestral genome reconstruction identifies the evolutionary basis for trait acquisition in polyphosphate accumulating bacteria. The Isme Journal. PMID 27128993 DOI: 10.1038/Ismej.2016.67  1
2016 Eiler A, Mondav R, Sinclair L, Fernandez-Vidal L, Scofield DG, Schwientek P, Martinez-Garcia M, Torrents D, McMahon KD, Andersson SG, Stepanauskas R, Woyke T, Bertilsson S. Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria. The Isme Journal. PMID 26784354 DOI: 10.1038/Ismej.2015.260  1
2016 Bendall ML, Stevens SL, Chan LK, Malfatti S, Schwientek P, Tremblay J, Schackwitz W, Martin J, Pati A, Bushnell B, Froula J, Kang D, Tringe SG, Bertilsson S, Moran MA, ... ... McMahon KD, et al. Genome-wide selective sweeps and gene-specific sweeps in natural bacterial populations. The Isme Journal. PMID 26744812 DOI: 10.1038/Ismej.2015.241  1
2016 Eiler A, Mondav R, Sinclair L, Fernandez-Vidal L, Scofield DG, Schwientek P, Martinez-Garcia M, Torrents D, McMahon KD, Andersson SGE, Stepanauskas R, Woyke T, Bertilsson S. Tuning fresh: radiation through rewiring of central metabolism in streamlined bacteria Isme Journal. DOI: 10.1038/ismej.2015.260  1
2015 Srivastava A, McMahon KD, Stepanauskas R, Grossart HP. De novo synthesis and functional analysis of the phosphatase-encoding gene acI-B of uncultured Actinobacteria from Lake Stechlin (NE Germany). International Microbiology : the Official Journal of the Spanish Society For Microbiology. 18: 39-47. PMID 27762428 DOI: 10.2436/20.1501.01.262  1
2015 Oyserman BO, Noguera DR, Del Rio TG, Tringe SG, McMahon KD. Metatranscriptomic insights on gene expression and regulatory controls in Candidatus Accumulibacter phosphatis. The Isme Journal. PMID 26555245 DOI: 10.1038/Ismej.2015.155  1
2015 Garcia SL, Buck M, McMahon KD, Grossart HP, Eiler A, Warnecke F. Auxotrophy and intra-population complementary in the 'interactome' of a cultivated freshwater model community. Molecular Ecology. PMID 26179741 DOI: 10.1111/Mec.13319  1
2015 Beversdorf LJ, Miller TR, McMahon KD. Long-term monitoring reveals carbon-nitrogen metabolism key to microcystin production in eutrophic lakes. Frontiers in Microbiology. 6: 456. PMID 26029192 DOI: 10.3389/Fmicb.2015.00456  1
2015 Beversdorf LJ, Chaston SD, Miller TR, McMahon KD. Microcystin mcyA and mcyE Gene Abundances Are Not Appropriate Indicators of Microcystin Concentrations in Lakes. Plos One. 10: e0125353. PMID 25945933 DOI: 10.1371/Journal.Pone.0125353  1
2015 Fey SB, Mertens AN, Beversdorf LJ, McMahon KD, Cottingham KL. Recognizing cross-ecosystem responses to changing temperatures: Soil warming impacts pelagic food webs Oikos. 124: 1473-1481. DOI: 10.1111/Oik.01939  1
2014 Ghylin TW, Garcia SL, Moya F, Oyserman BO, Schwientek P, Forest KT, Mutschler J, Dwulit-Smith J, Chan LK, Martinez-Garcia M, Sczyrba A, Stepanauskas R, Grossart HP, Woyke T, Warnecke F, ... ... McMahon KD, et al. Comparative single-cell genomics reveals potential ecological niches for the freshwater acI Actinobacteria lineage. The Isme Journal. 8: 2503-16. PMID 25093637 DOI: 10.1038/Ismej.2014.135  1
2014 Read EK, Ivancic M, Hanson P, Cade-Menun BJ, McMahon KD. Phosphorus speciation in a eutrophic lake by ³¹P NMR spectroscopy. Water Research. 62: 229-40. PMID 24956605 DOI: 10.1016/J.Watres.2014.06.005  1
2014 Garcia SL, McMahon KD, Grossart HP, Warnecke F. Successful enrichment of the ubiquitous freshwater acI Actinobacteria. Environmental Microbiology Reports. 6: 21-7. PMID 24596259 DOI: 10.1111/1758-2229.12104  1
