2024
Saingam, P., Jain, T., Woicik, A., Li, B., Candry, P., Redcorn, R., Wang, S., Himmelfarb, J., Bryan, A., Winkler, M-K.H., 2024. Integrating Socio-Economic Vulnerability Factors Improves Neighborhood-Scale Wastewater-Based Epidemiology for Public Health Applications. Water Research.
Qin, W., Wei, S.P., Zheng, Y., Abrahamson, B., Flinkstrom, Z., Hunt, K. A., Stahl, D. A., Winkler, M-K.H., et al. 2024. Ammonia-oxidizing bacteria and archaea exhibit differential nitrogen source preferences. Nat Microbiol.
Nguyen Quoc, B., Cavanaugh, S.K., Hunt, K.A., Bryson, S.J. and Winkler, M-K.H., 2024. Impact of aerobic granular sludge sizes and dissolved oxygen concentration on greenhouse gas N2O emission. Water Research, p.121479
Nguyen Quoc, B., Peng, B., De Clippeleir, H. and Winkler, M-K.H., 2024. Case study: Bioaugmenting the comammox dominated biomass from B‐stage to enhance nitrification in A‐stage at Blue Plains AWWTP. Water Environment Research, 96(3)
Zheng, Y., Wang, B., Gao, P., Yang, Y., Xu, B., Su, X., Ning, D., Tao, Q., Li, Q.,Winkler, M-K.H., Zhao, F. and Wang, D., 2024. Novel order-level lineage of ammonia-oxidizing archaea widespread in marine and terrestrial environments. The ISME Journal, 18(1), p.wrad002.
2023
Horn, E.K., Joyce, A., Chowdhury, R.B., Caputo, S., Jacobs, B., Winkler, M-K.H. and Proksch, G., 2023. Translating Environmental Potential to Economic Reality: Assessment of Commercial Aquaponics through Sustainability Transitions Theory. Circular Economy and Sustainability, pp.1-32
Candry, P., Flinkstrom, Z. and Winkler, M-K.H., 2023. Wetlands harbor lactic acid-driven chain elongators. Microbiology Spectrum, pp.e02105-23
Candry, P., Chadwick, G.L., Caravajal-Arroyo, J.M., Lacoere, T., Winkler, M-K.H., Ganigué, R., Orphan, V. J., Rabaey, K. Trophic interactions shape the spatial organization of medium-chain carboxylic acid producing granular biofilm communities. ISME J (2023). https://doi.org/10.1038/s41396-023-01508-8
Godfrey, B, Li, B.,Gottshall, E., Brysons, S., Abrahamson, B., and Winkler, M-K.H., 2023. Co-immobilization of AOA Strains with Anammox Bacteria in Three Different Synthetic Bio-granules Maintained under Two Substrate-level Conditions. Chemosphere. Volume 342, 140192
Mohammadi, R., Eshaq, G.,Winkler, M-K.H.,and Pihlajamki, A., Recent Development of Novel Magnetic Biochar Aluminum Cross-Linked Composite Beads for Preferential Phosphate Separation from Phosphate-Rich Effluents. Available at SSRN 4555358
Xing, B., Graham, N. J. D., Zhao, B., Li, X., Tang, Y., Kappler, A., Dong, H., Winkler, M-K.H., and Yu, W. Goethite Formed in the Periplasmic Space of Pseudomonas sp. JM-7 during Fe Cycling Enhances Its Denitrification in Water. Environ. Sci. Technol.
Kim, Y., Flinkstrom, Z., Candry, P., Winkler, M-K.H. and Myung, J., Resource availability governs polyhydroxyalkanoate (PHA) accumulation and diversity of methanotrophic enrichments from wetlands. Frontiers in Bioengineering and Biotechnology, 11, p.1210392
Candry, P., Abrahamson, B., Stahl, D.A. and Winkler, M-K.H., 2023. Microbially mediated climate feedbacks from wetland ecosystems. Global Change Biology.
