生物医药

1. 合成生物学及活菌生物药
构建工程化益生菌用于疾病的在体精准诊疗。以益生菌为底盘细胞，设计构建胞内传感、记录、调控等不同代谢功能模块，赋予工程化益生菌智能感应及原位诊疗功能，实现全细胞对肠道疾病及代谢性疾病的及时诊断和治疗的目标。
2. 食源性致病菌的致病机制解析
从翻译后修饰角度解析沙门氏菌、大肠杆菌等肠道致病菌在侵染宿主、增殖过程中的调控机制。通过研究宿主环境中小分子信号物质激活调控蛋白，引起关键位点的酰基化修饰而导致侵染能力变化，期望达到控制、预防食源性致病菌对宿主的侵害，维护肠道健康的目标。

(1) Yi-Lin Shen, Tian-Xian Liu, Lei Xu, Bang-Ce Ye*, Ying Zhou*. Reversible acetylation of ribosomal protein S1 serves as a smart switch for Salmonella to rapidly adapt to host stress. Nucleic Acids Research. 2025. 53, gkaf252.
(2) Hong-Rui Li, Ying Zhou*, Bang-Ce Ye*. Tumor-Targeted Delivery of PD-1-Displaying Bacteriophages by Escherichia coli for Adjuvant Treatment of Colorectal Cancer. ACS Synthetic Biology. 2025, 14, 2, 407–419.
(3) Zhen-Ping Zou, Zhihao Cai, Xiao-Peng Zhang, Donghui Zhang*, Chu-Ying Xu, Ying Zhou*, Runhui Liu*, and Bang-Ce Ye*. Delivery of Encapsulated Intelligent Engineered Probiotic for Inflammatory Bowel Disease Therapy. Advanced Healthcare Materials. 2024. 2403704.
(4) Zhen-Ping Zou#, Ju-Ling Li#, Yi-Fan Zhang, Ying Zhou*, Bang-Ce Ye*.Empowering probiotics with high xanthine transport for effective hyperuricemia management. Gut Microbes. 2024. 16(1): 2399213.
(5) Zhen-Ping Zou#, Junshan Wang#, Qian Zhang#, Bang-Ce Ye, Ying Zhou*. Engineered Bacteria for Visualization and Localization of Gastrointestinal Bleeding: A Promising Application. Analytical Chemistry. 2024. 96(34): 13854-13861.
(6) Wei Du, Shanshan Jiang, Shengxiang Yin, Rongjiang Wang, Chunling Zhang, Bin-Cheng Yin, Jialin Li, Li Li, Nan Qi*, Ying Zhou*, Bang-Ce Ye*. Microbiota-dependent Tryptophan Metabolite Alleviates High-fat diet-Induced Insulin Resistance through Hepatic AhR/TSC2/mTORC1 axis. PNAS. 2024. 121(35): e2400385121
(7) Yong-Qi Wu#, Zhen-Ping Zou#, Ying Zhou*, Bang-Ce Ye*. Dual engineered bacteria improve inflammatory bowel disease in mice. Applied Microbiology and Biotechnology. 2024. 108, 333-347
(8) Xin-Ge Wang#, Zhen-Ping Zou#, Yue Du, Bang-Ce Ye, Ying Zhou*. Construction of an engineered Escherichia coli with efficient chemotactic and metabolizing ability of tetrathionate. ACS Synthetic Biology. 2023. 12 (11), 3414-3423.
(9) Liu-Qing Zhang#, Yi-Lin Shen#, Bang-Ce Ye, Ying Zhou*. Acetylation of K188 and K192 Inhibits the DNA-Binding Ability of NarL to Regulate Salmonella Virulence. Applied and Environmental Microbiology. 2023. DOI:10.1128/aem.00685-23.
(10) Yan Zhang, Zhen-Ping Zou, Sheng-Yan Chen, Ying Zhou*, Bang-Ce Ye*. Biological Sentinel: An Efficient Engineered Bacterial System for Monitoring and Tracing Regulated Hazardous Chemicals. Analytical Chemistry. 2023. 95, 26, 9734-9738.
(11) Zhen-Ping Zou, Yue Du, Ting-Ting Fang, Ying Zhou*, Bang-Ce Ye*. Biomarker-responsive engineered probiotic diagnoses, records, and ameliorates inflammatory bowel disease in mice, Cell Host & Microbe. 2023, 31(2): 199-212.