2014 Eiler A, Zaremba-Niedzwiedzka K, Martínez-García M, McMahon KD, Stepanauskas R, Andersson SG, Bertilsson S. Productivity and salinity structuring of the microplankton revealed by comparative freshwater metagenomics. Environmental Microbiology. 16: 2682-98. PMID 24118837 DOI: 10.1111/1462-2920.12301  1
2013 Flowers JJ, Cadkin TA, McMahon KD. Seasonal bacterial community dynamics in a full-scale enhanced biological phosphorus removal plant. Water Research. 47: 7019-31. PMID 24200007 DOI: 10.1016/J.Watres.2013.07.054  1
2013 Miller TR, Beversdorf L, Chaston SD, McMahon KD. Spatiotemporal molecular analysis of cyanobacteria blooms reveals Microcystis--Aphanizomenon interactions. Plos One. 8: e74933. PMID 24086400 DOI: 10.1371/Journal.Pone.0074933  1
2013 Flowers JJ, He S, Malfatti S, del Rio TG, Tringe SG, Hugenholtz P, McMahon KD. Comparative genomics of two 'Candidatus Accumulibacter' clades performing biological phosphorus removal. The Isme Journal. 7: 2301-14. PMID 23887171 DOI: 10.1038/Ismej.2013.117  1
2013 McMahon KD, Read EK. Microbial contributions to phosphorus cycling in eutrophic lakes and wastewater. Annual Review of Microbiology. 67: 199-219. PMID 23799816 DOI: 10.1146/Annurev-Micro-092412-155713  1
2013 Beversdorf LJ, Miller TR, McMahon KD. The role of nitrogen fixation in cyanobacterial bloom toxicity in a temperate, eutrophic lake. Plos One. 8: e56103. PMID 23405255 DOI: 10.1371/Journal.Pone.0056103  1
2013 Bareither CA, Wolfe GL, McMahon KD, Benson CH. Microbial diversity and dynamics during methane production from municipal solid waste. Waste Management (New York, N.Y.). 33: 1982-92. PMID 23318155 DOI: 10.1016/J.Wasman.2012.12.013  1
2013 Youngblut ND, Shade A, Read JS, McMahon KD, Whitaker RJ. Lineage-specific responses of microbial communities to environmental change. Applied and Environmental Microbiology. 79: 39-47. PMID 23064335 DOI: 10.1128/Aem.02226-12  1
2013 Kara EL, Hanson PC, Hu YH, Winslow L, McMahon KD. A decade of seasonal dynamics and co-occurrences within freshwater bacterioplankton communities from eutrophic Lake Mendota, WI, USA. The Isme Journal. 7: 680-4. PMID 23051691 DOI: 10.1038/Ismej.2012.118  1
2013 Garcia SL, McMahon KD, Martinez-Garcia M, Srivastava A, Sczyrba A, Stepanauskas R, Grossart HP, Woyke T, Warnecke F. Metabolic potential of a single cell belonging to one of the most abundant lineages in freshwater bacterioplankton. The Isme Journal. 7: 137-47. PMID 22810059 DOI: 10.1038/Ismej.2012.86  1
2012 Ghai R, McMahon KD, Rodriguez-Valera F. Breaking a paradigm: cosmopolitan and abundant freshwater actinobacteria are low GC. Environmental Microbiology Reports. 4: 29-35. PMID 23757226 DOI: 10.1111/J.1758-2229.2011.00274.X  1
2012 Jones SE, Cadkin TA, Newton RJ, McMahon KD. Spatial and temporal scales of aquatic bacterial beta diversity. Frontiers in Microbiology. 3: 318. PMID 22969757 DOI: 10.3389/Fmicb.2012.00318  1
2012 Ghai R, Hernandez CM, Picazo A, Mizuno CM, Ininbergs K, Díez B, Valas R, DuPont CL, McMahon KD, Camacho A, Rodriguez-Valera F. Metagenomes of Mediterranean coastal lagoons. Scientific Reports. 2: 490. PMID 22778901 DOI: 10.1038/Srep00490  1
2012 Shade A, Read JS, Youngblut ND, Fierer N, Knight R, Kratz TK, Lottig NR, Roden EE, Stanley EH, Stombaugh J, Whitaker RJ, Wu CH, McMahon KD. Lake microbial communities are resilient after a whole-ecosystem disturbance. The Isme Journal. 6: 2153-67. PMID 22739495 DOI: 10.1038/Ismej.2012.56  1