Li, B., Godfrey, B.J., RedCorn, R., Candry, P., Abrahamson, B., Wang, Z., Goel, R. and Winkler, M-K.H., 2023. Mainstream Nitrogen Removal from Low Temperature and Low Ammonium Strength Municipal Wastewater using Hydrogel-encapsulated Comammox and Anammox. Water Research,Volume 242, p.120303
Li, B., Godfrey, B.J., RedCorn, R., Wang, Z., Goel, R. and Winkler, M-K.H., 2023. Simultaneous anaerobic carbon and nitrogen removal from primary municipal wastewater with hydrogel encapsulated anaerobic digestion sludge and AOA-anammox coated hollow fiber membrane. Science of The Total Environment, 883, p.163696
Daigger, G.T., Kuo, J., Derlon, N., Houweling, D., Jimenez, J.A., Johnson, B.R., McQuarrie, J.P., Murthy, S., Regmi, P., Roche, C. and Sturm, B., Wett, B., Winkler, M-K.H., Boltz, J. P., 2023. Biological and Physical Selectors for Mobile Biofilms, Aerobic Granules, and Densified-Biological Flocs in Continuously Flowing Wastewater Treatment Processes: A State-of-the-Art Review. Water Research, p.120245
Wang, D., Hunt, K. A., Candry, P., Tao, X., Wofford, N. Q., Zhou, J., McInerney, M. J., Stahl, D. A., Tanner, R. S., Zhou, A., Winkler, M-K.H., Pan, C., 2023. Cross-Feedings, Competition, and Positive and Negative Synergies in a Four-Species Synthetic Community for Anaerobic Degradation of Cellulose to Methane. Mbio
Hong, S., Winkler, M-K.H., Wang, Z. and Goel, R., 2023. Integration of EBPR with mainstream anammox process to treat real municipal wastewater: process performance and microbiology. Water Research, p.119758
Saingam, P., Li, B., Nguyen Quoc, B., Jain, T., Bryan, A., and Winkler, M-K.H., 2023. Wastewater surveillance of SARS-CoV-2 at intra-city level demonstrated high resolution in tracking COVID-19 and calibration using chemical indicators. Science of The Total Environment. 2023 Jan 7, Volume 866:161467
2022
Gottshall, E.Y., Godfrey, B., Li, B., Abrahamson, B.,Winkler, M-K.H. and Qin, W., 2022. Photoinhibition of Comammox reaction in Nitrospira inopinata in a dose and wavelength-dependent manner. Frontiers in Microbiology, p.4964
Candry, P., Godfrey, B.J., Wang, Z., Sabba, F., Dieppa, E., Fudge, J., Balogun, O., Wells, G., and Winkler, M-K.H., 2023. Tailoring polyvinyl alcohol-sodium alginate (PVA-SA) hydrogel beads by controlling crosslinking pH and time. Sci Rep 12, 20822 (2022). https://doi.org/10.1038/s41598-022-25111-7
Xie, T., Liu, X., Xu, Y., Bryson, S., Zhao, L., Huang, K., Huang, S., Li, X., Yang, Q., Dong, H. and Winkler, M-K.H., 2023. Coupling methanotrophic denitrification to anammox in a moving bed biofilm reactor for nitrogen removal under hypoxic conditions. Science of The Total Environment, 856, p.158795. https://doi.org/10.1016/j.scitotenv.2022.158795
Zhang, W., Wei, S.P., Winkler, M-K.H. and Mueller, A.V., 2022. Design of a Soft Sensor for Monitoring Phosphorous Uptake in an EBPR Process. ACS ES&T Engineering. https://doi.org/10.1021/acsestengg.2c00090
Cavanaugh, S.K., Nguyen Quoc, B., Jacobson, E., Bucher, R., Sukapanpotharam, P., and Winkler, M-K.H., 2022. Impact of nitrite and oxygen on nitrous oxide emissions from a granular sludge sequencing batch reactor. Chemosphere, p.136378. https://doi.org/10.1016/j.chemosphere.2022.136378
