Ye Deng

Scopus Author ID Loop profile ORCID

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 57

Top Venues

Nature communications

mSystems

Environmental science & technology

NPJ biofilms and microbiomes

University of Oklahoma

This page only lists publications with an associated author ORCID identifier.

Affiliation History

University of Oklahoma Jul 01 2007 - Apr 30 2014

United States

Research Scientist :: Microbiology and Plant Science

Publications

Wei Wei, Jing Li, Boyu Tang, Ye Deng, Yan Li, Qianming Chen
Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. mSystems 9 (2) (2024)
Xi Peng, Shang Wang, Miaoxiao Wang, Kai Feng, Qing He, Xingsheng Yang, Weiguo Hou, Fangru Li, Yuxiang Zhao, Baolan Hu, Xiao Zou, Ye Deng
Metabolic interdependencies in thermophilic communities are revealed using co-occurrence and complementarity networks. Nature communications 15 (1) (2024)
Jing Tian, Jennifer A J Dungait, Ruixing Hou, Ye Deng, Iain Paul Hartley, Yunfeng Yang, Yakov Kuzyakov, Fusuo Zhang, M Francesca Cotrufo, Jizhong Zhou
Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nature communications 15 (1) (2024)
Jing Tian, Jennifer A J Dungait, Ruixing Hou, Ye Deng, Iain Paul Hartley, Yunfeng Yang, Yakov Kuzyakov, Fusuo Zhang, M Francesca Cotrufo, Jizhong Zhou
Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nature communications 15 (1) (2024)
Yang Yu, Yong Zhou, Ivan A Janssens, Ye Deng, Xiaojia He, Lingli Liu, Yin Yi, Nengwen Xiao, Xiaodong Wang, Chao Li, Chunwang Xiao
Divergent rhizosphere and non-rhizosphere soil microbial structure and function in long-term warmed steppe due to altered root exudation. Global change biology 30 (1) (2024)
Wei Wei, Jing Li, Boyu Tang, Ye Deng, Yan Li, Qianming Chen
Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. mSystems 9 (2) (2024)
Wei Wei, Jing Li, Boyu Tang, Ye Deng, Yan Li, Qianming Chen
Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. mSystems (2024)
Enzhao Wang, Bing Yu, Jiayin Zhang, Songsong Gu, Yunfeng Yang, Ye Deng, Xue Guo, Buqing Wei, Jingjing Bi, Miaomiao Sun, Huaqi Feng, Alin Song, Fenliang Fan
Low Carbon Loss from Long-Term Manure-Applied Soil during Abrupt Warming Is Realized through Soil and Microbiome Interplay. Environmental science & technology (2024)
Wei Wei, Jing Li, Boyu Tang, Ye Deng, Yan Li, Qianming Chen
Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. mSystems 9 (2) (2024)
Zhenyan Zhang, Qi Zhang, Bingfeng Chen, Yitian Yu, Tingzhang Wang, Nuohan Xu, Xiaoji Fan, Josep Penuelas, Zhengwei Fu, Ye Deng, Yong-Guan Zhu, Haifeng Qian
Global biogeography of microbes driving ocean ecological status under climate change. Nature communications 15 (1) (2024)
Jing Tian, Jennifer A J Dungait, Ruixing Hou, Ye Deng, Iain Paul Hartley, Yunfeng Yang, Yakov Kuzyakov, Fusuo Zhang, M Francesca Cotrufo, Jizhong Zhou
Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. Nature communications 15 (1) (2024)
Zhenyan Zhang, Qi Zhang, Bingfeng Chen, Yitian Yu, Tingzhang Wang, Nuohan Xu, Xiaoji Fan, Josep Penuelas, Zhengwei Fu, Ye Deng, Yong-Guan Zhu, Haifeng Qian
