Publications

Zimmerman, J. B.*, Lowry, G., Rosario-Ortiz, F., ..., Yoon, S. (2025) Apolitical Science, Environ. Sci. Technol. 59:6355-6356. [PDF] [DOI]

Laureni, M.*, Corbera-Rubio. F., Kim, D. D., Browne, S., Roothans, N., Weissbrodt, D. G., Olavaria, K., de Jonge, N., Yoon, S., Pabst, M., van Loosdrecht, M. C. M. (2025)  Selective enrichment of high-affinity clade II N2O-reducers in a mixed culture. ISME Comm. 5:1-12.  [PDF] [DOI]

Lee, J. Y., Choi, M., Song, M. J., Kim, D. D., Yun, T., Chang, J., Ho, A., Myung, J., Yoon, S.* (2024) Selective enrichment of Methylococcaceae versus Methylocystaceae methanotrophs via control of methane feeding scheme. Environ. Sci. Technol. 58:14237-14248. [PDF] [DOI]

Sabba, F.*, Redmond, E., Ruff, C., Ramirez, M., Young, M., Song, M. J., Yoon, S., Downing, L. (2024). Exploring Community and Kinetic Shifts in Nitrifying Microbial Communities in Low Dissolved Oxygen Activated Sludge Facilities for Energy-Efficient Biological Nitrogen Removal. ES&T Water 4:707-718. [PDF] [DOI]

Yoon, S., Heo, H., Han, H., Song, D. -U., Bakken L. R., Frostegård, Å., Yoon, S.* (2023) Suggested role of NosZ in preventing N2O inhibition of dissimilatory nitrite reduction to ammonium. MBio 14:e01540-23. [PDF] [DOI]

Naizabekov, S., Hyun, S. W., Na, J. -G., Yoon, S., Lee, O. K., Lee, E. Y.* (2023) Comparative genomic analysis of Methylocystis sp. MJC1 as a platform strain for polyhydroxybutyrate biosynthesis. PloS One 18:e0284846. [PDF] [DOI]

Han, H., Kim, D. D., Song, M. J., Yun, T., Yoon, H., Lee, H. W., Kim Y. M., Laureni, M., Yoon, S.* (2023) Biotrickling filtration for the reduction of N2O emitted during wastewater treatment: results from a long-term in situ pilot-scale testing. Environ. Sci. Technol. 57:3883-3892. [PDF] [DOI]

Munk, P.*, Brinch, C., Møller, F. D., ..., Yoon, S., ..., Aarestrup, F. M. (2022) Genomic analysis of sewage from 101 countries reveals global landscape of antimicrobial resistance.  Nat. Commun. 13:7251. [PDF] [DOI]

Kim, D. D., Han, H., Yun, T., Song, M. J., Terada, A., Laureni, M., Yoon, S.* (2022) Identification of nosZ-expressing microorganisms consuming trace N2O in microaerobic chemostat consortia dominated by an uncultured Burkholderiales. ISME J. 16:2087-2098. [PDF] [DOI]

Qi, C., Zhou, Y., Suenaga, T., Oba, K., Lu, J., Wang, G., Zhang, L., Yoon, S., Terada, A.* (2022) Organic carbon determines nitrous oxide consumption activity of clade I and II nosZ bacteria: genomic and biokinetic insights. Water Res. 209:117910. [PDF] [DOI]

Kim, D. D., Wan, L., Cao, X., Klisarova, D., Gerdzhikov, D., Zhou, Y., Song, C.*, Yoon, S.* (2021) Metagenomic insights into co-proliferation of Vibrio spp. and dinoflagellates Prorocentrum during a spring algal bloom in the coastal East China Sea. Water Res. 204:117625. [PDF] [DOI]

Choi, M., Yun, T., Kim, J., Song, M. J., Lee, B., Löffler, F. E., Yoon, S.* (2021) Cometabolic vinyl chloride degradation at acidic pH catalyzed by acidophilic methanotrophs isolated from alpine peat bogs. Environ. Sci. Technol. 55:5959-5969. [PDF] [DOI]

Chang, J., Kim, D. D., Semrau, J. D., Lee, J., Heo, H., Gu, W., Yoon, S.* (2021) Enhancement of nitrous oxide emissions in soil microbial consortia via copper competition between proteobacterial methanotrophs and denitrifiers. Appl. Environ. Microbiol. 87:e02301-20. [PDF] [DOI]

Stein, L.*, Klotz, M., Lancaster, K., Nicol, G., Qin, W., Schleper, C., Stahl, D., Ward, B., Yoon, S. (2020) Comment on “A Critical Review on Nitrous Oxide Production by Ammonia-Oxidizing Archaea” by Lan Wu, Xueming Chen, Wei Wei, Yiwen Liu, Dongbo Wang, and Bing-Jie Ni. Environ. Sci. Technol. 55:797-798. [PDF] [DOI]

Park, T., Yoon, S., Jung, J., Kwon, T. -H.* (2020) Effect of fluid-rock interactions on in situ bacterial alteration of interfacial properties and wettability of CO2-brine-mineral systems for geologic carbon storage. Environ. Sci. Technol. 54:15355-15365. [PDF] [DOI]

