Zakem, E., Bayer, B., Qin, W., Santoro, A., Zhang, Y., Levine, N.M. (2022) Controls on the relative abundances and rates of nitrifying microorganisms in the ocean. Biogeosciences. https://doi.org/10.5194/bg-2022-139

Zhang, L., Chen, M., Zheng, Y., Wang, J., Xiao, X., Chen, X., Hu, C., Shen, J., Liu, J., Tang, K., Zhang, R., Xu, D., Shi, Q., Ning, X., Thomas, H., Qin, W., Zhao, M., Jiao, N., Zhang, Y. (2022) Microbially driven fate of terrigenous particulate organic matter in oceans. Limnology & Oceanography. https://doi.org/10.1002/lno.12255

He, Z., Lin, L., Wang, X., Qin, W., Zhang, C. (2022) Editorial: Carbon Storage by Marine Microorganisms for Carbon Neutrality. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2022.1018397

Wang, H., Zheng, Y., Liu, J., Zhu, B., Qin, W., Zhao, F. (2022) An electrochemical system for the rapid and accurate quantitation of microbial exoelectrogenic ability. Biosensors and Bioelectronics. 215, 114584. https://doi.org/10.1016/j.bios.2022.114584

Durham, B.P., Boysen, A.K., Heal, K.R., Carlson, L.T., Boccamazzo, R., Deodato, C.R., Qin, W., Cattolico, R.A., Armbrust, E.V., Ingalls, A.E. (2022) Chemotaxonomic patterns in intracellular metabolites of marine microbial plankton. Frontiers in Marine Science. https://doi.org/10.3389/fmars.2022.864796

Zhang, S., Xia, X., Wang, J., Li, X., Xin, Y., Bao, J., Han, L., Qin, W., Yang, Z. (2022) Biogeographic patterns and elevational differentiation of sedimentary bacterial communities across river systems in China. Applied and Environmental Microbiology. https://doi.org/10.1128/aem.00597-22

Song, W., Liu, J., Qin, W., Huang, J., Yu, X., Xu, M., Stahl, D.A., Jiao, N., Zhou, J., Tu, Q. (2022) Functional traits resolve mechanisms governing the assembly and distribution of nitrogen-cycling microbial communities in the global ocean. mBio. https://doi.org/10.1128/mbio.03832-21

Martens-Habbena, W., Qin, W. (2022). Archaeal nitrification without oxygen. Science. 375: 27-28. https://DOI.org/10.1126/science.abn0373


Kong, L., He, Y., Xie, Z., Luo, X., Zhang, H., Yi, S., Lin, Z., Zhang, S., Yan, K., Xu, H., Jin, T., Lin, L., Qin, W., Chen, F., Liu, S., Wang, D. (2021) Illuminating key microbial players and metabolic processes involved in the remineralization of particulate organic carbon in the ocean’s twilight zone by metaproteomics. Applied and Environmental Microbiology. https://doi.org/10.1128/AEM.00986-21

Zhou, J., Yu, X., Liu, J., Qin, W., He, Z., Stahl, D.A., Jiao, N., Zhou, J., and Tu, Q. (2021) VB12Path for Accurate Metagenomic Profiling of Microbially Driven Cobalamin Synthesis Pathways. mSystems. https://doi.org/10.1128/mSystems.00497-21

Heal, K.R., Durham, B.P., Boysen, A.K., Carlson, L.T., Qin, W., Ribalet, F., White, A.E., Bundy, R.M., Armbrust, E.V., Ingalls, A.E. (2021) Marine community metabolomes carry fingerprints of phytoplankton community composition. mSystems. https://doi.org/10.1128/mSystems.01334-20

Wang, Y., Qin, W., Jiang, X., Ju, F., Mao, Y., Zhang, A., Stahl, D.A., Zhang, T. (2021) Seasonal Prevalence of Ammonia-Oxidizing Archaea in a Full-Scale Municipal Wastewater Treatment Plant Treating Saline Wastewater Revealed by a 6-Year Time-Series Analysis. Environmental Science & Technology. https://doi.org/10.1021/acs.est.0c07703


Yang, Y., Herbold, C.W., Jung, MY., Qin, W., Cai, M., Du, H., Lin, JG., Li, X., Li, M., Gu, JD. (2020) Survival strategies of ammonia-oxidizing archaea (AOA) in a full-scale WWTP treating mixed landfill leachate containing copper ions and operating at low-intensity of aeration. Water Research. https://doi.org/10.1016/j.watres.2020.116798

