071300-生态学
071005-微生物学
071021-生物信息学

微生物生态学
环境微生物技术
生物统计学

2007-08--2009-07   美国俄克拉荷马大学   博士后
2002-08--2007-06   浙江大学   博士
1998-09--2002-06   中南大学   学士

   

2009-09~2014-01,美国俄克拉荷马大学, 研究科学家

2017-01-01-今,BMC Microbiology杂志, 编辑
2016-01-01-今,国际微生物生态学会, 中国青年大使
2016-01-01-今,Frontiers in Microbiology杂志, 编辑
2014-08-01-今,中国生态学会微生物生态专业委员会, 委员

现代环境生物技术
分子生物学在环境生物技术中的应用

   

[1] 邓晔, 颜程良, 王尚, 沈文丽, 何晴. 植物根际固氮菌多样性检测引物组、试剂盒及方法. CN: CN114381502A, 2022-04-22.

[2] 金德才, 吴璐瑶, 邓晔. 一种利用观赏植物修复铬污染土壤的方法. CN: CN114011875A, 2022-02-08.

[3] 邓晔, 杜雄峰, 厉舒祯. 一种用于评估土壤微生物多样性的方法. CN: CN111455032A, 2020-07-28.

[4] 邓晔, 杜雄峰, 厉舒祯. 一种用于评估土壤微生物多样性的方法. CN: CN111455032B, 2023-01-17.

[5] 邓晔, 吴悦妮. 一种基于k-mer算法的引物设计方法及系统. CN: CN111326210B, 2023-07-14.

[6] 邓晔, 吴悦妮. 一种基于k-mer算法的引物设计方法及系统. CN: CN111326210A, 2020-06-23.

[7] 邓晔, 刘洋荧, 厉舒祯. 一种利用碳基纳米材料提升真菌群落检测准确性的方法. CN: CN108517369B, 2022-10-14.

[8] 邓晔, 刘洋荧, 厉舒祯. 一种利用碳基纳米材料提升真菌群落检测准确性的方法. CN: CN108517369A, 2018-09-11.

[9] 邓晔, 魏子艳. 一种构建抗生素抗性基因数据库的方法. CN: CN108491692A, 2018-09-04.

[10] 邓晔, 魏子艳. 一种构建抗生素抗性基因数据库的方法. CN: CN108491692B, 2023-07-21.

[11] 邓晔, 厉舒帧, 宋茂勇. 一种利用碳基纳米材料提升细菌群落多样性检测准确性的方法. CN: CN108060219A, 2018-05-22.

[12] 邓晔, 杨兴盛, 王尚, 冯凯. 推断环境系统中有机质分子转化的方法. CN: CN116959610A, 2023-10-27.

[13] 邓晔, 颜程良, 王尚, 沈文丽, 何晴. 植物根际固氮菌多样性检测引物组、试剂盒及方法. CN: CN114381502B, 2023-12-29.

[14] 定量土壤中真菌和细菌的引物探针组合、试剂盒、方法和应用. 2024-08-21.

   