Heo, H., Kwon, M., Song, B., Yoon, S.* (2020) Involvement of NO3− in ecophysiological regulation of dissimilatory nitrate/nitrite reduction to ammonium (DNRA) is implied by physiological characterization of soil DNRA bacteria isolated via a colorimetric screening method. Appl. Environ. Microbiol. 86:e01054-20. [PDF] [DOI]

Kim, D. D., Park, D., Yoon, H., Yun, T., Song, M. J., Yoon, S.* (2020) Quantification of nosZ genes and transcripts in activated sludge microbiomes with novel group-specific qPCR methods validated with metagenomic analyses. Water Res. 185:116261. [PDF] [DOI]

Song, M. J., Choi, S., Bae, W. B., Lee, J, Han, H., Kim, D. D., Kim, Y. M., Yoon, S.* (2020) Identification of primary effecters of N2O emissions from full-scale biological nitrogen removal systems using random forest approach. Water Res. 184:116144. [PDF] [DOI]

Song, M. J., Yoon, H., Kwon, M., Lee, T. -K., Yoon, S.* (2020) Orthophosphate enhances N2O production from aerobic hydroxylamine decomposition: implications to N2O emissions from nitrification in ornithogenic and manure-fertilized soils. Biol. Fert Soil. 56:687-695. [PDF] [DOI]

Rochman, F. F., Kwon, M., Khadka, R., Tamas, I, Lopez-Jauregui, A. A., Malmstrom, R. R., Sheremet, A., Woyke, T., Yoon, S., Dunfield, P. F.*, Verbeke, T. J. (2020) Novel copper-containing membrane monooxygenases (CuMMOs) encoded by alkane-utilizing Betaproteobacteria. ISME J. 14:714-726. [PDF] [DOI]

Kaupper, T., Hetz, S., Kolb, S., Yoon, S., Horn, M. A.*, Ho, A.* (2020) Deforestation for oil palm: impact on microbially mediated methane and nitrous oxide emissions, and soil bacterial communities. Biol. Fert. Soil. 56:287-298. [PDF] [DOI]

Park, T., Jeon, M., Yoon, S., Lee, K. S., Kwon, T.* (2019) Modification of interfacial tension and wettability in oil-brine-quartz system by in situ bacterial biosurfactant production at reservoir conditions: implications for microbial enhanced oil recovery. Energy. Fuel. 33:4909-4920. [PDF] [DOI]

Han, H., Song, B., Song, M. J., Yoon, S.* (2019) Enhanced nitrous oxide production in denitrifying Dechloromonas aromatiaca strain RCB under salt or alkaline stress conditions. Front. Microbiol. 10:1203. [PDF] [DOI]

Yoon, S.*, Song, B., Phillips, R.L., Chang, J., Song, M. (2019) Ecological and physiological implications of nitrogen oxide reduction pathways on greenhouse gas emissions in agroecosystems. FEMS Microbiol. Ecol. 95:fiz066. [PDF] [DOI]

Ho, A., Kwon, M., Horn, M. A., Yoon, S*. (2019) Environmental applications of methanotrophs. In: Methanotrophs: Microbiology Fundamentals and Biotechnological Applications. Steinbuchel, A. and Lee, E. -Y. (eds). Springer, Berlin, Germany pp. 231-255. [PDF] [DOI]

Yoon, H., Song, M. J., Kim, D. D., Sabba, F., Yoon, S.* (2019) A serial biofiltration system for effective removal of low-concentration nitrous oxide in oxic gas streams: mathematical modeling of reactor performance and experimental validation. Environ. Sci. Technol. 53:2063-2074. [PDF] [DOI]

Kwon, M., Ho, A., Yoon, S.* (2019) Novel approaches and reasons to isolate methanotrophic bacteria with biotechnological potentials: recent achievements and perspectives. Appl. Microbiol. Biotechnol. 103:1-8. [PDF] [DOI]

Kim, D. D., O'farrell, C., Toth, C. R. A., Montoya, O. Gieg, L. M., Kwon, T., Yoon, S.* (2018) Microbial community analyses of produced waters from high-temperature oil reservoirs reveal unexpected similarity between geographically distant oil reservoirs. Microbial. Biotechnol. 11:788-796. [PDF] [DOI]

Kim, J., Kim, D. D., Yoon, S.* (2018) Rapid isolation of fast-growing methanotrophs from environmental samples using continuous cultivation with gradually increased dilution rates. Appl. Microbiol. Biotechnol. 102:5707-5715. [PDF] [DOI]

Semrau, J. D.*, Gu, W., DiSpirito, A. A., Yoon, S. Metals and methanotrophy. Appl. Environ. Microbiol. 84:e02289-17. [PDF] [DOI]

Chang, J., Park, D., Semrau, J. D., Gu, W., DiSpirito A. A., Yoon, S.* (2018) Methanobactin from Methylosinus trichosporium OB3b inhibits N2O reduction in denitrifiers. ISME J. 12:2086-2089. [PDF] [DOI]