Nguyen Quoc, B., Saingam, P., RedCorn, R., Carter, J. A., Jain, T., Candry, P., Gattuso, M., Huang, M. W. , Greninger, A. L., Meschke, J. S., Bryan, A., and Winkler, M-K.H., 2022. Case Study: Impact of Diurnal Variations and Stormwater Dilution on SARS-CoV-2 RNA Signal Intensity at Neighborhood Scale Wastewater Pumping Stations. ACS ES&T Water. https://doi.org/10.1021/acsestwater.2c00016
Bryson, S.J., Hunt, K.A., Stahl, D.A. and Winkler, M-K.H., Metagenomic insights into competition between denitrification and DNRA within one-stage and two-stage partial-nitritation Anammox bioreactor configurations. Frontiers in Microbiology, p.1402
Winkler, M-K.H., and M. C. M. Van Loosdrecht, 2022. Intensifying existing urban wastewater. Science, Vol 375, Issue 6579, pp. 377-378
2021
RedCorn, R., Jake, J.L., Gottshall, E., Stahl, D.A. and Winkler, M-K.H., 2021. Light-Weight Oxygen Supply for Portable Biological Nitrogen Removal from Urine and Sweat. Chemical Engineering Journal Advances, p.100235
Pelivano, B., Bryson, S., Hunt, K.A., Denecke, M., Stahl, D.A. and Winkler, M-K.H., 2021. Application of pyritic sludge with an anaerobic granule consortium for nitrate removal in low carbon systems. Water Research, p.117933
Landreau, M., You, H., Stahl, D.A., and Winkler, M-K.H., 2021. Immobilization of active ammonia-oxidizing archaea in hydrogel beads. npj Clean Water 4, 43 (2021). https://doi.org/10.1038/s41545-021-00134-1
Wei, S. P., Stensel, H. D., Ziels, R. M., Herrera, S., Lee, P.-H. and Winkler, M-K.H., 2021. Partitioning of Nutrient Removal Contribution Between Granules and Flocs in a Hybrid Granular Activated Sludge System. Water Research, 117514
Gottshall, E.Y., Bryson, S.J., Cogert, K.I., Landreau, M., Sedlacek, C.J., Stahl, D.A., Daims, H. and Winkler, M-K.H., 2021. Sustained nitrogen loss in a symbiotic association of Comammox Nitrospira and Anammox bacteria. Water Research, p.117426
Yin, J., Hunt, K.A., Xie, T., Quoc, B.N., Tran, K., Stahl, D.A. and Winkler, M-K.H., 2021. Pairing denitrifying phosphorus accumulating organisms with anaerobic ammonium oxidizing bacteria for simultaneous N and P removal. Science of The Total Environment, p.147521.
Nguyen Quoc, B., Armenta, M., Carter, J., Bucher, R., Sukapanpotharam, P., Stahl, D.A., Stensel, H.D. and Winkler, M.K.H., 2021. An investigation into the optimal granular sludge size for simultaneous nitrogen and phosphate removal. Water Research. DOI: 10.1016/j.watres.2021.117119
2020
Wei, S.P., Nguyen Quoc, B., Shapiro, M., Chang, P.H., Jason, C. and Winkler, M.-K. H., 2020. Application of Aerobic Kenaf Granules for Biological Nutrient Removal in a Full-scale Continuous Flow Activated Sludge System. Chemosphere, p.129522.
Jia, Mingsheng; Winkler, M.-K. H.; Volcke, Eveline, 2020. Elucidating the competition between heterotrophic denitrification and DNRA using the resource-ratio theory. Environmental Science & Technology, 54(21), pp.13953-13962.
Nguyen Quoc, B., Wei, S., Armenta, M., Bucher, R., Sukapanpotharam, P., Stahl, D.A., Stensel, H.D. and Winkler, M.K.H., 2020. Aerobic granular sludge: Impact of size distribution on nitrification capacity. Water Research, p.116445.
Garg, A., Stensel, H.D., Bucher, B., Sukapanpotharam, P. and Winkler, M.K., 2020. Effect of waste activated sludge pretreatment methods to mitigate Gordonia foaming potential in anaerobic digestion. Water and Environment Journal.