[1] Tian, Linqi, Deng, Ye, Jiang, Helong. Comparing the benthic nitrogenase activity and diazotrophic community assembly of three large river-connected freshwater lakes in eastern China. JOURNAL OF ENVIRONMENTAL SCIENCES[J]. 2025, 第 2 作者150: 134-148, http://dx.doi.org/10.1016/j.jes.2024.01.041.
[2] Xiao, Juanjuan, Wang, Deying, Sinchan, Banerjee, Mushinski, Ryan, Jin, Decai, Deng, Ye. Response patterns of the microbiome during hexavalent chromium remediation by Tagetes erecta L.. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2024, 第 6 作者935: http://dx.doi.org/10.1016/j.scitotenv.2024.173413.
[3] Feng, Kai, Wang, Shang, Qing He, Michael Bonkowski, Mohammad Bahram, Etienne Yergeau, Zhujun Wang, Xi Peng, Danrui Wang, Shuzhen Li, Yingcheng Wang, Zhicheng Ju, Xiongfeng Du, Chengliang Yan, Songsong Gu, Tong Li, Xingsheng Yang, Wenli Shen, Ziyan Wei, Qiulong Hu, Pengfei Li, Yanmei Zhu, Guangxin Lu, Clara Qin, Gengxin Zhang, Chunwang Xiao, Yunfeng Yang, Jizhong Zhou, Ye Deng. CoBacFM: Core bacteria forecast model for global grassland pH dynamics under future climate warming scenarios. One Earth[J]. 2024, 第 29 作者  通讯作者  null(null): 
[4] Wang, Enzhao, Yu, Bing, Zhang, Jiayin, Gu, Songsong, Yang, Yunfeng, Deng, Ye, Guo, Xue, Wei, Buqing, Bi, Jingjing, Sun, Miaomiao, Feng, Huaqi, Song, Alin, Fan, Fenliang. Low Carbon Loss from Long-Term Manure-Applied Soil during Abrupt Warming Is Realized through Soil and Microbiome Interplay. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2024, 第 6 作者58(22): 9658-9668, http://dx.doi.org/10.1021/acs.est.3c08319.
[5] Yu, Yang, Zhou, Yong, Janssens, Ivan A, Deng, Ye, He, Xiaojia, Liu, Lingli, Yi, Yin, Xiao, Nengwen, Wang, Xiaodong, Li, Chao, Xiao, Chunwang. Divergent rhizosphere and non-rhizosphere soil microbial structure and function in long-term warmed steppe due to altered root exudation. GLOBAL CHANGE BIOLOGY[J]. 2024, 第 4 作者30(1): http://dx.doi.org/10.1111/gcb.17111.
[6] Tian, Jing, Dungait, Jennifer A J, Hou, Ruixing, Deng, Ye, Hartley, Iain P, Yang, Yunfeng, Kuzyakov, Yakov, Zhang, Fusuo, Cotrufo, M Francesca, Zhou, Jizhong. Microbially mediated mechanisms underlie soil carbon accrual by conservation agriculture under decade-long warming. NATURE COMMUNICATIONS[J]. 2024, 第 4 作者15(1): http://dx.doi.org/10.1038/s41467-023-44647-4.
[7] Wang, Xun, Wang, Peifang, Deng, Ye, Xing, Xiaolei, Yuan, Qiusheng, Du, Chenggong, Gan, Jiawen, Zheng, Yuran, Liu, Yunxin, Xia, Yufan, Fang, Yuan. Impacts of cascade hydropower development on river ecosystem homeostasis: A review. JOURNAL OF HYDROLOGY. 2024, 第 3 作者638: http://dx.doi.org/10.1016/j.jhydrol.2024.131484.
[8] Wei, Wei, Li, Jing, Tang, Boyu, Deng, Ye, Li, Yan, Chen, Qianming. Metabolomics and metagenomics reveal the impact of γδ T inhibition on gut microbiota and metabolism in periodontitis-promoting OSCC. MSYSTEMS[J]. 2024, 第 4 作者9(2): http://dx.doi.org/10.1128/msystems.00777-23.
[9] 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[J]. 2024, 第 10 作者15(1): http://dx.doi.org/10.1038/s41467-024-49124-0.
[10] 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[J]. 2024, 第 12 作者  通讯作者  15(1): 1-14, http://dx.doi.org/10.1038/s41467-024-52532-x.
[11] Zhang, Xingxing, Wang, Yiwei, Jiao, Pengbo, Zhang, Ming, Deng, Ye, Jiang, Chengying, Liu, XianWei, Lou, Liping, Li, Yongmei, Zhang, XuXiang, Ma, Liping. Microbiome-functionality in anaerobic digesters: A critical review. WATER RESEARCH. 2024, 第 5 作者249: http://dx.doi.org/10.1016/j.watres.2023.120891.