Global biogeography of microbes driving ocean ecological status under climate change. Nature communications 15 (1) (2024)
Wei Wei, Jing Li, Boyu Tang, Ye Deng, Yan Li, Qianming Chen
Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. mSystems (2024)
Enzhao Wang, Bing Yu, Jiayin Zhang, Songsong Gu, Yunfeng Yang, Ye Deng, Xue Guo, Buqing Wei, Jingjing Bi, Miaomiao Sun, Huaqi Feng, Alin Song, Fenliang Fan
Low Carbon Loss from Long-Term Manure-Applied Soil during Abrupt Warming Is Realized through Soil and Microbiome Interplay. Environmental science & technology 58 (22) (2024)
Yuxiang Zhao, Zishu Liu, Baofeng Zhang, Jingjie Cai, Xiangwu Yao, Meng Zhang, Ye Deng, Baolan Hu
Inter-bacterial mutualism promoted by public goods in a system characterized by deterministic temperature variation. Nature communications 14 (1) (2023)
Yi Sun, Hongjun Li, Xiaocheng Wang, Hongbo Li, Ye Deng
Kelp Culture Enhances Coastal Biogeochemical Cycles by Maintaining Bacterioplankton Richness and Regulating Its Interactions. mSystems (2023)
Haijuan Zhang, Kaifu Zheng, Songsong Gu, Yingcheng Wang, Xueli Zhou, Huilin Yan, Kun Ma, Yangan Zhao, Xin Jin, Guangxin Lu, Ye Deng
Grass-Legume Mixture with Rhizobium Inoculation Enhanced the Restoration Effects of Organic Fertilizer. Microorganisms 11 (5) (2023)
Yao Guo, Songsong Gu, Kaixuan Wu, Andrew J Tanentzap, Junqi Yu, Xiangfen Liu, Qianzheng Li, Peng He, Dongru Qiu, Ye Deng, Pei Wang, Zhenbin Wu, Qiaohong Zhou
Temperature-mediated microbial carbon utilization in China's lakes. Global change biology (2023)
Qing He, Shang Wang, Kai Feng, Sean T Michaletz, Weiguo Hou, Wenhui Zhang, Fangru Li, Yidi Zhang, Danrui Wang, Xi Peng, Xingsheng Yang, Ye Deng
High speciation rate of niche specialists in hot springs. The ISME journal (2023)
Kai Feng, Xi Peng, Zheng Zhang, Songsong Gu, Qing He, Wenli Shen, Zhujun Wang, Danrui Wang, Qiulong Hu, Yan Li, Shang Wang, Ye Deng
iNAP: An integrated network analysis pipeline for microbiome studies. iMeta 1 (2) (2022)
Shiqing Nie, Jichen Wang, Ye Deng, Zheng Ye, Yuan Ge
Inflammatory microbes and genes as potential biomarkers of Parkinson's disease. NPJ biofilms and microbiomes 8 (1) (2022)
Shiqing Nie, Jichen Wang, Ye Deng, Zheng Ye, Yuan Ge
Inflammatory microbes and genes as potential biomarkers of Parkinson's disease. NPJ biofilms and microbiomes 8 (1) (2022)
Kai Feng, Xi Peng, Zheng Zhang, Songsong Gu, Qing He, Wenli Shen, Zhujun Wang, Danrui Wang, Qiulong Hu, Yan Li, Shang Wang, Ye Deng
iNAP: An integrated network analysis pipeline for microbiome studies. iMeta 1 (2) (2022)
Zheng Zhang, Hongjun Li, Wenli Shen, Kai Feng, Shuzhen Li, Songsong Gu, Yuqi Zhou, Xi Peng, Xiongfeng Du, Qing He, Linlin Wang, Zhaojing Zhang, Danrui Wang, Zhujun Wang, Ye Deng
The Stability of Phyto-Zooplanktonic Networks Varied with Zooplanktonic Sizes in Chinese Coastal Ecosystem. mSystems 7 (5) (2022)
Shiqing Nie, Jichen Wang, Ye Deng, Zheng Ye, Yuan Ge
Inflammatory microbes and genes as potential biomarkers of Parkinson's disease. NPJ biofilms and microbiomes 8 (1) (2022)