2012 Kara EL, Hanson P, Hamilton D, Hipsey MR, McMahon KD, Read JS, Winslow L, Dedrick J, Rose K, Carey CC, Bertilsson S, da Motta Marques D, Beversdorf L, Miller T, Wu C, et al. Time-scale dependence in numerical simulations: Assessment of physical, chemical, and biological predictions in a stratified lake at temporal scales of hours to months Environmental Modelling and Software. 35: 104-121. DOI: 10.1016/J.Envsoft.2012.02.014  1
2011 Ghai R, Pašić L, Fernández AB, Martin-Cuadrado AB, Mizuno CM, McMahon KD, Papke RT, Stepanauskas R, Rodriguez-Brito B, Rohwer F, Sánchez-Porro C, Ventosa A, Rodríguez-Valera F. New abundant microbial groups in aquatic hypersaline environments. Scientific Reports. 1: 135. PMID 22355652 DOI: 10.1038/Srep00135  1
2011 Ghai R, Rodriguez-Valera F, McMahon KD, Toyama D, Rinke R, Cristina Souza de Oliveira T, Wagner Garcia J, Pellon de Miranda F, Henrique-Silva F. Metagenomics of the water column in the pristine upper course of the Amazon river. Plos One. 6: e23785. PMID 21915244 DOI: 10.1371/Journal.Pone.0023785  1
2011 Shade A, Read JS, Welkie DG, Kratz TK, Wu CH, McMahon KD. Resistance, resilience and recovery: aquatic bacterial dynamics after water column disturbance. Environmental Microbiology. 13: 2752-67. PMID 21883795 DOI: 10.1111/J.1462-2920.2011.02546.X  1
2011 Miller TR, McMahon KD. Genetic diversity of cyanobacteria in four eutrophic lakes. Fems Microbiology Ecology. 78: 336-48. PMID 21707672 DOI: 10.1111/J.1574-6941.2011.01162.X  1
2011 Hoover SW, Marner WD, Brownson AK, Lennen RM, Wittkopp TM, Yoshitani J, Zulkifly S, Graham LE, Chaston SD, McMahon KD, Pfleger BF. Bacterial production of free fatty acids from freshwater macroalgal cellulose. Applied Microbiology and Biotechnology. 91: 435-46. PMID 21643704 DOI: 10.1007/S00253-011-3344-X  1
2011 Skennerton CT, Angly FE, Breitbart M, Bragg L, He S, McMahon KD, Hugenholtz P, Tyson GW. Phage encoded H-NS: a potential achilles heel in the bacterial defence system. Plos One. 6: e20095. PMID 21625595 DOI: 10.1371/Journal.Pone.0020095  1
2011 Newton RJ, Jones SE, Eiler A, McMahon KD, Bertilsson S. A guide to the natural history of freshwater lake bacteria. Microbiology and Molecular Biology Reviews : Mmbr. 75: 14-49. PMID 21372319 DOI: 10.1128/Mmbr.00028-10  1
2011 He S, McMahon KD. Microbiology of 'Candidatus Accumulibacter' in activated sludge. Microbial Biotechnology. 4: 603-19. PMID 21338476 DOI: 10.1111/J.1751-7915.2011.00248.X  1
2011 Newton RJ, McMahon KD. Seasonal differences in bacterial community composition following nutrient additions in a eutrophic lake. Environmental Microbiology. 13: 887-99. PMID 21138514 DOI: 10.1111/J.1462-2920.2010.02387.X  1
2011 He S, McMahon KD. 'Candidatus Accumulibacter' gene expression in response to dynamic EBPR conditions. The Isme Journal. 5: 329-40. PMID 20703317 DOI: 10.1038/Ismej.2010.127  1
2011 Read JS, Shade A, Wu CH, Gorzalski A, McMahon KD. "Gradual entrainment lake inverter" (GELI): A novel device for experimental lake mixing Limnology and Oceanography: Methods. 9: 14-28. DOI: 10.4319/Lom.2011.9.14  1
2010 He S, Bishop FI, McMahon KD. Bacterial community and "Candidatus Accumulibacter" population dynamics in laboratory-scale enhanced biological phosphorus removal reactors. Applied and Environmental Microbiology. 76: 5479-87. PMID 20601516 DOI: 10.1128/Aem.00370-10  1
2010 Seyfried EE, Newton RJ, Rubert KF, Pedersen JA, McMahon KD. Occurrence of tetracycline resistance genes in aquaculture facilities with varying use of oxytetracycline. Microbial Ecology. 59: 799-807. PMID 20217406 DOI: 10.1007/S00248-009-9624-7  1