[12] 王尚, 冯凯, 李曈, 王洁, 顾松松, 杨兴盛, 李春格, 邓晔. 环境病原微生物研究数据库及数据挖掘方法. 生物技术通报[J]. 2024, 第 8 作者  通讯作者  null(null): 
[13] Xi Peng, Kai Feng, Xingsheng Yang, Qing He, Bo Zhao, Tong Li, Shang Wang, Ye Deng. iNAP 2.0: Harnessing metabolic complementarity in microbial network analysis. IMETA[J]. 2024, 第 8 作者  通讯作者  3(5): n/a-n/a, https://doaj.org/article/f5e40429a92a4bf88e73b1efe2be3bf8.
[14] Wang, Shuping, Gu, Songsong, Zhang, Yaqun, Deng, Ye, Qiu, Wenhui, Sun, Qianhang, Zhang, Tianxu, Wang, Pengyuan, Yan, Zhenguang. Microeukaryotic plankton community dynamics under ecological water replenishment: Insights from eDNA metabarcoding. ENVIRONMENTAL SCIENCE AND ECOTECHNOLOGY[J]. 2024, 第 4 作者  通讯作者  20: http://dx.doi.org/10.1016/j.ese.2024.100409.
[15] Wang, YongChao, Lv, YaHui, Wang, Can, Deng, Ye, Jiang, GuanYu, Hu, XuRui, Crittenden, John C. Stochastic processes shape microbial community assembly in biofilters: Hidden role of rare taxa. BIORESOURCE TECHNOLOGY[J]. 2024, 第 4 作者  通讯作者  402: http://dx.doi.org/10.1016/j.biortech.2024.130838.
[16] Li, Tong, Feng, Kai, Wang, Shang, Yang, Xingsheng, Peng, Xi, Tu, Qichao, Deng, Ye. Beyond water and soil: Air emerges as a major reservoir of human pathogens. ENVIRONMENT INTERNATIONAL[J]. 2024, 第 7 作者  通讯作者  190: http://dx.doi.org/10.1016/j.envint.2024.108869.
[17] Xingsheng Yang, Kai Feng, Shang Wang, Mengting Maggie Yuan, Xi Peng, Qing He, Danrui Wang, Wenli Shen, Bo Zhao, Xiongfeng Du, Yingcheng Wang, Linlin Wang, Dong Cao, Wenzong Liu, Jianjun Wang, Ye Deng. Unveiling the deterministic dynamics of microbial meta-metabolism: a multi-omics investigation of anaerobic biodegradation. MICROBIOME[J]. 2024, 第 16 作者  通讯作者  12(1): 1-17, http://dx.doi.org/10.1186/s40168-024-01890-1.
[18] Bo Zhao, Zhaojing Zhang, Kai Feng, Xi, Peng, Weiwei Cai, Wenzong Liu, Aijie Wang, Ye Deng. Inoculum source determines the stress resistance of electroactive functional taxa in biofilms: A metagenomic perspective. Science of the Total Environment[J]. 2024, 第 8 作者  通讯作者  945(null): 
[19] Yi, Xingyun, Brandt, Kristian Koefoed, Xue, Shudan, Peng, Jingjing, Wang, Yifei, Li, Meng, Deng, Ye, Duan, Guilan. Niche differentiation and biogeography of Bathyarchaeia in paddy soil ecosystems: a case study in eastern China. ENVIRONMENTAL MICROBIOME[J]. 2024, 第 7 作者19(1): http://dx.doi.org/10.1186/s40793-024-00555-8.
[20] Chu, Mengting, Zhang, Haihan, Chen, Kaige, Li, Fengrui, Liu, Xiang, Kosolapov, Dmitry B, Zhi, Wei, Chen, Zhongbing, Yang, Jun, Deng, Ye, Sekar, Raju, Liu, Tao, Liu, Xiaoyan, Huang, Tinglin. Mixotrophic aerobic denitrification facilitated by denitrifying bacterial-fungal communities assisted with iron in micro-polluted water: Performance, metabolic activity, functional genes abundance, and community co-occurrence. JOURNAL OF HAZARDOUS MATERIALS[J]. 2024, 第 10 作者476: http://dx.doi.org/10.1016/j.jhazmat.2024.135057.
[21] Yunpeng Zhao, Chengzhu Liu, Enze Kang, Xingqi Li, Deng, Ye, Xiaojuan Feng. Plant–microbe interactions underpin contrasting enzymatic responses to wetland drainage. Nature Climate Change[J]. 2024, 第 5 作者null(null): 
[22] 易艳芸, 张一平, 沙丽清, 宋清海, 鲁志云, 温韩东, 邓晔, 梁乃申, MOHD, Zeeshan, 张仕东, 周文君. 哀牢山亚热带常绿阔叶林土壤微生物多样性对碳输入变化和增温的响应. 武夷科学. 2023, 第 7 作者39(1): 9-22, http://lib.cqvip.com/Qikan/Article/Detail?id=7110155623.