Kun Ma, Yingcheng Wang, Xin Jin, Yangan Zhao, Huilin Yan, Haijuan Zhang, Xueli Zhou, Guangxin Lu, Ye Deng
Application of Organic Fertilizer Changes the Rhizosphere Microbial Communities of a Gramineous Grass on Qinghai-Tibet Plateau. Microorganisms 10 (6) (2022)
Wei Wei, Jia Li, Xin Shen, Jinglu Lyu, Caixia Yan, Boyu Tang, Wenjuan Ma, Huixu Xie, Lei Zhao, Lei Cheng, Ye Deng, Yan Li
Oral Microbiota from Periodontitis Promote Oral Squamous Cell Carcinoma Development via γδ T Cell Activation. mSystems 7 (5) (2022)
Shiqing Nie, Jichen Wang, Ye Deng, Zheng Ye, Yuan Ge
Inflammatory microbes and genes as potential biomarkers of Parkinson's disease. NPJ biofilms and microbiomes 8 (1) (2022)
Danrui Wang, Shang Wang, Xiongfeng Du, Qing He, Yue Liu, Zhujun Wang, Kai Feng, Yan Li, Ye Deng
ddPCR surpasses classical qPCR technology in quantitating bacteria and fungi in the environment. Molecular ecology resources 22 (7) (2022)
Nana Liu, Huifeng Hu, Wenhong Ma, Ye Deng, Qinggang Wang, Ao Luo, Jiahui Meng, Xiaojuan Feng, Zhi-Heng Wang
Relative Importance of Deterministic and Stochastic Processes on Soil Microbial Community Assembly in Temperate Grasslands. Microorganisms 9 (9) (2021)
Hui Li, Shan Yang, Mikhail V Semenov, Fei Yao, Ji Ye, Rencang Bu, Ruiao Ma, Junjie Lin, Irina Kurganova, Xugao Wang, Ye Deng, Irina Kravchenko, Yong Jiang, Yakov Kuzyakov
Temperature sensitivity of SOM decomposition is linked with a K-selected microbial community. Global change biology 27 (12) (2021)
Luyao Kang, Leiyi Chen, Dianye Zhang, Yunfeng Peng, Yutong Song, Dan Kou, Ye Deng, Yuan-He Yang
Stochastic processes regulate belowground community assembly in alpine grasslands on the Tibetan Plateau. Environmental microbiology (2021)
Yuqi Zhou, Baoyu Sun, Baohua Xie, Kai Feng, Zhaojing Zhang, Zheng Zhang, Shuzhen Li, Xiongfeng Du, Qi Zhang, Songsong Gu, Wen Song, Linlin Wang, Jiangyang Xia, Guangxuan Han, Ye Deng
Warming reshaped the microbial hierarchical interactions. Global change biology 27 (24) (2021)
Ziyan Wei, Kai Feng, Zhujun Wang, Yu Zhang, Min Yang, Yong-Guan Zhu, Marko P J Virta, Ye Deng
High-Throughput Single-Cell Technology Reveals the Contribution of Horizontal Gene Transfer to Typical Antibiotic Resistance Gene Dissemination in Wastewater Treatment Plants. Environmental science & technology 55 (17) (2021)
Xiongfeng Du, Ye Deng, Shuzhen Li, Arthur Escalas, Kai Feng, Qing He, Zhujun Wang, Yueni Wu, Danrui Wang, Xi Peng, Shang Wang
Steeper spatial scaling patterns of subsoil microbiota are shaped by deterministic assembly process. Molecular ecology 30 (4) (2020)
Yueni Wu, Kai Feng, Ziyan Wei, Zhujun Wang, Ye Deng
ARDEP, a Rapid Degenerate Primer Design Pipeline Based on k-mers for Amplicon Microbiome Studies. International journal of environmental research and public health 17 (16) (2020)
Qiulong Hu, Lin Tan, Songsong Gu, Yansong Xiao, Xingyao Xiong, Wei-Ai Zeng, Kai Feng, Zhong Wei, Ye Deng
Network analysis infers the wilt pathogen invasion associated with non-detrimental bacteria. NPJ biofilms and microbiomes 6 (1) (2020)
Kai Feng, Shang Wang, Ziyan Wei, Zhujun Wang, Zhaojing Zhang, Yueni Wu, Yuguang Zhang, Ye Deng