2010 He S, Kunin V, Haynes M, Martin HG, Ivanova N, Rohwer F, Hugenholtz P, McMahon KD. Metatranscriptomic array analysis of 'Candidatus Accumulibacter phosphatis'-enriched enhanced biological phosphorus removal sludge. Environmental Microbiology. 12: 1205-17. PMID 20148930 DOI: 10.1111/J.1462-2920.2010.02163.X  1
2010 Shade A, Chiu CY, McMahon KD. Differential bacterial dynamics promote emergent community robustness to lake mixing: an epilimnion to hypolimnion transplant experiment. Environmental Microbiology. 12: 455-66. PMID 19878266 DOI: 10.1111/J.1462-2920.2009.02087.X  1
2010 Shade A, Chiu CY, McMahon KD. Seasonal and episodic lake mixing stimulate differential planktonic bacterial dynamics. Microbial Ecology. 59: 546-54. PMID 19760448 DOI: 10.1007/S00248-009-9589-6  1
2009 Flowers JJ, He S, Yilmaz S, Noguera DR, McMahon KD. Denitrification capabilities of two biological phosphorus removal sludges dominated by different "Candidatus Accumulibacter" clades. Environmental Microbiology Reports. 1: 583-588. PMID 20808723 DOI: 10.1111/J.1758-2229.2009.00090.X  1
2009 Jones SE, Newton RJ, McMahon KD. Evidence for structuring of bacterial community composition by organic carbon source in temperate lakes. Environmental Microbiology. 11: 2463-72. PMID 19558514 DOI: 10.1111/J.1462-2920.2009.01977.X  1
2009 Shade A, Carey CC, Kara E, Bertilsson S, McMahon KD, Smith MC. Can the black box be cracked? The augmentation of microbial ecology by high-resolution, automated sensing technologies. The Isme Journal. 3: 881-8. PMID 19458653 DOI: 10.1038/Ismej.2009.56  1
2009 Jones SE, McMahon KD. Species-sorting may explain an apparent minimal effect of immigration on freshwater bacterial community dynamics. Environmental Microbiology. 11: 905-13. PMID 19040451 DOI: 10.1111/J.1462-2920.2008.01814.X  1
2008 Hinckley GT, Johnson CJ, Jacobson KH, Bartholomay C, McMahon KD, McKenzie D, Aiken JM, Pedersen JA. Persistence of pathogenic prion protein during simulated wastewater treatment processes. Environmental Science & Technology. 42: 5254-9. PMID 18754377 DOI: 10.1021/Es703186E  1
2008 Peterson SB, Warnecke F, Madejska J, McMahon KD, Hugenholtz P. Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal. Environmental Microbiology. 10: 2692-703. PMID 18643843 DOI: 10.1111/J.1462-2920.2008.01690.X  1
2008 Gil IS, Sheldon W, Schmidt T, Servilla M, Aguilar R, Gries C, Gray T, Field D, Cole J, Pan JY, Palanisamy G, Henshaw D, O'Brien M, Kinkel L, McMahon K, et al. Defining linkages between the GSC and NSF's LTER program: how the Ecological Metadata Language (EML) relates to GCDML and other outcomes. Omics : a Journal of Integrative Biology. 12: 151-6. PMID 18407745 DOI: 10.1089/Omi.2008.0015  1
2008 Jones SE, Newton RJ, McMahon KD. Potential for atmospheric deposition of bacteria to influence bacterioplankton communities. Fems Microbiology Ecology. 64: 388-94. PMID 18393990 DOI: 10.1111/J.1574-6941.2008.00476.X  1
2008 Shade A, Jones SE, McMahon KD. The influence of habitat heterogeneity on freshwater bacterial community composition and dynamics. Environmental Microbiology. 10: 1057-67. PMID 18218031 DOI: 10.1111/J.1462-2920.2007.01527.X  1
2008 Kunin V, He S, Warnecke F, Peterson SB, Garcia Martin H, Haynes M, Ivanova N, Blackall LL, Breitbart M, Rohwer F, McMahon KD, Hugenholtz P. A bacterial metapopulation adapts locally to phage predation despite global dispersal. Genome Research. 18: 293-7. PMID 18077539 DOI: 10.1101/Gr.6835308  1
