Book Chapters (7):
Two in English ( Imperial College Press and Springer) and Five in Chinese (BioProtocol and ChinaScience Publishing & Media Ltd )
1.Yulin Wang, Feng Ju*. (2025). Artificial Synthetic Microbial Community and Activated Sludge Microbiome Engineering . Chapter VI of “Synthetic Microbiome Engineering”. China Science Publishing & Media Ltd.(in Chinese).
2. Ju F*, Zhang L, Yao Y, WU L. (2024). Emerging biological pollutants and control. Chapter 10 of Environmental biosafety. China Science Publishing & Media Ltd.(in Chinese).
3. Huang X, Zhang L, Yuan L, and Ju F*. (2021). Quantitative Metagenomics and Metatranscriptomics Methods of Microbiome. Microbiome Protocol eBook Bio-101: e2003693, BioProtocol. DOI: 10.21769/BioProtoc.2003693 (in Chinese).
4. Zhang L and Ju F*. (2021). RNA-Stable Isotope Probing for Microbial Communities. Microbiome Protocol eBook Bio-101: e2003692. BioProtocol. DOI: 10.21769/BioProtoc.2003692 (in Chinese).
5. Zhao Z and Ju F*. (2020). Isolation and Extraction of Intracellular Absorbed-extracellular and Free-extracellular Environmental DNA from Aquatic Microbial Community. Microbiome Protocol eBook Bio-101: e2003587. BioProtocol. DOI: 10.21769/BioProtoc.2003587 (in Chinese)
6. Zhang H, Zhou N, Ju F*.(2020). Immunoreaction-Based Sensors to Improve Bacterial Detection. Book chapter of “Handbook of Biochips”, Springer, May 2020. ISBN: 978-1-4614-6623-9.
7. Ju F, Fang H, Zhang T.(2015). Application of Metagenomics in Environmental Anaerobic Technology. Book chapter V of “Anaerobic Biotechnology: Environmental Protection and Resource Recovery”, Imperial College Press, ISBN: 978-1-78326-790-3
Journal Publications (120): Nature Communication (2), Trends in Microbiology, The ISME Journal (7), Microbiome (2), Advanced Science (2), Environmental Science & Technology (14), Water Research (16), Journal of Hazardous Materials (7), Applied Microbiology and Biotechnology (6), Environmental Microbiology (3)，etc.
Google scholar profile: https://scholar.google.com/citations?user=k7tt13cAAAAJ&hl=en
Publications at Westlake (* Denotes corresponding author)
1.Hui Wang, Ze Zhao, Limin Lin, Ao Dong, Ye Deng, Jizhong Zhou, Feng Ju*. 2026. Candidatus Dermatophostum as a novel genus of polyphosphate-accumulating organisms for high-strength wastewater treatment. The ISME Journal. 1(20): wrag032
2.Yichen Ding, Yunhua Zhang*, Yaofeng Zhou, Wujia Mo, Keyi Chen, Feng Ju*. 2026. Precision Insect Control Using Programmable Modular Phage Therapy Platforms. Trends in Biotechnology. 45(3): 1-18
3.Xiaoxi Kang, Ze Zhao, Xinyu Zhu, Feng Ju*. 2026. Uncovering Plasticizer-Degrading Potential in Landfill Microbiomes with Curated PzDE-HMM Database and Multi-Scale Validation from Isolates to Synthetic Consortia. Journal of Hazardous Materials. 504: 141398
4.Limin Lin, Xinyu Zhu, Xiaoxing Lin, Ze Zhao, Hui Wang, Huizhen Yan, Feng Ju*. 2026. Nitrogen-Removal Collapse and Recovery: Seasonal Microbiome Dynamics and Cold-Adaptive Mechanisms in a Full-Scale Livestock Wastewater Activated Sludge System. Water Research. 287: 124515
5.Xinyu Zhu, Limin Lin, Feng Ju*. 2025. Tracking mitigation and expression patterns of antibiotic resistant genes during full-scale livestock wastewater treatment: Comparison between summer and winter conditions. Water Research. 287: 124515
6.Huilin Zhang, Yuqiu Luo, Xinyu Zhu, Feng Ju*. 2025. Environmental antimicrobial resistance: key reservoirs, surveillance and mitigation under One Health. Biocontaminant 1 (1): e022
7.Xiaoxi Kang, Xiaolei Wang, Yunhua Zhang, Feng Ju*. 2025. Multi-omics-Guided Discovery of Broad-Spectrum Plasticizer Degrader Rhodococcus sp. SPR1 and Key Enzymes Driving Tris (2-ethylhexyl) Trimellitate (TOTM) Degradation. Journal of Hazardous Materials, 499: 140086