Stein, L.Y., Klotz, M.G., Lancaster, K.M., Nicol, G.W., Qin, W., Schleper, C., Stahl, D.A., Ward, B.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. Environmental Science & Technology. https://doi.org/10.1021/acs.est.0c06792

Zhang S., Qin W., Bai Y., Zhang Z., Wang J., Gao H., Gu JD., Xia X. (2020) Linkages between anammox and denitrifying bacterial communities and nitrogen loss rates in high‐elevation rivers. Limnology and Oceanography. https://doi.org/10.1002/lno.11641

Chen, S., Xu H., Qin W., Xu S., Tang X., Kuang L., Wang X., Jiang B., Chen J., Shan J., Adams J., Qin H., Wang, B. (2020) Evaluation of Two Primer Sets for Amplification of Comammox Nitrospira amoA Genes in Wetland Soils. Frontiers in Microbiology. https://doi.org/10.3389/fmicb.2020.560942

Qin, W.*, Zheng, Y., 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.H., DeLong, E.F., Li, M., Lee, P., 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. ISME Journal. *Corresponding author https://doi.org/10.1038/s41396-020-0710-7

Zheng, Y., Wang, H., Liu, Y., Zhu, B., Li, J., Yang, Y., Qin, W., Chen, L., Wu, X., Chistoserdova, L., Zhao, F. (2020) Methane-Dependent Mineral Reduction by Aerobic Methanotrophs under Hypoxia. Environmental Science & Technology Letters. https://doi-org.offcampus.lib.washington.edu/10.1021/acs.estlett.0c00436

Zhang, Y., Qin, W., Hou, L., Zakem, E.J., Wan, X., Zhao, Z., Liu, L., Hunt, K., Jiao, N., Kao, S., Tang, K., Xie, X., Shen, J., Li, Y., Chen, M., Dai, X., Liu, C., Deng, W., Dai, M., Ingalls, A.E., Stahl, D.A., Herndl, G.J. (2020) Nitrifier adaptation to low energy flux controls inventory of reduced nitrogen in the dark ocean. PNAS. https://doi.org/10.1073/pnas.1912367117

Zhang S., Qin, W., Xia X., Li, S., Xia L., Zhang L., and Bai Y. (2020) Ammonia oxidizers in rivers of the Qinghai-Tibetan Plateau and their adaptations to high-elevation conditions. Water Research. https://doi.org/10.1016/j.watres.2020.115589


Wang, B.Qin, W., Ren, Y, Zhou, X., Jung, M.Y., Han, P., Eloe-Fadrosh, E.A., Li, M., Zheng, Y., Lu, L., Yan, X., Ji, J., Liu, Y., Liu, L., Heiner, C., Hall, R., Martens-Habbena, W., Herbold, C.W., Rhee, S., Bartlett, D.H., Huang, L., Ingall, A.E., Wagner, M., Stahl, D.A., Jia, Z. (2019) Expansion of Thaumarchaeota habitat range is correlated with horizontal transfer of ATPase operons. ISME Journal. Joint first author https://doi.org/10.1038/s41396-019-0493-x


Heal, K.R., Qin, Wei., Amin, S.A., Devol, A.H., Moffett, J.W., Armbrust, E.V., Stahl, D.A.,  Ingalls, A.E. (2018) Accumulation of NO2‐cobalamin in nutrient‐stressed ammonia‐oxidizing archaea and in the oxygen deficient zone of the eastern tropical North Pacific. Environmental Microbiology Reports. https://doi.org/10.1111/1758-2229.12664

Qin, W., Amin, S.A., Lundeen, R.A., Heal, K.R., Martens-Habbena, W., Turkarslan, S., Urakawa, H., Coata, K.C., Hendrickson, E.L., Wang, T., Beck, D.AC., Tiquia-Arashiro, S.M., Taub, F., Holmes, A.D., Vajrala, N., Berube, P.M., Lowe, T.M., Moffett, J.W., Devol, A.H., Baliga, N.S., Arp, D.J., Sayavedra-Soto, L.A., Hackett, M., Armbrust, E.V., Ingalls, A.E., Stahl, D.A. (2018) Stress response of a marine ammonia-oxidizing archaeon informs physiological status of environmental populations. ISME Journal. https://doi.org/10.1038/ismej.2017.186