Weissbrodt, D.G., Winkler M-K.H., and Wells, G.F., 2020. Responsible Science, Engineering and Education for Water Resource Recovery and Circularity. Environ. Sci.: Water Res. Technol., 2020,6, 1952-1966. https://doi.org/10.1039/D0EW00402B
Qin W., Zheng Y., Zhao F., Wang Y., Urakawa H., Martens-Habbena W., Liu H., Huang X., Zhang X., Nakagawa T., Mende D.R., Bollmann A., Wang B., Zhang Y., Amin S.A., Nielsen J.L., Mori K., Takahashi R., Armbrust E.V., Winkler M-K.H., DeLong D.F., Li M., Lee P-H., Zhou J., Zhang C., Zhang T., Stahl D.A., Ingalls, A.E., 2020. Alternative strategies of nutrient acquisition and energy conservation map to the biogeography of marine ammonia-oxidizing archaea. The ISME Journal. 2020 Jul 7:1-5.
Landreau, M., Byson, S.J., You, H., Stahl, D.A. and Winkler, M-K.H., 2020. Effective nitrogen removal from ammonium-depleted wastewater by partial nitritation and anammox immobilized in granular and thin layer gel carriers. Water Research, p.116078.
Wei, S. P., Stensel, H. D., Nguyen Quoc, B., Stahl, D. A., Huang, X., Lee, P.-H., Winkler, M-K.H., 2020. Flocs in disguise? High granule abundance found in continuous-flow activated sludge treatment plants. Water research. https://doi.org/10.1016/j.watres.2020.115865
Nishiguchi, D.K., and Winkler, M-K.H. 2020. Correlating Sludge Constituents with Digester Foaming Risk Using Sludge Foam Potential and Rheology. Water Science and Technology. https://doi.org/10.2166/wst.2020.180
Yu, Z., Pesesky, M., Zhang, L., Huang, J., Winkler, M-K.H., and Chistoserdova, L., 2020. A Complex Interplay between Nitric Oxide, Quorum Sensing, and the Unique Secondary Metabolite Tundrenone Constitutes the Hypoxia Response in Methylobacter. mSystems, 5(1). DOI: 10.1128/mSystems.00770-19
2019
Kathryn Cogert, K., Ziels, R., and Winkler, M-K.H., 2019. Reducing Cost and Environmental Impact of Wastewater Treatment with Denitrifying Methanotrophs, Anammox, and Mainstream Anaerobic Treatment. Environ. Sci. Technol.2019. https://doi.org/10.1021/acs.est.9b04764
Pelivanoski, B., Detmann, B., Ooms, K., Winkler, M-K.H, Vasyukova, E. and Denecke, M., 2019. Design of a 1,000 L pilot-scale airlift bioreactor for nitrification with application of a three-phase hydrodynamic mathematical model and prediction of a low liquid circulation velocity. Chemical Engineering Research and Design. https://doi.org/10.1016/j.cherd.2019.10.018
Straka, L., Summers A, Stahl D. A., and Winkler, M-K.H., 2019. Kinetic Implication of moving warm side-stream Anaerobic Ammonium Oxidizing Bacteria to cold mainstream wastewater. Bioresource Biotechnology. https://doi.org/10.1016/j.biortech.2019.121534
Straka, L., Meinhardt K. A, Bollmann Annette, Stahl D. A., and Winkler, M-K.H., 2019. Affinity informs environmental cooperation between ammonia-oxidizing archaea (AOA) and anaerobic ammonia-oxidizing (Anammox) bacteria. The ISME journal. https://doi.org/10.1016/j.copbio.2018.12.007
Winkler, M-K.H. and Straka, L., 2019. New directions in biological nitrogen removal and recovery from wastewater. Current Opinion in Biotechnology, 57, pp.50-55. https://doi.org/10.1016/j.copbio.2018.12.007
2018
Vuono, D.C., Read, R.W., Hemp, J., Sullivan, B.W., Arnone, J.A., Neveux, I., Blank, B., Staub, C., Loney, E., Miceli, D., Winkler, M-K.H., Chakraborty, R., Stahl, D. A., Grzymski, J., 2018. Resource limitation modulates the fate of dissimilated nitrogen in a dual-pathway Actinobacterium. Front. Microbiol., doi: 10.3389/fmicb.2019.00003
Snauffer A., Chauhan U., Cogert, K., Winkler M-K.H., Mueller A.,2018, Data Fusion for Environmental Process Control: Maximizing Useful Information Recovery under Data Limited Constraints. IEEE Sensors Letters. DOI: 10.1109/LSENS.2018.2889274
Wei, S.P., van Rossum, F., van de Pol, G.J. and Winkler, M-K.H., 2018. Recovery of phosphorus and nitrogen from human urine by struvite precipitation, air stripping and acid scrubbing: A pilot study. Chemosphere. https://doi.org/10.1016/j.chemosphere.2018.08.154
Xie, T., Yang, Q., Winkler, M-K.H., Wang, D., Zhong, Y., An, H., Chen, F., Yao, F., Wang, X., Wu, J. and Li, X., 2018. Perchlorate bioreduction linked to methane oxidation in a membrane biofilm reactor: Performance and microbial community structure. Journal of hazardous materials. https://doi.org/10.1016/j.jhazmat.2018.06.011
Jia, M., Castro-Barros, C.M.,Winkler, M-K.H. and Volcke, E.I., 2018. Effect of organic matter on the performance and N 2 O emission of a granular sludge anammox reactor. Environmental Science: Water Research & Technology, 4(7), pp.1035-1046.