8.Xinyu Huang, Yuanzhen He, Lu Zhang, Jia Chen, Guoqing Zhang, Zhiguo Zhang, Wei Huang, Lukuo Ma, Fangping Cheng, Yuntao Wang, Xinyu Zhu, Feng Ju*. 2025. Deciphering Structuring Mechanism and Increased Health Risk of Antibiotic Resistome from a Coastal River Basin to the Downstream Estuary and Bay Under Anthropogenic Disturbances. Journal of Hazardous Materials. 499:140040
9.Huizhen Yan, Yunhua Zhang, Zhiguo Zhang, Ze Zhao, Lu Zhang, Feng Ju*. 2025. Soil pH and nitrate shape deterministic assembly of microbial communities in agricultural soils via Nitrososphaeria. Applied and Environmental Microbiology, e02067-25
10.Lingrong Jin, Ling Yuan, Helmut Bürgmann, Feng Ju*. 2025. Wastewater treatment plant effluent drives coupled changes of viral and bacterial community structure and function in impacted rivers. Environment International. 109737
11.Ze Zhao, Han Gao, Yuyi Yang; Ye Deng, Feng Ju*. 2025. Fungi as A Critical Component of Lake Microbiota in Response to Cyanobacterial Harmful Algal Blooms. Environmental Science & Technology. 59(22): 11167-11180
12.Haoran Peng, Zhe Zhang, Xiaoxi Kang, Yunhua Zhang, Huilin Zhang, Yuxuan Wang, Dongchen Yang, Jinlin Zhang, Yajie Wang, Li Cui, Gong-guan Zhu, Feng Ju*. 2025. Unveiling Gut Microbiota and Metabolic Functions Contributed to Polyvinyl Chloride Degradation in Spodoptera frugiperda Larvae. Journal of Hazardous Materials, 138209
13.Yubo Wang*, Ruoqun Zhang, Cunxiao Wang, Weifu Yan, Tong Zhang, Feng Ju*. 2025. Metabolic Segregation and Functional Gene Clusters in Anaerobic Digestion Consortia. Environmental Microbiology. 4(27): e70091
14.Xinyu Zhu, Irini Angelidaki, Tong Zhang, Feng Ju*. 2025. Metagenomics Disentangles Differential Resistome Traits and Risks in Full-Scale Anaerobic Digestion Plants under Ambient, Mesophilic, and Thermophilic Conditions. ACS Environmental Au. 5(2):183-196 (Published as part of ACS Environmental Au special issue “2024 Rising Stars in Environmental Research”)
15.Yunhua Zhang, Wujia Mo, Keyi Chen, Yichen Ding, Kaikai Mao, Hu Wan, Jizhong Zhou, Feng Ju*. 2025. Cooperative Microbial Metabolism Enhances Tryptophan-Mediated Insecticide Detoxification in the Fall Armyworm. The ISME Journal. 1(19), wraf23
16.Yunhua Zhang, Kaikai Mao, Keyi Chen, Ze Zhao, Feng Ju*. 2024. Symbiont community assembly shaped by insecticide exposure and feedback on insecticide resistance of Spodoptera frugiperda. Communications Biology. 7(1): 1194
17.Yunhua Zhang, Feng Ju*. 2024. Uninheritable but Widespread Bacterial Symbiont Enterococcus casseliflavus Mediates Detoxification of the Insecticide Chlorantraniliprole in the Agricultural Invasive Pest. Journal of Agricultural and Food Chemistry. 72 (33), 18365-18377
18.Ling Yuan, Pingfeng Yu, Xinyu Huang, Ze Zhao, Linxing Chen, Feng Ju*. 2024. Seasonal succession, host associations, and biochemical roles of aquatic viruses in a eutrophic lake plagued by cyanobacterial blooms. Environment International. 193: 109125
19.Ze Zhao, Wei Qin, Ling Li, Heping Zhao, Feng Ju*. 2024. Discovery of Candidatus Nitrosomaritimum as a New Genus of Ammonia-Oxidizing Archaea Widespread in Anoxic Saltmarsh Intertidal Aquifers. Environmental Science & Technology. 58(36):16040-16054
20.Zhiguo Zhang, Xinyu Zhu, Jianqiang Su, Sixi Zhu, Lu Zhang, Feng Ju*. 2024. Metagenomic Insights into Potential Impacts of Antibacterial Biosynthesis and Anthropogenic Activity on Nationwide Soil Resistome. Journal of Hazardous Materials. 473: 134677
21.Guoqing Zhang, Hui Wang, Zhiguo Zhang, Lu Zhang, Guibing Guo, Jian Yang, Fajie Yuan*, Feng Ju*. 2024. Highly accurate classification and discovery of microbial protein-coding gene functions using FunGeneTyper: an extensible deep learning framework. Briefings in Bioinformatics. 25 (4): bbae319
22.Feng Ju*, Qixiao Zhai, Gang Luo, Hongzhi Tang, Lei Dai. 2024. Microbiome research for advancing engineering in life science. Engineering in Life Sciences. 24 (5): 2400028