2008 Cho YK, Donohue TJ, Tejedor I, Anderson MA, McMahon KD, Noguera DR. Development of a solar-powered microbial fuel cell. Journal of Applied Microbiology. 104: 640-50. PMID 17927750 DOI: 10.1111/J.1365-2672.2007.03580.X  1
2008 He S, Gu AZ, McMahon KD. Progress toward understanding the distribution of Accumulibacter among full-scale enhanced biological phosphorus removal systems. Microbial Ecology. 55: 229-36. PMID 17605067 DOI: 10.1007/S00248-007-9270-X  1
2008 Jones SE, Chiu CY, Kratz TK, Wu JT, Shade A, McMahon KD. Typhoons initiate predictable change in aquatic bacterial communities Limnology and Oceanography. 53: 1319-1326.  1
2007 Kent AD, Yannarell AC, Rusak JA, Triplett EW, McMahon KD. Synchrony in aquatic microbial community dynamics. The Isme Journal. 1: 38-47. PMID 18043612 DOI: 10.1038/Ismej.2007.6  1
2007 Newton RJ, Jones SE, Helmus MR, McMahon KD. Phylogenetic ecology of the freshwater Actinobacteria acI lineage. Applied and Environmental Microbiology. 73: 7169-76. PMID 17827330 DOI: 10.1128/Aem.00794-07  1
2007 He S, Gall DL, McMahon KD. "Candidatus Accumulibacter" population structure in enhanced biological phosphorus removal sludges as revealed by polyphosphate kinase genes. Applied and Environmental Microbiology. 73: 5865-74. PMID 17675445 DOI: 10.1128/Aem.01207-07  1
2007 McMahon KD, Yilmaz S, He S, Gall DL, Jenkins D, Keasling JD. Polyphosphate kinase genes from full-scale activated sludge plants. Applied Microbiology and Biotechnology. 77: 167-73. PMID 17671784 DOI: 10.1007/S00253-007-1122-6  1
2007 McMahon KD, Martin HG, Hugenholtz P. Integrating ecology into biotechnology. Current Opinion in Biotechnology. 18: 287-92. PMID 17509863 DOI: 10.1016/J.Copbio.2007.04.007  1
2007 Auerbach EA, Seyfried EE, McMahon KD. Tetracycline resistance genes in activated sludge wastewater treatment plants. Water Research. 41: 1143-51. PMID 17239919 DOI: 10.1016/J.Watres.2006.11.045  1
2007 Jones SE, Shade AL, McMahon KD, Kent AD. Comparison of primer sets for use in automated ribosomal intergenic spacer analysis of aquatic bacterial communities: an ecological perspective. Applied and Environmental Microbiology. 73: 659-62. PMID 17122397 DOI: 10.1128/Aem.02130-06  1
2007 Shade A, Kent AD, Jones SE, Newton RJ, Triplett EW, McMahon KD. Interannual dynamics and phenology of bacterial communities in a eutrophic lake Limnology and Oceanography. 52: 487-494. DOI: 10.4319/Lo.2007.52.2.0487  1
2007 McMahon KD, Gu AZ, Nerenberg R, Angenent LT. Molecular methods in biological systems Water Environment Research. 79: 1109-1151. DOI: 10.2175/106143007X218368  1
2007 Carpenter SR, Benson BJ, Biggs R, Chipman JW, Foley JA, Golding SA, Hammer RB, Hanson PC, Johnson PTJ, Kamarainen AM, Kratz TK, Lathrop RC, McMahon KD, Provencher B, Rusak JA, et al. Understanding regional change: A comparison of two lake districts Bioscience. 57: 323-335. DOI: 10.1641/B570407  1
2006 García Martín H, Ivanova N, Kunin V, Warnecke F, Barry KW, McHardy AC, Yeates C, He S, Salamov AA, Szeto E, Dalin E, Putnam NH, Shapiro HJ, Pangilinan JL, Rigoutsos I, ... ... McMahon KD, et al. Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities. Nature Biotechnology. 24: 1263-9. PMID 16998472 DOI: 10.1038/Nbt1247  1
2006 He S, Gu AZ, McMahon KD. Fine-scale differences between Accumulibacter-like bacteria in enhanced biological phosphorus removal activated sludge. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 54: 111-7. PMID 16898143 DOI: 10.2166/Wst.2006.378  1