Figdore B.A., Stensel D., Winkler M-K.H., 2018, Bioaugmentation of sidestream nitrifying-denitrifying phosphorus-accumulating granules in a low-SRT activated sludge system at low temperature. Water Research. https://doi.org/10.1016/j.watres.2018.02.035
Figdore B.A., Stensel D.H., Winkler M-K.H., 2018, Comparison of different aerobic granular sludge types for activated sludge nitrification bioaugmentation potential, Bioresource Technology: 251: 189-196
2017
Winkler, M.K.H., Meunier, C., Henriet, O., Mahillon, J., Suárez-Ojeda, M.E., Del Moro, G., De Sanctis, M., Di Iaconi, C. and Weissbrodt, D.G., 2017. An integrative review of granular sludge for the biological removal of nutrients and recalcitrant organic matter from wastewater. Chemical Engineering Journal. https://doi.org/10.1016/j.cej.2017.12.026
Figdore B.A., Winkler M-K.H., Stensel D., 2017. Bioaugmentation with Nitrifying Granules in Low-SRT Flocculent Activated Sludge at Low Temperature. Water Environment Research.doi: 10.2175/106143017X15054988926488.
Figdore B.A., Stensel D.H., Winkler M-K.H., Neethling J.B., 2017, Aerobic Granular Sludge for Biological Nutrient Removal WHITE PAPER, Water Environment Reuse Foundation
Castro-Barros C.M., Ho L.T., Winkler M-K.H., Volcke E.I.P, 2017, Integration of Methane Removal in Aerobic Anammox-Based Granular Sludge Reactors, Environmental Technology:1-63
Winkler M-K.H., Boets P., Hahne B., Goethals P., Volcke E.I.P., 2017, Effect of the dilution rate on microbial competition: r-strategist can win over k-strategist at low substrate concentration. PLoS ONE 12(3), (IF 2014 3.234)
Castro-Barros C.M., Mingsheng J., van Loosdrecht Mark C.M., Volcke E.I.P., Winkler M-K.H., 2017, Evaluating the potential for dissimilatory nitrate reduction by anammox bacteria for municipal wastewater treatment, Bioresource Technology, 233, 363–372 (IF 2015 4.494)
2016
Winkler M-K.H., Kröber E., Mohn W., Koch F., Frigon D., 2016, Comparison of microbial populations and foaming dynamics in conventional versus membrane enhanced biological phosphorous removal system, Water and Environment Journal
Vannecke T., Nicolas B., Winkler M-K.H., Gaelle S., Steyer J., Volcke, E.P.I, 2016, Influence of process dynamics on the microbial diversity in a nitrifying biofilm reactor, Biotechnology and Bioengineering, 13 (9), 1962-1974
2015
Winkler M-K.H, Le, Q.H., and Volcke E.P.I, 2015, Influence of partial denitrification and mixotrophic growth of NOB on microbial distribution in aerobic granular sludge reactor, Environmental Science and Technology, 49:11003-11010
Winkler M-K.H, Ettwig K.F, Vannecke T.P.W, Stultiens K., Bogdan A., Kartal B. Volcke, E.P.I, 2015, Modelling simultaneous anaerobic methane and ammonium removal in a granular sludge reactor, Water Research, 73:323-331
2013
Winkler M-K.H, Bennenbroek M.H., Horstink F.H., van Loosdrecht M.C.M, van de Pol G-J., 2013, The biodrying concept: An Innovative Technology creating energy from sewage sludge, Bioresource Technology, 147:124-129