23.Zhiguo Zhang, Lu Zhang, Lihan Zhang, Haiyan Chu, Jizhong Zhou, Feng Ju*. 2024. Diversity and distribution of biosynthetic gene clusters in agricultural soil microbiomes. Msystems. 9 (4), e01263-23
24.Xiangyu Yang, Yi Chen*, Tao Liu, Lu Zhang, Hui Wang, Mengli Chen, Qiang He, Gang Liu, Feng Ju* .2024. Plastic particles affect N2O release via altering core microbial metabolisms in constructed wetlands. Water Research. 255:121506
25.Lu Zhang, Lingyun Guo, Zhongli Cui, Feng Ju*. 2024. Exploiting predatory bacteria as biocontrol agents across ecosystems. Trends in Microbiology. 32(4):398-409
26.Lu Zhang, Xinyu Huang, Jizhong Zhou, Feng Ju*. 2023. Active predation, phylogenetic diversity, and global prevalence of myxobacteria in wastewater treatment plants. The ISME Journal.17(5):671-681
27.Ling Yuan, Feng Ju*. 2023. Potential auxiliary metabolic capabilities and activities reveal biochemical impacts of viruses in municipal wastewater treatment plants. Environmental Science & Technology. 57(13):5485-5498
28.Xinyu Zhu, Songmei Zhu, Ze Zhao, Xiaoxi Kang, Feng Ju*. 2023. Microbiome dynamics during anaerobic digestion of food waste and the genetic potential for poly (lactic acid) co-digestion. Chemical Engineering Journal. 473: 145194
29.Xinyu Zhu, Ping Li, Feng Ju*. 2023. Microbiome dynamics and products profiles of biowaste fermentation under different organic loads and additives. Engineering in Life Sciences. e2300216
30.Hui Wang, Yubo Wang, Guoqing Zhang, Ze Zhao, Feng Ju*. 2023. Temporal dynamics and performance association of the Tetrasphaera-enriched microbiome for enhanced biological phosphorus removal. Engineering. 29: 168-178
31.Hui Wang, Limin Lin, Lu Zhang, Ping Han, Feng Ju*. 2023. Microbiome assembly mechanism and functional potential in enhanced biological phosphorus removal system enriched with Tetrasphaera-related polyphosphate accumulating organisms. Environmental Research.233:116494
32.Ze Zhao, Lu Zhang, Guoqing Zhang, Han Gao, Xiaogang Chen, Ling Li, Feng Ju*. 2023. Hydrodynamic and anthropogenic disturbances co-shape microbiota rhythmicity and community assembly within intertidal groundwater-surface water continuum. Water Research. 242:120236
33.Zhiguo Zhang, Lu Zhang, Guoqing Zhang, Ze Zhao, Hui Wang, Feng Ju*. 2023. Deduplication improves cost-efficiency and yields of de novo assembly and binning of shotgun metagenomes in microbiome research. Microbiology Spectrum.11(2). e04282-22
34.Limin Lin, Feng Ju* 2023. Evaluation of different 16S rRNA gene hypervariable regions and reference databases for profiling engineered microbiota structure and functional guilds in a swine wastewater treatment plant. Interface Focus.13(4):20230012
35.Jangwoo Lee, Feng Ju*, Karin Beck, Helmut Bürgmann*. 2023. Differential effects of wastewater treatment plant effluents on the antibiotic resistomes of diverse river habitats. The ISME Journal. 17: 1993-2002 (#equal contribution)
36.Lin Zhu, Ling Yuan, Xin-Yi Shuai, Ze-Jun Lin, Yu-Jie Sun, Zhen-Chao Zhou, Ling-Xuan Meng, Feng Ju*, Hong Chen*. 2023. Deciphering basic and key traits of antibiotic resistome in influent and effluent of hospital wastewater treatment systems. Water Research. 231:119614
37.Huilin Zhang, Lei Wang, Zhiguo Zhang, Jianhua Lin, Feng Ju*. 2023. Cost-Efficient Micro-Well Array-Based Colorimetric Antibiotic Susceptibility Testing (MacAST) for Bacteria from Culture or Community. Biosensors, 12(13), 10.3390/bios13121028
38.Moran Tang, Qian Chen, Haohui Zhong, Feng Ju*, Yang Wu, Jingrun Hu, Si Li, Weiling Sun*. 2023. Exploring diversity patterns and driving mechanisms of the antibiotic resistome and microbiome in saline groundwater. Journal of Hazardous Materials. 446: 130734
39.Yuanzhen He, Hui Jin, Feng Ju*. 2023. Toxicological effects and underlying mechanisms of chlorination-derived metformin byproducts in Escherichia coli. Science of The Total Environment. 905:167281.
