主要研究方向为：病原微生物毒力进化机制与早期预警研究。
针对我国环境病原监测技术体系尚未建立，相关基础研究严重不足的现状，围绕上述科学问题开展了一系列研究
，取得的成果包括：
1、通过环境监测阐明了我国动物用益生菌存在重大安全隐患，研究论文发表于Clinical Infectious Diseases后
被包括美国传染病政策研究中心，中国热心肠日报等多家国内外媒体转载；随后2021年5月，农业农村部发布了
（农渔发[2021]1号）通知，要求将动物用益生菌参照兽药管理；
2、阐明了致病性弧菌在环境中的环境适应性进化策略，包括：基因删除、基因水平转移等；
3、建立了环境病原监测技术，通过测定城市污水中包括新冠病毒在内的多个关键病原浓度等数据，建立和优化预测模型，推算感染人数，建立了基于污水的传染病风险评估体系，并在深圳等多个城市示范应用，
为感染高峰和住院高峰的预测提供了重要信息，在第一波和第二波新冠疫情中降低了医疗挤兑，并得到了深圳市
疾控中心和国家疾控局等多家单位的表彰。所指导研究生多次获得国家奖学金。
更详细研究内容请看视频介绍：
https://www.bilibili.com/video/BV19H4y1E7ht/
欢迎生物学和基础医学相关专业同学报考该方向研究生
主要研究成果（*为通讯作者）
1. Fu S, et al. Targeted amplicon sequencing facilitated a novel risk assessment framework for assessing the prevalence of broad spectrum bacterial and coronavirus diseases. Science of the Total Environment, 2024, 857:159357(一区Top期刊)
2. Fu S, et al. Longitudinal wastewater surveillance of four key pathogens during an unprecedented large-scale COVID-19 outbreak in China facilitated a novel strategy for addressing public health priorities - a proof of concept study. Water Research, 2023, 247: 120751 (一区Top期刊)
3. Fu S*, Wang R, Zhang J, Xu Z, Yang X, Yang Q. Temporal variability of microbiome in the different plankton hosts revealed distinct environmental persistence of Vibrio parahaemolyticus in shrimp farms. Microbiol Res. 2023; 275:127464. (中科院2区期刊)
4. Fu S*, Zhang Y, Wang R, Qiu Z, Song W, Yang Q, Shen L. A novel culture-enriched metagenomic sequencing strategy effectively guarantee the microbial safety of drinking water by uncovering the low abundance pathogens. J Environ Manage. 2023；345:118737. (中科院1区Top期刊)
5. Fu S*, He F, Wang R, Song W, Wang Q, Xia W, Qiu Z. Development of quantitative wastewater surveillance models facilitated the precise epidemic management of COVID-19. Science of the Total Environment. 2023; 857(Pt 1):159357. (中科院1区Top期刊)
6. Fu S*, Wang Q, Wang R, Zhang Y, Lan R, He F, Yang Q. Horizontal transfer of antibiotic resistance genes within the bacterial communities in aquacultural environment. Sci Total Environ. 2022; 820:153286. (中科院1区Top期刊)
7. Fu S*, Yang Q, Sheng Y, Wang Q, Wu J, Qiu Z, Lan R, Wang Y, Liu, Y. Metagenomics combined with comprehensive validation as a public health risk assessment tool for urban and agricultural run-off. Water Research. 2022; 209: 117941. (中科院1区Top期刊)
8. Fu S*, Yang Q*, Wang Q, Pang B*, Lan R, Wei D, Qu B, Liu Y. Continuous Genomic Surveillance Monitored the In Vivo Evolutionary Trajectories of Vibrio parahaemolyticus and Identified a New Virulent Genotype. mSystems. 2021;6(1):e01254-20. (中科院2区期刊)
9. Fu S, Wang Q, Zhang Y, Yang Q, Hao J, Liu Y, Pang B*. Dynamics and Microevolution of Vibrio parahaemolyticus Populations in Shellfish Farms. mSystems. 2021;6(1):e01161-20. (中科院2区期刊)
10. Fu S, Yang Q, He F, Lan R, Hao J, Ni P, Liu Y, Li R. National Safety Survey of Animal-use Commercial Probiotics and Their Spillover Effects from Farm to Humans: An Emerging Threat to Public Health. Clin Infect Dis. 2020;70(11):2386-2395(中科院1区Top期刊)
11. Fu S, Wei D, Yang Q, Xie G, Pang B, Wang Y, Lan R, Wang Q, Dong X, Zhang X, Huang J*, Feng J*, Liu Y*. Horizontal Plasmid Transfer Promotes the Dissemination of Asian Acute Hepatopancreatic Necrosis Disease and Provides a Novel Mechanism for Genetic Exchange and Environmental Adaptation. mSystems. 2020;5(2):e00799-19. (中科院2区期刊)
12. Fu S*, Xia W, Wang Q, Rahman MM, Hao J, Ye S, Liu Y, Li R. Genomic characterization and pathogenicity analysis of the probiotic Vagococcus lutrae strain VL-18 causing severe skin lesions in warm-blooded animals. Aquaculture. 2020; 523:735166. (中科院1区Top期刊)