[23] Yan, Huilin, Zhou, Xueli, Zheng, Kaifu, Gu, Songsong, Yu, Hao, Ma, Kun, Zhao, Yangan, Wang, Yingcheng, Zheng, Hua, Liu, Hanjiang, Shi, Dejun, Lu, Guangxin, Deng, Ye. Response of Organic Fertilizer Application to Soil Microorganisms and Forage Biomass in Grass-Legume Mixtures. AGRONOMY-BASEL[J]. 2023, 第 13 作者  通讯作者  13(2): http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:000938598100001.
[24] Rueger, Lioba, Feng, Kai, Chen, Yan, Sun, Ruibo, Sun, Bo, Deng, Ye, Vetterlein, Doris, Bonkowski, Michael. Responses of root architecture and the rhizosphere microbiome assembly of maize (Zea mays L.) to a soil texture gradient. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2023, 第 6 作者181: http://dx.doi.org/10.1016/j.soilbio.2023.109026.
[25] Wang, Danrui, Li, Jiangtao, Su, Lei, Shen, Wenli, Feng, Kai, Peng, Xi, Wang, Zhujun, Zhao, Bo, Zhang, Zheng, Zhang, Zhaojing, Yergeau, Etienne, Deng, Ye. Phylogenetic diversity of functional genes in deep-sea cold seeps: a novel perspective on metagenomics. MICROBIOME[J]. 2023, 第 12 作者  通讯作者  11(1): 
[26] Zhang, Haijuan, Zheng, Kaifu, Gu, Songsong, Wang, Yingcheng, Zhou, Xueli, Yan, Huilin, Ma, Kun, Zhao, Yangan, Jin, Xin, Lu, Guangxin, Deng, Ye. Grass-Legume Mixture with Rhizobium Inoculation Enhanced the Restoration Effects of Organic Fertilizer. MICROORGANISMS[J]. 2023, 第 11 作者  通讯作者  11(5): http://dx.doi.org/10.3390/microorganisms11051114.
[27] Gu, Songsong, Deng, Ye, Wang, Pengyuan, Li, Chenhong, Shi, Dejun, Wang, Shuping. Assessing riverine fish community diversity and stability by eDNA metabarcoding. ECOLOGICAL INDICATORS[J]. 2023, 第 2 作者157(null): 
[28] Kang, Luyao, Chen, Leiyi, Li, Ziliang, Wang, Jianjun, Xue, Kai, Deng, Ye, DelgadoBaquerizo, Manuel, Song, Yutong, Zhang, Dianye, Yang, Guibiao, Zhou, Wei, Liu, Xuning, Liu, Futing, Yang, Yuanhe. Patterns and drivers of prokaryotic communities in thermokarst lake water across Northern Hemisphere. GLOBAL ECOLOGY AND BIOGEOGRAPHY[J]. 2023, 第 6 作者32(12): 2244-2256, https://www.webofscience.com/wos/woscc/full-record/WOS:001075315800001.
[29] Dai, Shiting, He, Qing, Han, Ziming, Shen, Wenli, Deng, Ye, Wang, Yang, Qiao, Wei, Yang, Min, Zhang, Yu. Uncovering the diverse hosts of tigecycline resistance gene tet(X4) in anaerobic digestion systems treating swine manure by epicPCR. WATER RESEARCH X[J]. 2023, 第 5 作者19(null): 
[30] Wang, Yingcheng, Dang, Ning, Feng, Kai, Wang, Junbang, Jin, Xin, Yao, Shiting, Wang, Linlin, Gu, Songsong, Zheng, Hua, Lu, Guangxin, Deng, Ye. Grass-microbial inter-domain ecological networks associated with alpine grassland productivity. FRONTIERS IN MICROBIOLOGY[J]. 2023, 第 11 作者  通讯作者  14(null): 1109128, 
[31] Sun, Mengyue, Li, Mingcong, Zhou, Yuqi, Liu, Jiai, Shi, Wenchong, Wu, Xiaoliang, Xie, Baohua, Deng, Ye, Gao, Zheng. Nitrogen deposition enhances the deterministic process of the prokaryotic community and increases the complexity of the microbial co-network in coastal wetlands. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2023, 第 8 作者  通讯作者  856: http://dx.doi.org/10.1016/j.scitotenv.2022.158939.
[32] Xiongfeng Du, Songsong Gu, Zheng Zhang, Shuzhen Li, Yuqi Zhou, Zhaojing Zhang, Qi Zhang, Linlin Wang, Zhicheng Ju, Chengliang Yan, Tong Li, Danrui Wang, Xingsheng Yang, Xi Peng, Ye Deng. Spatial distribution patterns across multiple microbial taxonomic groups. ENVIRONMENTAL RESEARCH[J]. 2023, 第 15 作者  通讯作者  223(null): http://dx.doi.org/10.1016/j.envres.2023.115470.
