Publications in 2025

  1. (New!) Songsong Gu, Xiongfeng Du, Mengting Maggie Yuan, Étienne Yergeau, Kai Feng, Zheng Zhang, Zhaojing Zhang, Yuqi Zhou, Linlin Wang, Danrui Wang, Tong Li, Chengliang Yan, Zhicheng Ju, Baohua Xie, Guangxuan Han, Ye Deng*. Microbial resistance and persistence increase during estuarine succession and promote nutrient accumulation. Ecological Indicators, 2025, 178: 114058 Read More
  2. (New!) Zhihan Wang, Shang Wang*, Qing He, Xingsheng Yang, Bo Zhao, Haihan Zhang*, Ye Deng*. Ecological Design of High-Performance Synthetic Microbial Communities: From Theoretical Foundations to Functional Optimization. ISME Communications, 2025, 5(1): ycaf133 Read More
  3. Kai Feng, Qing He, Xi Peng, Xingsheng Yang, Xiongfeng Du, Ziyan Wei, Shang Wang, Xiao Zou, Yuguang Zhang, Ye Deng*. Temperature and Biodiversity Regulate the Robustness of Plant–Microbe Networks in Natural Forests at Large Scale. Global Change Biology, 2025, 31(7): e70335 Read More
  4. Yingcheng Wang, Junbang Wang, Chu Wu, Huakun Zhou, Miao Zhang, Bo Zhao, Xi Peng, Xingsheng Yang, Xin Jin, Zhuohang Zhang, Guangxin Lu*, Ye Deng*. Selective Recruitment of Core Rhizobacterial Communities with Distinct Life History Traits by Two Grass Genera. Journal of Plant Ecology, 2025, DOI:10.1093/jpe/rtaf108Read More
  5. Yuqi Zhou#, Xinge Li#, Shuzhen Li, Xiongfeng Du, Zheng Zhang, Zhaojing Zhang, Kai Feng, Xi Peng, Wen Song, Song Gu, Pengpeng Duan, Baohua Xie, Guangxuan Han, Jianming Xu, Ye Deng*. Responses of Multi-Trophic Microbial Communities to Altered Precipitation affected soil respiration in Coastal Wetlands. Applied Soil Ecology, 2025, https://doi.org/10.1016/j.apsoil.2025.106304Read More
  6. Xingsheng Yang, Xi Peng, Kai Feng, Shang Wang, Xiao Zou, Ye Deng*. Organic molecular network analysis reveals transformation signatures of dissolved organic matter during anaerobic digestion process. Water Research, 2025, 10.1016/j.watres.2025.123777Read More
  7. Kai Feng, Ye Deng*. Intertwined Relationship Between Soil pH and Microbes in Biogeography. Global Change Biology, 2025, 31(4):e70208Read More
  8. Wenli Shen#, Danrui Wang#, Jiangtao Li, Yue Liu, Yinzhao Wang, Xingsheng Yang, Xi Peng, Bingliang Xie, Lei Su, Ziyan Wei, Qing He, Zhiyi Wang, Kai Feng, Wenbin Du*, Ye Deng*. Developing a microfluidic-based epicPCR reveals diverse potential hosts of the mcrA gene in marine cold seep. mLife, 2025, 4:70-82. 10.1002/mlf2.12159Read More
  9. Qing He, Shang Wang*, Kai Feng, Weiguo Hou, Wenhui Zhang, Fangru Li, Yidi Zhang, Wanming Hai, Yuxuan Sun, Ye Deng*. The same source of microbes has a divergent assembly trajectory along a hot spring flowing path. Molecular Ecology, 2025, DOI: 10.1111/mec.17727Read More
  10. Linlin Wang, Xiongfeng Du, Wenli Shen, Songsong Gu, Zhaojing Zhang, Zheng Zhang, Baohua Xie, Guangxuan Han, Ye Deng*. Inter-trophic networks reveal the central role of methanogens in deposited estuarine soils. Soil Ecology Letters, 2025, 7(2): 250295 Read More
  11. Huilin Yan, Xin Jin, Xueli Zhou, Songsong Gu, Xuexia Wu, Ping Li, Dejun Shi, Hanjiang Liu, Guangxin Lu*, Ye Deng*. Long-term cultivation of grass-legume mixtures changed the assembly process of the microbial community and increased microbial community stability. ISME Communications, 2025, https://doi.org/10.1093/ismeco/ycae157 Read More
  12. Hualiang Zhang, Dongsheng Guo, Yuting Lei, Jose L. Lozano-Torres, Ye Deng, Jianming Xu, Lingfei Hu*. Cover crop rotation suppresses root-knot nematode infection by shaping soil microbiota. New Phytologist, 2025, 245(1): 363-377 Read More