Qin, W., Heal, K.R., Ramdasi, R., Kobelt, J.N., Martens-Habbena, W., Bertagnolli, A.D., Amin, S.A., Walker, C.B., Urakawa, H., Könneke, M., Devol, A.H., Moffett, J.W., Armbrust, E.V., Jensen, G.J., Ingalls, A.E., Stahl, D.A. (2017) Nitrosopumilus maritimus gen. nov., sp. nov., Nitrosopumilus cobalaminigenes sp. nov., Nitrosopumilus oxyclinae sp. nov., and Nitrosopumilus ureiphilus sp. nov., four marine ammonia-oxidizing archaea of the phylum Thaumarchaeota. International Journal of Systematic and Evolutionary Microbiology. https://doi.org/10.1099/ijsem.0.002416

Horak, R.E.A., Qin, W., Bertagnolli, A.D., Nelson, A., Heal, K.R., Han, H., Heller, M., Schauer, A., Jeffrey. W.H., Armbrust, E.V., Moffett, J.W., Ingalls, A.E., Stahl, D.A., Devol, A.H. (2017) Relative impacts of light, temperature, and reactive oxygen on thaumarchaeal ammonia oxidation in the North Pacific Ocean. Limnology and Oceanography. https://doi.org/10.1002/lno.10665

Qin, W., Meinhardt, K.A., Moffett, J.W., Devol, A.H., Armbrust, E.V., Ingalls, A.E., and Stahl, D.A. (2017) Influence of oxygen availability on the activities of ammonia-oxidizing archaea. Environmental Microbiology Reports. https://doi-org.offcampus.lib.washington.edu/10.1111/1758-2229.12525

Heal, K.R., Qin, W., Ribalet, F., Bertagnolli, A.D., Coyote-Maestas, W., Hmelo, L.R., Moffett, J.W., Devol, A.H., Armbrust, E.V., Stahl, D.A., Ingalls, A.E. (2017) Two distinct pools of B12 analogs reveal community interdependencies in the ocean. PNAS 114: 364-369. https://doi.org/10.1073/pnas.1608462114

Qin, W., Jewell, T.N.M., Russell, V.V., Hedlund, B.P., de la Torre, J.R., Stahl, D.A. (2017) Candidatus Nitrosocaldus. Bergey’s Manual of Systematics of Archaea and Bacteria. https://doi.org/10.1002/9781118960608.gbm01287


Qin, W., Martens-Habbena, W., Kobelt, J.N., Stahl, D.A. (2016) Candidatus Nitrosopumilus. Bergey’s Manual of Systematics of Archaea and Bacteria. https://onlinelibrary.wiley.com/doi/abs/10.1002/9781118960608.gbm01290


Qin, W., Carlson, L.T., Armbrust, E.V., Devol, A.H., Moffett, J.W., Stahl, D.A., and Ingalls, A.E. (2015) Confounding effects of oxygen and temperature on the TEX86 signature of marine Thaumarchaeota. PNAS 112: 10979-10984. https://doi.org/10.1073/pnas.1501568112

Martens-Habbena, W.Qin, W., Horak, R.E.A., Urakawa, H., Schauer, A.J., Moffett, J.W. Armbrust, E.V., Ingalls, A.E., Devol, A.H., Stahl, D.A. (2015) The production of nitric oxide by marine ammonia-oxidizing archaea and inhibition of archaeal ammonia oxidation by a nitric oxide scavenger. Environmental Microbiology. 17: 2261-2274. Joint first author https://doi.org/10.1111/1462-2920.12677


Qin, W., Amin, S.A., Martens-Habbena, W., Walker, C.B., Urakawa, H., Devol, A.H., Ingalls, A.E., Moffett, J.W., Armbrust, E.V., Stahl, D.A. (2014) Marine ammonia-oxidizing archaeal isolates display obligate mixotrophy and wide ecotypic variation. PNAS 111: 12504-12509. https://doi.org/10.1073/pnas.1324115111


Horak, R.E.A., Qin, W., Schauer, A.J., Armbrust, E.V., Ingalls, A.E., Moffett, J.W., Stahl, D.A., Devol, A.H. (2013) Ammonia oxidation kinetics and temperature sensitivity of a natural marine community dominated by Archaea. ISME Journal 7: 2023-2033. https://doi.org/10.1038/ismej.2013.75