Zhang Z, Winkler M-K.H, Wu Z., Lu H., Czapar G.F., Wang H, Zheng J, 2013, A Full-scale Housefly Larva (Musca Domestica) Bioconversion for Value-added Swine Manure Stabilization, Waste Resources, 31(2):223-31
Winkler, M-K.H, van Rossum, F., Wicherink, B., 2013, Approaches to Urban Mining Recovery of Ammonium and Phosphate from Human Urine , G.I.T. Laboratory Journal
2012
Winkler, M-K.H, Yang J, Kleerebezem R, Plaza E, Trela , Hultman B., and van Loosdrecht M.C.M. 2012, Nitrate reduction by organotrophic anammox bacteria in a partial nitrifying granular sludge and a moving bed biofilm reactor, 114:217-23: Bioresource Technology
Winkler, M-K. H., Bassin J.P, Kleerebezem R., van der Lans R. G. J. M, and van Loosdrecht C.M., 2012, Temperature and salt effects on settling velocity in granular sludge technology, 46(12):3897-902: Water Research
Winkler, M-K.H, Bassin Joao. P., Kleerebezem R, Sorokin D, and van Loosdrecht M.C.M, 2012, Unravelling the reasons for disproportion in the ratio of AOB and NOB in aerobic granular sludge, 94(6):1657-66: Applied environmental biotechnology
Winkler, M-K.H, Kleerebezem R., and van Loosdrecht. M.C.M., 2012d Integration of anammox into the aerobic granular sludge process for 
mainstream wastewater treatment at ambient temperatures, 46(1):136-44: Water Research
Bassin J.P., Winkler, M-K.H, Kleerebezem R., and van Loosdrecht M.C.M, 2012, Improved phosphate removal by selective sludge discharge in aerobic granular sludge reactors, 45(11):3291-9: Biotechnology and Bioengineering
Winkler, M-K. H., Kleerebezem R., Khunjar W, de Bruin B, and van Loosdrecht M.C.M., 2012, Evaluating the solid retention time of bacteria in flocculent and granular sludge, 46(16):4973-80, Water Research
Winkler M-K.H., Kleerebezem R., M. Strous, Chandran K, and van Loosdrecht M.C.M., 2012, Factors influencing granular density of aerobic granular sludge, (16):7459-68 Applied environmental biotechnology,
Kim, Y.M., Winkler M-K.H., van Loosdrecht M.C.M., Chandran K., 2012, The effect of inorganic carbon limitation on nitrite oxidizing bacteria, Proceedings of the Water Environment Research, WEFTEC 2012: Session 21 through Session 30, pp.1968-1974(7)
Winkler M-K.H., Kleerebezem R., Verhijen P., and van Loosdrecht M.C.M., 2012, Microbial diversity differences within aerobic granular sludge and activated sludge flocs., (16):7447-58, Applied environmental biotechnology
2011
Winkler, M-K.H., P. Bassin, R. Kleerebezem, M. C. M. van Loosdrecht, T. P. H. van den Brand, 2011, Selective sludge removal in a segregated aerobic granular biomass system as a strategy to control PAO-GAO competition at high temperatures: 45(11):3291-9 Water Research
Winkler, M-K.H., R. Kleerebezem, J. G. Kuenen, J. Yang, and M. C. M. and van Loosdrecht, 2011, Segregation of biomass in cyclic anaerobic/aerobic granular sludge allows the enrichment of Anaerobic Ammonium Oxidizing Bacteria at low temperatures: 45(17):7330-7 Environmental Science and Technology