Niche width of above- and below-ground organisms varied in predicting biodiversity profiling along a latitudinal gradient. Molecular ecology 29 (10) (2020)
Nana Liu, Huifeng Hu, Wenhong Ma, Ye Deng, Yuqing Liu, Baihui Hao, Xinying Zhang, Dimitar Dimitrov, Xiaojuan Feng, Zhi-Heng Wang
Contrasting Biogeographic Patterns of Bacterial and Archaeal Diversity in the Top- and Subsoils of Temperate Grasslands. mSystems 4 (5) (2019)
Zhaojing Zhang, Ye Deng, Kai Feng, Weiwei Cai, Shuzhen Li, Huaqun Yin, Mei-Ying Xu, Daliang Ning, Yuanyuan Qu
Deterministic Assembly and Diversity Gradient Altered the Biofilm Community Performances of Bioreactors. Environmental science & technology 53 (3) (2019)
Vanessa Buzzard, Sean T Michaletz, Ye Deng, Zhili He, Daliang Ning, Lina Shen, Qichao Tu, Joy D Van Nostrand, James W Voordeckers, Jianjun Wang, Michael D Weiser, Michael Kaspari, Robert B Waide, Jizhong Zhou, Brian J Enquist
Continental scale structuring of forest and soil diversity via functional traits. Nature ecology & evolution 3 (9) (2019)
Shuzhen Li, Ye Deng, Zhujun Wang, Zhaojing Zhang, Xiao Kong, Wenjun Zhou, Yanyun Yi, Yuanyuan Qu
Exploring the accuracy of amplicon-based internal transcribed spacer markers for a fungal community. Molecular ecology resources 20 (1) (2019)
Kai Feng, Yuguang Zhang, Zhili He, Daliang Ning, Ye Deng
Interdomain ecological networks between plants and microbes. Molecular ecology resources 19 (6) (2019)
Linwei Wu, Daliang Ning, Bing Zhang, Yong Li, Ping Zhang, Xiaoyu Shan, Qiuting Zhang, Mathew Robert Brown, Zhenxin Li, Joy D Van Nostrand, Fangqiong Ling, Naijia Xiao, Ya Zhang, Julia Vierheilig, George F Wells, Yunfeng Yang, Ye Deng, Qichao Tu, Aijie Wang, null null, Tong Zhang, Zhili He, Jurg Keller, Per Halkjaer Nielsen, Pedro J J Alvarez, Craig S Criddle, Michael Wagner, James M Tiedje, Qiang He, Thomas P Curtis, David A Stahl, Lisa Alvarez-Cohen, Bruce E Rittmann, Xianghua Wen, Jizhong Zhou
Global diversity and biogeography of bacterial communities in wastewater treatment plants. Nature microbiology 4 (7) (2019)
Ye Deng, Daliang Ning, Yujia Qin, Kai Xue, Liyou Wu, Zhili He, Huaqun Yin, Yuting Liang, Vanessa Buzzard, Sean T Michaletz, Jizhong Zhou
Spatial scaling of forest soil microbial communities across a temperature gradient. Environmental microbiology 20 (10) (2018)
Decai Jin, Xiao Kong, Bingjian Cui, Shulan Jin, Yunfeng Xie, Xingrun Wang, Ye Deng
Bacterial communities and potential waterborne pathogens within the typical urban surface waters. Scientific reports 8 (1) (2018)
Shengjun Xu, Shugeng Feng, Haishu Sun, Shanghua Wu, Guoqiang Zhuang, Ye Deng, Zhihui Bai, Chuanyong Jing, Xuliang Zhuang
Linking N2O Emissions from Biofertilizer-Amended Soil of Tea Plantations to the Abundance and Structure of N2O-Reducing Microbial Communities. Environmental science & technology 52 (19) (2018)
Yueni Wu, Yuzhan Yang, Lei Cao, Huaqun Yin, Meiying Xu, Zhujun Wang, Yangying Liu, Xin Wang, Ye Deng
Habitat environments impacted the gut microbiome of long-distance migratory swan geese but central species conserved. Scientific reports 8 (1) (2018)