2006 Kent AD, Jones SE, Lauster GH, Graham JM, Newton RJ, McMahon KD. Experimental manipulations of microbial food web interactions in a humic lake: shifting biological drivers of bacterial community structure. Environmental Microbiology. 8: 1448-59. PMID 16872407 DOI: 10.1111/J.1462-2920.2006.01039.X  1
2006 Newton RJ, Kent AD, Triplett EW, McMahon KD. Microbial community dynamics in a humic lake: differential persistence of common freshwater phylotypes. Environmental Microbiology. 8: 956-70. PMID 16689717 DOI: 10.1111/J.1462-2920.2005.00979.X  1
2006 Pedersen JA, McMahon KD, Benson CH. Prions: Novel pathogens of environmental concern? Journal of Environmental Engineering. 132: 967-969. DOI: 10.1061/(Asce)0733-9372(2006)132:9(967)  1
2006 Balser TC, McMahon KD, Bart D, Bronson D, Coyle DR, Craig N, Flores-Mangual ML, Forshay K, Jones SE, Kent AE, Shade AL. Bridging the gap between micro - and macro-scale perspectives on the role of microbial communities in global change ecology Plant and Soil. 289: 59-70. DOI: 10.1007/S11104-006-9104-5  1
2005 Jacob C, Kent AD, Benson BJ, Newton RJ, Triplett EW, McMahon KD. Biological databases for linking large microbial and environmental datasets Wmsci 2005 - the 9th World Multi-Conference On Systemics, Cybernetics and Informatics, Proceedings. 6: 279-282.  1
2004 McMahon KD, Zheng D, Stams AJ, Mackie RI, Raskin L. Microbial population dynamics during start-up and overload conditions of anaerobic digesters treating municipal solid waste and sewage sludge. Biotechnology and Bioengineering. 87: 823-34. PMID 15334409 DOI: 10.1002/Bit.20192  1
2002 McMahon KD, Dojka MA, Pace NR, Jenkins D, Keasling JD. Polyphosphate kinase from activated sludge performing enhanced biological phosphorus removal. Applied and Environmental Microbiology. 68: 4971-8. PMID 12324346 DOI: 10.1128/Aem.68.10.4971-4978.2002  1
2002 McMahon KD, Jenkins D, Keasling JD. Polyphosphate kinase genes from activated sludge carrying out enhanced biological phosphorus removal. Water Science and Technology : a Journal of the International Association On Water Pollution Research. 46: 155-62. PMID 12216617  1
2001 Renninger N, McMahon KD, Knopp R, Nitsche H, Clark DS, Keasling JD. Uranyl precipitation by biomass from an enhanced biological phosphorus removal reactor. Biodegradation. 12: 401-10. PMID 12051646 DOI: 10.1023/A:1015018104682  1
2001 McMahon KD, Stroot PG, Mackie RI, Raskin L. Anaerobic codigestion of municipal solid waste and biosolids under various mixing conditions--II: Microbial population dynamics. Water Research. 35: 1817-27. PMID 11329684 DOI: 10.1016/S0043-1354(00)00438-3  1
2001 Stroot PG, McMahon KD, Mackie RI, Raskin L. Anaerobic codigestion of municipal solid waste and biosolids under various mixing conditions--I. Digester performance. Water Research. 35: 1804-16. PMID 11329683 DOI: 10.1016/S0043-1354(00)00439-5  1
1998 Griffin ME, McMahon KD, Mackie RI, Raskin L. Methanogenic population dynamics during start-up of anaerobic digesters treating municipal solid waste and biosolids. Biotechnology and Bioengineering. 57: 342-55. PMID 10099211 DOI: 10.1002/(Sici)1097-0290(19980205)57:3<342::Aid-Bit11>3.0.Co;2-I  1
1998 McMahon KD, Stahl DA, Raskin L. A comparison of the use of in vitro-transcribed and native rRNA for the quantification of microorganisms in the environment Microbial Ecology. 36: 362-371. DOI: 10.1007/s002489900122  1
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