Articles

Wang HB, Chen H, Ruan CJ, Liao JQ, Schwarz C, Shi BY, Alvarez PJJ, Yu PF. Nanoplastics induce prophage activation and quorum sensing to enhance biofilm mechanical and chemical resilience. Water Research, 2025.

Li SQ, Lu Y, Ruan CJ, Shen HC, Wang MX, Zhang HC, Qian C, Wang DS, Alvarez PJJ, Yu PF. Artificial intelligence-empowered imaging technologies for biofilm static characterization and dynamic monitoring. Chemical Engineering Journal, 2025, 167592: 1385-8947.

Ju XR, Sun HF, Ruan CJ, Wang HB, Shi BY, Alvarez P, Yu PF. Prophage induction and quorum sensing enhance biofilm stability and resistance under ammonia-oxidizing bacteria-mediated oxidative stress. Water Research, 2025. 284: 0043-1354.

Han M, Ruan CJ (Co-first Author), Wang G, Johnson DR. Fungal hyphae promote bacterial contact-dependent killing during surface-associated growth. The ISME Journal. wraf135.

Ruan CJ, Vinod D, Johnson DR. Phage-mediated peripheral kill-the-winner facilitates the maintenance of costly antibiotic resistance. Nature Communications, 2025. 16, 5839.

Zhang B, Zhang Y, Zhang X, Qu JH, Ruan CJ, Liao JQ, Alvarez P, Yu PF. Enhanced Phytopathogen Biofilm Control in Soybean Phyllosphere by the Phoresy of Bacteriophages Hitchhiking on Biocontrol Bacteria. Environmental Science & Technology, 2025. 59 (21), 10334-10346.

Lin ZJ, Ruan CJ (Co-first Author), Xia R, Liao JQ, Zhu L, Wang DS, Alvarez P, Yu PF. Bacterium-phage interactions enhance biofilm resilience during membrane filtration biofouling under oxidative and hydraulic stresses. Environmental Science & Technology, 2025. 59 (17), 8614-8628.

Han M, Ruan CJ (Co-first Author), Wang G, Johnson DR. Evaporation controls contact-dependent bacterial killing during surface-associated growth. ISME Communications. 2025, ycaf034.

Wang XJ, Ruan CJ, Shen CF; Liao JQ; Wang DS, Alvarez P, Yu PF. Synergistic treatment of reverse osmosis membrane biofouling with quorum quenching bacteria and hitchhiking phages. Environmental Science & Technology, 2025. 59 (11), 5647-5660.

Wang LK, Mai YX, Zhang JZ, Ruan CJ, Hu JY, Ye K, He Y, Wang DS, Jin LL, Mao ZW, Yi CG, Yu PF. Polyvalent bacteriophages conjugated with ROS-scavenging nanozymes enhance antibiotic-resistant biofilm disruption and anti-inflammatory therapy. Chemical Engineering Journal, 2025, 159666: 1385-8947.

Wu FZ, Yuan C, Ruan CJ, Zheng MQ, Liu L, Wang G, Chen GW. Coagulation promotes the spread of antibiotic resistance genes in secondary effluents. Environmental Pollution. 2024, 355, 124245.

Wu HQ, Ma ZC, Ruan CJ, Hu W, Han M, Wan W, Wang YY, Zvomuya F, Liang C, Liu Y, Wang G. Effects of soil moisture on soil viral reproductive strategies in an agricultural soil. European Journal of Soil Science, 2024, 75, e13531.

Ruan CJ, Ramoneda J, Kan A, Rudge T, Wang G, Johnson DR. Phage predation accelerates the spread of plasmid-encoded antibiotic resistance. Nature Communications, 2024, 15, 53972024.

Han M, Zhu XY, Ruan CJ, Wu HQ, Chen GW, Zhu K, Liu Y, Wang G. Micro-biophysical interactions at bacterium-mineral interfaces determine potassium dissolution. Environmental Technology & Innovation, 2024, 33, 103524

Takahashi K, Oshiki M, Ruan CJ, Morinaga K, Toyofuku M, Nomura N, Johnson DR. Denitrification in low oxic environments increases the accumulation of nitrogen oxide intermediates and modulates the evolutionary potential of microbial populations. Environmental Microbiology Reports. 2023, 1–14.

Han M, Niu XY, Xiong GZ, Ruan CJ, Chen GW, Wu HQ, Liu Y, Zhu K, Wang G. Isolation, characterization and genomic analysis of a novel Arthrobacter sp. phage SWEP2. Archives of Virology, 2023, 168, 276.

Ruan CJ, Borer B, Ramoneda J, Wang G, Johnson DR. Evaporation-induced hydrodynamics control plasmid transfer during surface-associated microbial growth. npj Biofilms and Microbiomes, 2023, 9, 58.

Wu HQ, Wan SC, Ruan CJ, Wei W, Miao H, Chen GW, Liu Y, Zhu K, Chao L, Wang G. Soil microbial necromass: The state-of-the-art, knowledge gaps, and future perspectives. European Journal of Soil Biology, 2022, 15: 103472.

Ruan CJ, Ramoneda J, Gogia G, Wang G, Johnson DR. Fungal hyphae regulate bacterial diversity and plasmid-mediated functional novelty during range expansion. Current Biology, 2022, 32(24):5285-5294.e4.

Wu HQ, Wan SC, Ruan CJ, Niu XY, Chen GW, Liu Y, Zhu K, Schulin R, Wang G. Phage-bacterium interactions and nutrient availability conspire to shape C and N retention in microbial necromass. European Journal of Soil Science, 2022. 73( 4), e13296.

Ciccarese D, Micali G, Borer B, Ruan CJ, Or D, Johnson DR. Rare and localized events stabilize microbial community composition and patterns of spatial self-organization in a fluctuating environment. The ISME Journal. 2022. 16: 1453–1463.

Ruan CJ, Ramoneda J, Chen GW, Johnson DR, Wang G. Evaporation-induced hydrodynamics promote conjugation-mediated plasmid transfer in microbial populations. ISME Communications. 2021. 1: 54.

Ruan CJ, Niu XY, Xiong GZ, Chen GW, Wu HQ, Ma ZC, Zhu K, Liu Y, Wang G. Phenotypic and genotypic characterization of the new Bacillus cereus phage SWEP1. Archives of Virology, 2021. 166: 3183-3188.

Wang J, Ruan CJ (Co-first Author), Song L, Zhu YX, Li A, Zheng XW, Wang L, Lu ZJ, Huang Y, Du WB, Zhou YG, Huang L, Dai X. Gimesia benthica sp. nov., a novel planctomycete isolated from a deep-sea water sample of the Northwest Indian Ocean. International Journal of Systematic and Evolutionary Microbiology, 2020, 70(7): 4384-4389.

Ruan CJ, Wang J, Zheng XW, Song L, Zhu YX, Huang Y, Lu ZJ, Du WB, Huang L, Dai X. Halovulum marinum sp. nov., isolated from deep-sea water of the Indian Ocean, and emended description of the genus Halovulum. International Journal of Systematic and Evolutionary Microbiology, 2020, 70(8):4523-4530.

Ruan CJ, Zheng X, Wang J, Song L, Zhu YX, Du WB, Lu ZJ, Huang Y, Huang L, Dai X. Hyphobacterium indicum sp. nov., isolated from deep seawater, and emended description of the genus Hyphobacterium. International Journal of Systematic and Evolutionary Microbiology, 2018, 68(12): 3760-3765.