Kim, H., Park, D., Yoon, S.* (2017) pH control enables simultaneous enhancement of nitrogen retention and N2O reduction in Shewanella loihica PV-4. Front. Microbiol. 8:1820. [PDF] [DOI]

Yoon, H., Song. M., Yoon, S.* (2017) Design and feasibility analysis of a self-sustaining biofiltration system for removal of low concentration N2O emitted from wastewater treatment plants. Environ. Sci. Technol. 51:10736-10745. [PDF] [DOI]

Park, T., Joo, H., Kim, G., Kim, S., Yoon, S., Kwon T.* (2017) Biosurfactant as an enhancer of geologic carbon storage: microbial modification of interfacial tension and contact angle in carbon dioxide/water/quartz systems. Front. Microbiol. 8:1285. [PDF] [DOI]

Kumar, M. A., Choe, J., Lee, W., Yoon, S.* (2017) Synthesis of benzaldoxime from benzaldehyde using nanoscale zero-valent iron and dissolved nitrate or nitrite. Environ. Nanotechnol. Mon. Manag. 8:90-102. [PDF] [DOI]

Park, D., Kim, H., Yoon, S.* (2017) Nitrous oxide reduction by an obligate aerobic bacterium, Gemmatimonas aurantiaca strain T-27. Appl. Environ. Microbiol. 83:e00502-17.    [PDF] [DOI] 

Chang, J., Lee, W.*, and Yoon, S.* (2017) Energy consumptions and associated greenhouse gas emissions in operation phases of urban water reuse systems in Korea. J. Clean. Prod. 141:728-736. [PDF] [DOI]

Yoon, S.*, Nissen, S., Park, D., Sanford, R. A. and Löffler, F. E.* (2016) Nitrous oxide reduction kinetics distinguish bacteria harboring clade I NosZ from those harboring clade II NosZ. Appl. Environ. Microbiol. 82:3793-3800. [PDF] [DOI]

Yoon, S., Cruz-Garcia, C., Sanford, R. A., Ritalahti, K. M., and Löffler, F. E.* (2015) Denitrification versus respiratory ammonification: environmental controls of two competing dissimilatory NO3-/NO2- reduction pathways in Shewanella loihica strain PV-4. ISME J. 9:1093-1094. [PDF] [DOI]

Yoon, S.*, Sanford, R.A., and Löffler, F.E.* (2015) Nitrite control over dissimilatory nitrate/nitrite reduction pathways in Shewanella loihica strain PV-4. Appl. Environ. Microbiol. 81:3510-3517. [PDF] [DOI]

Seo, Y., Park, D., Oh, Y., Yoon, S. Han, J.* (2015) Harvesting of microalgae cell using oxidized dye wastewater. Bioresour. Technol. 192:802-806. [PDF] [DOI]

Yoon, S., Sanford, R. A., and Löffler, F. E. (2013) Shewanella spp. use acetate as electron donor for denitrification but not ferric iron or fumarate reduction. Appl. Environ. Microbiol. 79:2818-2822. [PDF] [DOI]

Yoon, S., Im, J., Bandow, N., DiSpirito, A. A., and Semrau, J. D. (2011) Constitutive expression of pMMO by Methylocystis strain SB2 when grown on multi-carbon substrates: implications for biodegradation of chlorinated ethenes. Environ. Microbiol. Rep. 3:182-188. [PDF] [DOI]

Yoon, S., DiSpirito, A. A., Kramer, S. M., and Semrau. J. D. (2011) A simple assay for screening microorganisms for chalkophore production. Method. Enzymol. 247-258.           [PDF] [DOI]

Im, J., Lee, S., Yoon, S., DiSpirito, A. A., and Semrau, J. D. (2011) Characterization of a novel facultative Methylocystis species capable of growth on methane, acetate and ethanol. Environ. Microbiol. Rep. 3:174-181. [PDF] [DOI]

Stein, L. Y., Yoon, S., Semrau, J. D., DiSpirito, A. A., Murrell, J. C., Vuilleumier, S., et al. (2010) Genome sequence of the obligate methanotroph Methylosinus trichosporium strain OB3b. J. Bacteriol. 192:6497-6498. [PDF] [DOI]

Yoon, S., Kraemer, S. M., Dispirito, A. A., and Semrau, J. D. (2010) An assay for screening microbial cultures for chalkophore production. Environ. Microbiol. Rep. 2:295-303.    [PDF] [DOI]

Semrau, J. D., DiSpirito A. A., and Yoon, S. (2010) Methanotrophs and copper. FEMS Microbiol. Rev. 34:496-531. [PDF] [DOI]

Yoon, S., Carey, J. N., and Semrau, J. D. (2009) Feasibility of atmospheric methane removal using methanotrophic biotrickling filters. Appl. Microbiol. Biotechnol. 83:949-956.   [PDF] [DOI]

Yoon, S. and Semrau, J. D. (2008) Measurement and modeling of multiple substrate oxidation by methanotrophs at 20°C. FEMS Microbiol. Lett. 287:156-162. [PDF] [DOI]