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Electrotaxis-mediated cell motility and nutrient availability determine <em>Chlamydomonas microsphaera</em>-surface interactions in bioelectrochemical systems
Chen, G., Hu, Z., Ebrahimi, A., Johnson, D. R., Wu, F., Sun, Y., … Wang, G. (2022). Electrotaxis-mediated cell motility and nutrient availability determine Chlamydomonas microsphaera-surface interactions in bioelectrochemical systems. Bioelec, 143, 107989 (9 pp.). https://doi.org/10.1016/j.bioelechem.2021.107989
Environmental connectivity controls diversity in soil microbial communities
Dubey, M., Hadadi, N., Pelet, S., Carraro, N., Johnson, D. R., & van der Meer, J. R. (2021). Environmental connectivity controls diversity in soil microbial communities. Communications Biology, 4(1), 492 (15 pp.). https://doi.org/10.1038/s42003-021-02023-2
Causes and consequences of pattern diversification in a spatially self-organizing microbial community
Goldschmidt, F., Caduff, L., & Johnson, D. R. (2021). Causes and consequences of pattern diversification in a spatially self-organizing microbial community. ISME Journal, 15(8), 2415-2426. https://doi.org/10.1038/s41396-021-00942-w
Evaporation-induced hydrodynamics promote conjugation-mediated plasmid transfer in microbial populations
Ruan, C., Ramoneda, J., Chen, G., Johnson, D. R., & Wang, G. (2021). Evaporation-induced hydrodynamics promote conjugation-mediated plasmid transfer in microbial populations. ISME Communications, 1(1), 54 (5 pp.). https://doi.org/10.1038/s43705-021-00057-5
Relating metatranscriptomic profiles to the micropollutant biotransformation potential of complex microbial communities
Achermann, S., Mansfeldt, C. B., Müller, M., Johnson, D. R., & Fenner, K. (2020). Relating metatranscriptomic profiles to the micropollutant biotransformation potential of complex microbial communities. Environmental Science and Technology, 54(1), 235-244. https://doi.org/10.1021/acs.est.9b05421
Spatial organization in microbial range expansion emerges from trophic dependencies and successful lineages
Borer, B., Ciccarese, D., Johnson, D., & Or, D. (2020). Spatial organization in microbial range expansion emerges from trophic dependencies and successful lineages. Communications Biology, 3(1), 685 (10 pp.). https://doi.org/10.1038/s42003-020-01409-y
Interaction-dependent effects of surface structure on microbial spatial self-organization
Ciccarese, D., Zuidema, A., Merlo, V., & Johnson, D. R. (2020). Interaction-dependent effects of surface structure on microbial spatial self-organization. Philosophical Transactions of the Royal Society B: Biological Sciences, 375(1798), 20190246 (11 pp.). https://doi.org/10.1098/rstb.2019.0246
A brief guide for the measurement and interpretation of microbial functional diversity
Johnson, D. R., & Pomati, F. (2020). A brief guide for the measurement and interpretation of microbial functional diversity. Environmental Microbiology, 22(8), 3039-3048. https://doi.org/10.1111/1462-2920.15147
Editorial overview: causes and biotechnological application of microbial metabolic specialization
Johnson, D. R., & Noack, S. (2020). Editorial overview: causes and biotechnological application of microbial metabolic specialization. Current Opinion in Biotechnology, 62, III-VI. https://doi.org/10.1016/j.copbio.2020.01.007
Functional microbial landscapes
Ciccarese, D., & Johnson, D. R. (2019). Functional microbial landscapes. In S. Agathos & B. Stenuit (Eds.), Comprehensive biotechnology: Vol. 6. Environmental and related biotechnologies (pp. 42-51). https://doi.org/10.1016/B978-0-444-64046-8.00472-9
Wastewater treatment plant resistomes are shaped by bacterial composition, genetic exchange, and upregulated expression in the effluent microbiomes
Ju, F., Beck, K., Yin, X., Maccagnan, A., McArdell, C. S., Singer, H. P., … Bürgmann, H. (2019). Wastewater treatment plant resistomes are shaped by bacterial composition, genetic exchange, and upregulated expression in the effluent microbiomes. ISME Journal, 13(2), 346-360. https://doi.org/10.1038/s41396-018-0277-8
Substrate cross-feeding affects the speed and trajectory of molecular evolution within a synthetic microbial assemblage
Lilja, E. E., & Johnson, D. R. (2019). Substrate cross-feeding affects the speed and trajectory of molecular evolution within a synthetic microbial assemblage. BMC Evolutionary Biology, 19(1), 129 (11 pp.). https://doi.org/10.1186/s12862-019-1458-4
Microbial residence time is a controlling parameter of the taxonomic composition and functional profile of microbial communities
Mansfeldt, C., Achermann, S., Men, Y., Walser, J. C., Villez, K., Joss, A., … Fenner, K. (2019). Microbial residence time is a controlling parameter of the taxonomic composition and functional profile of microbial communities. ISME Journal, 13(6), 1589-1601. https://doi.org/10.1038/s41396-019-0371-6
Bridging the holistic-reductionist divide in microbial ecology
Tecon, R., Mitri, S., Ciccarese, D., Or, D., van der Meer, J. R., & Johnson, D. R. (2019). Bridging the holistic-reductionist divide in microbial ecology. mSystems, 4(1), e00265-18 (5 pp.). https://doi.org/10.1128/mSystems.00265-18
Global diversity and biogeography of bacterial communities in wastewater treatment plants
Wu, L., Ning, D., Zhang, B., Li, Y., Zhang, P., Shan, X., … Zhou, J. (2019). Global diversity and biogeography of bacterial communities in wastewater treatment plants. Nature Microbiology, 4(7), 1183-1195. https://doi.org/10.1038/s41564-019-0426-5
Metabolite toxicity slows local diversity loss during expansion of a microbial cross-feeding community
Goldschmidt, F., Regoes, R. R., & Johnson, D. R. (2018). Metabolite toxicity slows local diversity loss during expansion of a microbial cross-feeding community. ISME Journal, 12(1), 136-144. https://doi.org/10.1038/ismej.2017.147
Generality of associations between biological richness and the rates of metabolic processes across microbial communities
Patsch, D., van Vliet, S., Garbani Marcantini, L., & Johnson, D. R. (2018). Generality of associations between biological richness and the rates of metabolic processes across microbial communities. Environmental Microbiology, 20(12), 4356-4368. https://doi.org/10.1111/1462-2920.14352
Successive range expansion promotes diversity and accelerates evolution in spatially structured microbial populations
Goldschmidt, F., Regoes, R. R., & Johnson, D. R. (2017). Successive range expansion promotes diversity and accelerates evolution in spatially structured microbial populations. ISME Journal, 11(9), 2112-2123. https://doi.org/10.1038/ismej.2017.76
Metabolite toxicity determines the pace of molecular evolution within microbial populations
Lilja, E. E., & Johnson, D. R. (2017). Metabolite toxicity determines the pace of molecular evolution within microbial populations. BMC Evolutionary Biology, 17, 52 (12 pp.). https://doi.org/10.1186/s12862-017-0906-2
A passive mutualistic interaction promotes the evolution of spatial structure within microbial populations
Marchal, M., Goldschmidt, F., Derksen-Müller, S. N., Panke, S., Ackermann, M., & Johnson, D. R. (2017). A passive mutualistic interaction promotes the evolution of spatial structure within microbial populations. BMC Evolutionary Biology, 17, 106 (14 pp.). https://doi.org/10.1186/s12862-017-0950-y