40.Yunhua Zhang, Feng Ju*. 2023. Fighting caterpillar pests and managing agricultural insecticide resistance with Lepidoptera-associated Enterococcus casseliflavus. The Innovation Life. 3(1): 100042
41.Zhe Zhang, Haoran Peng, Dongchen Yang, Guoqing Zhang, Jinlin Zhang, Feng Ju*. 2022. Polyvinyl chloride degradation by a bacterium isolated from the gut of insect larvae. Nature Communication. 13: 5360
42.Yuanzhen He, Yanyan Zhang, Feng Ju*. 2022. Metformin contamination in global waters: biotic and abiotic transformation, byproduct generation and toxicity, and evaluation as a pharmaceutical indicator. Environmental Science & Technology. 56(19):13528-13545.
43.Zhiguo Zhang, Guoqing Zhang, Feng Ju*. 2022. Using culture-enriched phenotypic metagenomics for targeted high-throughput monitoring of clinically-important fraction of the β-lactam resistome. Environmental Science & Technology. 56(16): 11429-11439
44.Menglei Shuai, Guoqing Zhang, Fangagn Zeng, Yuanqing Fu, Feng Ju*, Jjusheng Zheng* et al. 2022. Human gut antibiotic resistome and progression of diabetes. Advanced Science. e2104965
45.Han Gao, Ze Zhao, Lu Zhang, Feng Ju*. 2022. Cyanopeptides restriction and degradation co-mediate microbiota assembly during a freshwater cyanobacterial harmful algal bloom (CyanoHAB). Water Research. 220.118674
46.Xiangyu Yang, Lu Zhang, Yi Chen*, Qiang He, Tao Liu, Guoqing Zhang, Ling Yuan, Haoran Peng, Hui Wang, Feng Ju*. 2022. Micro(nano)plastic size and concentration co-differentiate nitrogen transformation, microbiota dynamics, and assembly patterns in constructed wetlands. Water Research. 220: 118636
47.Liuqing He, Xinyu Huang, Guoqing Zhang, Ling Yuan, Enhui Shen, Lu Zhang, Xiaohua Zhang, Tong Zhang, Liang Tao*, Feng Ju*. 2022. Distinctive signatures of pathogenic and antibiotic resistant potentials in the hadal microbiome. Environmental Microbiome. 25. 17(1): 19
48.Yuanzhen He, Hui Jin, Han Gao, Guoqing Zhang, Feng Ju*. 2022. Prevalence, production, and ecotoxicity of chlorination-derived metformin byproducts in Chinese urban water systems. Science of the Total Environment. 151665
49.Runshuai Zhang, Yuanzhen He, Luxia Yao, Jie Chen, Shihao Zhu, Xinxin Rao, Peiyuan Tang, Jia You, Guoqiang Hua, Lu Zhang, Feng Ju*, Lianfeng Wu*. 2021. Metformin chlorination byproducts in drinking water exhibit marked toxicities of a potential health concern. Environment International. 146: 106244
50.Ling Yuan, Yubo Wang, Lu Zhang, Alejandro Palomo, Jizhogn Zhou, Barth F. Smets, Helmut Bürgmann, Feng Ju*. 2021. Pathogenic and indigenous denitrifying bacteria are transcriptionally active and key multi-antibiotic resistant players in wastewater treatment plants. Environmental Science & Technology. 55(15): 10862-10874
51.Huilin Zhang, Yuan Yao, Yue Hui, Lu Zhang, Nanjia Zhou*, Feng Ju*. 2021. A 3D-printed microfluidic gradient concentration chip for rapid antibiotic susceptibility testing. Bio-Design and Manufacturing. 174: 1-10
52.Xiangyu Yang, Hui Wang, Lu Zhang, Lingwei Kong, Yi Chen, Qiang He, Ling Li, Hans-Peter Grossart, Feng Ju*. 2021. Marine algae facilitate transfer of microplastics and associated pollutants into food webs. Science of The Total Environment. 787: 147535
53.Lu Zhang, Wei Yin, Chao Wang, Aijing Zhang, Hong Zhang, Tong Zhang, Feng Ju*. 2021. Untangling microbiota diversity and assembly patterns in the world's largest water diversion canal. Water Research. 117617.