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Denitrification in low oxic environments increases the accumulation of nitrogen oxide intermediates and modulates the evolutionary potential of microbial populations
Takahashi, K., Oshiki, M., Ruan, C., Morinaga, K., Toyofuku, M., Nomura, N., & Johnson, D. R. (2024). Denitrification in low oxic environments increases the accumulation of nitrogen oxide intermediates and modulates the evolutionary potential of microbial populations. Environmental Microbiology Reports, 16(1), e13221 (14 pp.). https://doi.org/10.1111/1758-2229.13221
Chemotactic movement and zeta potential dominate <em>Chlamydomonas microsphaera</em> attachment and biocathode development
Chen, G., Hu, Z., Ebrahimi, A., Johnson, D. R., Wu, F., Sun, Y., … Wang, G. (2023). Chemotactic movement and zeta potential dominate Chlamydomonas microsphaera attachment and biocathode development. Environmental Technology, 44(12), 1838-1849. https://doi.org/10.1080/09593330.2021.2014575
Two-tiered mutualism improves survival and competitiveness of cross-feeding soil bacteria
Ge, Z. B., Zhai, Z. Q., Xie, W. Y., Dai, J., Huang, K., Johnson, D. R., … Wang, P. (2023). Two-tiered mutualism improves survival and competitiveness of cross-feeding soil bacteria. ISME Journal, 17, 2090-2102. https://doi.org/10.1038/s41396-023-01519-5
Making waves: Enhancing pollutant biodegradation via rational engineering of microbial consortia
Karakurt-Fischer, S., Johnson, D. R., Fenner, K., & Hafner, J. (2023). Making waves: Enhancing pollutant biodegradation via rational engineering of microbial consortia. Water Research, 247, 120756 (7 pp.). https://doi.org/10.1016/j.watres.2023.120756
Timing of antibiotic administration determines the spread of plasmid-encoded antibiotic resistance during microbial range expansion
Ma, Y., Ramoneda, J., & Johnson, D. R. (2023). Timing of antibiotic administration determines the spread of plasmid-encoded antibiotic resistance during microbial range expansion. Nature Communications, 14(1), 3530 (12 pp.). https://doi.org/10.1038/s41467-023-39354-z
Evaporation-induced hydrodynamics control plasmid transfer during surface-associated microbial growth
Ruan, C., Borer, B., Ramoneda, J., Wang, G., & Johnson, D. R. (2023). Evaporation-induced hydrodynamics control plasmid transfer during surface-associated microbial growth. npj Biofilms and Microbiomes, 9, 58 (10 pp.). https://doi.org/10.1038/s41522-023-00428-x
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. Bioelectrochemistry, 143, 107989 (9 pp.). https://doi.org/10.1016/j.bioelechem.2021.107989
Rare and localized events stabilize microbial community composition and patterns of spatial self-organization in a fluctuating environment
Ciccarese, D., Micali, G., Borer, B., Ruan, C., Or, D., & Johnson, D. R. (2022). Rare and localized events stabilize microbial community composition and patterns of spatial self-organization in a fluctuating environment. ISME Journal, 16, 1453-1463. https://doi.org/10.1038/s41396-022-01189-9
Initial community composition determines the long-term dynamics of a microbial cross-feeding interaction by modulating niche availability
Dolinšek, J., Ramoneda, J., & Johnson, D. R. (2022). Initial community composition determines the long-term dynamics of a microbial cross-feeding interaction by modulating niche availability. ISME Communications, 2(1), 77 (10 pp.). https://doi.org/10.1038/s43705-022-00160-1
Fungal hyphae regulate bacterial diversity and plasmid-mediated functional novelty during range expansion
Ruan, C., Ramoneda, J., Gogia, G., Wang, G., & Johnson, D. R. (2022). Fungal hyphae regulate bacterial diversity and plasmid-mediated functional novelty during range expansion. Current Biology, 32(24), 5285-5294. https://doi.org/10.1016/j.cub.2022.11.009
Type IV pilus shapes a 'bubble-burst' pattern opposing spatial intermixing of two interacting bacterial populations
Wang, M., Chen, X., Ma, Y., Tang, Y. Q., Johnson, D. R., Nie, Y., & Wu, X. L. (2022). Type IV pilus shapes a 'bubble-burst' pattern opposing spatial intermixing of two interacting bacterial populations. Microbiology Spectrum, 10(1), e01944-21 (7 pp.). https://doi.org/10.1128/spectrum.01944-21
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