  13. Hao Yu, Mingyang Zhang, Huiying Liu, Juanjuan Xiao, Jianan Men, Tomislav Cernava, Ye Deng, Decai Jin*. Comparison of plastisphere microbiomes during the degradation of conventional and biodegradable mulching films. Journal of Hazardous Materials, 2025, 487: 137243 Read More
  14. Shuren Wang, Qinglong L. Wu*, Huabing Li, Rujia He, Congcong Jiao, Mengyu Qin, Ye Deng, Guoqing Zhang, Dayong Zhao, Jin Zeng*. Bioclimatic zonation and spatial-scale dependence of lacustrine microbial as semblages. Science Bulletin, 2025, doi.org/10.1016/j.scib.2025.01.056 Read More
  15. Shihai Liu, Shiting Dai, Ye Deng, Juan Li, Yu Zhang*, Min Yang. Long-read epicPCR enhances species-level host identification of clinically relevant antibiotic resistance genes in environmental microbial communities. Environment International, 2025, 197: 109337 Read More
  16. Yang Liu, Yuanhe Yang, Ye Deng, Yunfeng Peng. Long-term ammonium nitrate addition strengthens soil microbial cross-trophic interactions in a Tibetan alpine steppe. Ecology, 2025, DOI:10.1002/ecy.70057 Read More
  17. Yong-Chao Wang, Sen Wang, Ya-Hui Lv, Jia-Yi Wang, Wen-Xuan Yang, Ye Deng, Feng Ju, Can Wang. Diversity, influential factor, and communication network construction of quorum sensing bacteria in global wastewater treatment plants. Water Research, 2025, 279: 123437 Read More
  18. Qihe Tang, Tiedong Lu, Junya Zhang⁎,Haining Huang, Bing Guo, Ulisses Rocha, Marcell Nikolausz, Peihong Shen, Yuansong Wei, Ye Deng, Hans Hermann Richnow. Response of antibiotic resistance genes expression and mediating role of viral community to antibiotics and heavy metals in anaerobic digestion. Chemical Engineering Journal, 2025, 509: 161396 Read More
  19. Linqi Tian, Ye Deng, Helong Jiang*. Comparing the benthic nitrogenase activity and diazotrophic community assembly of three large river-connected freshwater lakes in eastern China. Journal of Environmental Sciences, 2025, 150: 134-148 Read More
  20. Ze Zhao, Han Gao, Yuyi Yang, Ye Deng, Feng Ju*. Fungi as a Critical Component of Lake Microbiota in Response to Cyanobacterial Harmful Algal Blooms. Environmental Science & Technology, 2025, https://doi.org/10.1021/acs.est.4c09164 Read More
  21. Huang Yu, Wenpan Lv, Dexin Ding, Nan Hu, Hui Zhang, Mingfei Chen, Cheng Wang, Qingyun Yan,Ye Deng, Zhili He, Hans K. Carlson, Ruiwen Hu*. Arsenite-oxidizing chemolithooautotrophic prokaryotes underpin inorganic carbon fixation and arsenic detoxification in deep underground uranium mining layers. Journal of Hazardous Materials, 2025, 496, 139213 Read More
  22. (New!) Yong-Chao Wang, Ya-Hui Lv, Ye Deng, Yu-Ting Lin, Guan-Yu Jiang, John C. Crittenden, Can Wang*. Rules governing general assembly of microbial communities in engineered biotreatment processes. Engineering, 2025, https://doi.org/10.1016/j.eng.2025.06.041 Read More
  23. (New!) Lingfang Ni, Chuancheng Fu, Gang Li, Kai Feng, Ye Deng, Jiaping Wu, Carlos M. Duarte, Yuan Li*, Dongdong Zhang*. Microbial abundance shapes latitudinal pattern of the greenhouse gas production potential in blue carbon ecosystems. Water Research, 2025, 287: 124357 Read More
  24. 刘明倩，张政，王尚*，冯凯，顾松松，李春格，邓晔. eDNA 技术监测陆地生物多样性：技术要点、难点与进展. 应用生态学报, 2025, 36(03): 927-942 Read More
  25. 张文君， 冯耀森， 彭加金， 冯凯，邓晔，康克莱*，王乐*. 基于ITS2测序的中国四个城市灰尘样本地域推断研究. 生物化学与生物物理进展, 2025 in press Read More
  26. 杨琪，康克莱，赵博，冯凯，冯耀森，叶健*，邓晔*，王乐*. 基于宏基因组鸟枪测序的中国典型城市灰尘地域推断研究. 遗传, 2025, 1-13 Read More