(12) Zhen-Ping Zou, Yu-Hang Fan, Yue Du, Ting-Ting Fang, Wei Du, Ying Zhou*, Bang-Ce Ye*. Protocol for engineering E. coli Nissle 1917 to diagnose, record, and ameliorate inflammatory bowel disease in mice. STAR Protocols. 2023. 4(2):102254
(13) Shu-Shan Cai, Liu-Qing Zhang, Qian Zhang, Bang-Ce Ye, Ying Zhou*. Acetylation of NarL K188 and K192 is Involved in Regulating Escherichia coli Anaerobic Nitrate Respiration. Applied Microbiology and Biotechnology. 2022. Nov; 106(21):7209-7221
(14) Li Zhao#, Di You#, Bin-Cheng Yin*, Ying Zhou*, Bang-Ce Ye*. Acylation driven by intracellular metabolites in host cells inhibits Cas9 activity used for genome editing. PNAS Nexus. 2022. 1:1-8
(15) Jin-Yu Wang, Ying Zhou, Bin-Cheng Yin*, Bang-Ce Ye*. An miRISC-initiated DNA Nanomachine for Monitoring MicroRNA Activity in Living Cells. Biosensors and Bioelectronics. 2022. 220: 114828
(16) Bai-Qing Zhang, Zong-Qin Chen, Yu-Qi Dong, Di You*, Ying Zhou*, Bang-Ce Ye*. Selective recruitment of stress-responsive mRNAs to ribosomes for translation by acetylated protein S1 during nutrient stress in Escherichia coli. Communications Biology. 2022. 5:892
(17) Tian-Tian Chang, Zhi-Wei Lin, Bang-Ce Ye, Wei-Bing Liu*, Ying Zhou*. Efficient biodegradation of Di-(2-ethylhexyl) Phthalate by a novel strain Nocardia asteroides LMB-7 isolated from electronic waste soil. Scientific Reports. 2022.12:15262
(18) Zhen-Ping Zou, Ying Yang, Junshan Wang,Ying Zhou**, Bang-Ce Ye*. Coupling split-lux cassette with a toggle switch in bacteria for ultrasensitive blood markers detection in feces and urine. Biosensors and Bioelectronics. 2022. 214:114520-114528.
(19) Ting-Ting Fang, Zhen-Ping Zou, Ying Zhou*, Bang-Ce Ye*. Prebiotics-Controlled Disposable Engineered Bacteria for Intestinal Diseases. ACS Synthetic Biology. 2022. 11(9):3010-3014.
(20) Yan Zhang, Zhen-Ping Zou, Sheng-Yan Chen, Wen-Ping Wei, Ying Zhou, Bang-Ce Ye*. Design and optimization of E. coli artificial genetic circuits for detection of explosive composition 2,4-dinitrotoluene. Biosensors and Bioelectronics. 2022. 207: 114205.
(21) Yi-Lin Shen, Liu-Qing Zhang, Ying Yang, Bin-Cheng Yin, Bang-Ce Ye, Ying Zhou*.  Advances in role and mechanism of lactic acid bacteria in treating obesity. Food Bioengineering, 2022, 1: 1-10.
(22) 张萍, 魏文平, 周英*, 叶邦策*. 解脂耶氏酵母中光控表达系统的构建及其应用研究. 合成生物学. 2021, 2(5):778-791.（入选中国生物工程学会会刊2022年度十大优秀论文奖）.
(23) Shu-Shan Cai, Ying Zhou*, Bang-Ce Ye*. Reducing reproductive toxicity activity of Lactiplantibacillus plantarum: A review of mechanisms and prospect. Environ Sci Pollut Res. 2021. 28(28): 36927-36941.
(24) Wei-Bing Liu, Zhi-Wei Lin, Ying Zhou*, Bang-Ce Ye*. Overexpression of Capsular Polysaccharide Biosynthesis Protein in Lactobacillus plantarum P1 to enhance Capsular Polysaccharide production of di-n-butyl phthalate adsorption. J. Microbiol. Biotechnol. 2021. 31(11): 1545-1551.
(25) Yu-Hang Fan, Yi-Lin Shen, Zhi-Wei Lin, Ying Zhou*, Bang-Ce Ye*. Key role of exopolysaccharide on di-butyl phthalate adsorbing by Lactobacillus plantarum CGMCC18980. Appl. Microbiol. Biotechnol. 2021. 105, 2587-2595.