Song-Can Chen, Guo-Xin Sun, Barry P Rosen, Si-Yu Zhang, Ye Deng, Bo-Kai Zhu, Christopher Rensing, Yong-Guan Zhu
Recurrent horizontal transfer of arsenite methyltransferase genes facilitated adaptation of life to arsenic. Scientific reports 7 (1) (2017)
Zhaojing Zhang, Yuanyuan Qu, Shuzhen Li, Kai Feng, Shang Wang, Weiwei Cai, Yuting Liang, Hui Li, Meiying Xu, Huaqun Yin, Ye Deng
Soil bacterial quantification approaches coupling with relative abundances reflecting the changes of taxa. Scientific reports 7 (1) (2017)
Jizhong Zhou, Ye Deng, Lina Shen, Chongqing Wen, Qingyun Yan, Daliang Ning, Yujia Qin, Kai Xue, Liyou Wu, Zhili He, James W Voordeckers, Joy D Van Nostrand, Vanessa Buzzard, Sean T Michaletz, Brian J Enquist, Michael D Weiser, Michael Kaspari, Robert Waide, Yunfeng Yang, James H Brown
Correspondence: Reply to 'Analytical flaws in a continental-scale forest soil microbial diversity study'. Nature communications 8 (2017)
Hao Yu, Zhili He, Aijie Wang, Jianping Xie, Liyou Wu, Joy D Van Nostrand, Decai Jin, Zhimin Shao, Christopher W Schadt, Jizhong Zhou, Ye Deng
Divergent Responses of Forest Soil Microbial Communities under Elevated CO2 in Different Depths of Upper Soil Layers. Applied and environmental microbiology 84 (1) (2017)
Qingyun Yan, James C Stegen, Yuhe Yu, Ye Deng, Xinghao Li, Shu Wu, Lili Dai, Xiang Zhang, Jinjin Li, Chun Wang, Jiajia Ni, Xuemei Li, Hongjuan Hu, Fanshu Xiao, Weisong Feng, Daliang Ning, Zhili He, Joy D Van Nostrand, Liyou Wu, Jizhong Zhou
Nearly a decade-long repeatable seasonal diversity patterns of bacterioplankton communities in the eutrophic Lake Donghu (Wuhan, China). Molecular ecology 26 (14) (2017)
Kai Feng, Zhaojing Zhang, Weiwei Cai, Wenzong Liu, Meiying Xu, Huaqun Yin, Aijie Wang, Zhili He, Ye Deng
Biodiversity and species competition regulate the resilience of microbial biofilm community. Molecular ecology 26 (21) (2017)
Yuguang Zhang, Xiao Liu, Jing Cong, Hui Lu, Yuyu Sheng, Xiulei Wang, Diqiang Li, Xueduan Liu, Huaqun Yin, Jizhong Zhou, Ye Deng
The microbially mediated soil organic carbon loss under degenerative succession in an alpine meadow. Molecular ecology 26 (14) (2017)
Jizhong Zhou, Ye Deng, Lina Shen, Chongqing Wen, Qingyun Yan, Daliang Ning, Yujia Qin, Kai Xue, Liyou Wu, Zhili He, James W Voordeckers, Joy D Van Nostrand, Vanessa Buzzard, Sean T Michaletz, Brian J Enquist, Michael D Weiser, Michael Kaspari, Robert Waide, Yunfeng Yang, James H Brown
Temperature mediates continental-scale diversity of microbes in forest soils. Nature communications 7 (2016)
Sophie Weiss, Will Van Treuren, Catherine A Lozupone, Karoline Faust, Jonathan Friedman, Ye Deng, Li Charlie Xia, Zhenjiang Zech Xu, Luke Ursell, Eric J Alm, Amanda Birmingham, Jacob A Cram, Jed A Fuhrman, Jeroen Raes, Fengzhu Sun, Jizhong Zhou, Rob Knight
Correlation detection strategies in microbial data sets vary widely in sensitivity and precision. The ISME journal 10 (7) (2016)

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Publication Activity (10 Years)

Top Topics

Top Venues

Ye Deng