[33] Zhang, Haijuan, Zheng, Kaifu, Gu, Songsong, Wang, Yingcheng, Zhou, Xueli, Yan, Huilin, Ma, Kun, Zhao, Yangan, Jin, Xin, Lu, Guangxin, Deng, Ye. Grass-Legume Mixture with Rhizobium Inoculation Enhanced the Restoration Effects of Organic Fertilizer. MICROORGANISMS[J]. 2023, 第 11 作者  通讯作者  11(5): http://dx.doi.org/10.3390/microorganisms11051114.
[34] Gu, Songsong, Zhou, Xueli, Yu, Hao, Yan, Huilin, Wang, Yingcheng, Liu, Yue, Wang, Zhihui, Feng, Kai, Du, Xiongfeng, Lu, Guangxin, Deng, Ye. Microbial and chemical fertilizers for restoring degraded alpine grassland. BIOLOGY AND FERTILITY OF SOILS[J]. 2023, 第 11 作者  通讯作者  59(8): 911-926, 
[35] Wang, Linlin, Zhao, Mingliang, Du, Xiongfeng, Feng, Kai, Gu, Songsong, Zhou, Yuqi, Yang, Xingsheng, Zhang, Zhaojing, Wang, Yingcheng, Zhang, Zheng, Zhang, Qi, Xie, Baohua, Han, Guangxuan, Deng, Ye. Fungi and cercozoa regulate methane-associated prokaryotes in wetland methane emissions. FRONTIERS IN MICROBIOLOGY[J]. 2023, 第 14 作者  通讯作者  13: 15, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000913695300001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=3a85505900f77cc629623c3f2907beab.
[36] Miao, Lingzhan, Li, Wanyi, Adyel, Tanveer M, Yao, Yu, Deng, Ye, Wu, Jun, Zhou, Yongqiang, Yu, Yue, Hou, Jun. Spatio-temporal succession of microbial communities in plastisphere and their potentials for plastic degradation in freshwater ecosystems. WATER RESEARCH[J]. 2023, 第 5 作者  通讯作者  229: http://dx.doi.org/10.1016/j.watres.2022.119406.
[37] He, Qing, Wang, Shang, Feng, Kai, Michaletz, Sean T, Hou, Weiguo, Zhang, Wenhui, Li, Fangru, Zhang, Yidi, Wang, Danrui, Peng, Xi, Yang, Xingsheng, Deng, Ye. High speciation rate of niche specialists in hot springs. ISME JOURNAL[J]. 2023, 第 12 作者  通讯作者  17(8): 1303-1314, 
[38] Zhu, Lingyue, Chen, Yan, Sun, Ruibo, Zhang, Jiabao, Hale, Lauren, Dumack, Kenneth, Geisen, Stefan, Deng, Ye, Duan, Yinghua, Zhu, Bo, Li, Yan, Liu, Wenzhao, Wang, Xiaoyue, Griffiths, Bryan S, Bonkowski, Michael, Zhou, Jizhong, Sun, Bo. Resource-dependent biodiversity and potential multi-trophic interactions determine belowground functional trait stability. MICROBIOME[J]. 2023, 第 8 作者11(1): http://dx.doi.org/10.1186/s40168-023-01539-5.
[39] Zheng Zhang, Jiang Li, Hongjun Li, Linlin Wang, Yuqi Zhou, Shuzhen Li, Zhaojing Zhang, Kai Feng, Ye Deng. Environmental DNA metabarcoding reveals the influence of human activities on microeukaryotic plankton along the Chinese coastline. WATER RESEARCH[J]. 2023, 第 9 作者  通讯作者  233(null): http://dx.doi.org/10.1016/j.watres.2023.119730.
[40] 于皓, 刘悦, 邓晔, 芦光新, 颜珲璘, 王英成. 天然高寒草地转变为混播人工草地对土壤微生物群落特征的影响. 环境科学[J]. 2023, 第 3 作者44(5): 2928-2935, http://lib.cqvip.com/Qikan/Article/Detail?id=7109683443.
[41] Liu, Nana, Hu, Huifeng, Ma, Wenhong, Deng, Ye, Dimitrov, Dimitar, Wang, Qinggang, Shrestha, Nawal, Su, Xiangyan, Feng, Kai, Liu, Yuqing, Hao, Baihui, Zhang, Xinying, Feng, Xiaojuan, Wang, Zhiheng. Relationships Between Soil Microbial Diversities Across an Aridity Gradient in Temperate Grasslands Soil Microbial Diversity Relationships. MICROBIAL ECOLOGY[J]. 2023, 第 4 作者85(3): 1013-1027, http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:000777247000001.
[42] 颜珲璘, 王英成, 顾松松, 马坤, 赵阳安, 张海娟, 周学丽, 邓晔, 芦光新. 环青海湖地区两种禾本科牧草根际微生物差异分析. 中国草地学报[J]. 2023, 第 8 作者45(7): 91-99, http://lib.cqvip.com/Qikan/Article/Detail?id=7110203451.
[43] Nie, Shiqing, Wang, Jichen, Deng, Ye, Ye, Zheng, Ge, Yuan. Inflammatory microbes and genes as potential biomarkers of Parkinson's disease. npj Biofilms and Microbiomes[J]. 2022, 第 3 作者8: 101, http://dx.doi.org/10.1038/s41522-022-00367-z.
[44] Wang, Zhujun, Feng, Kai, Wei, Ziyan, Wu, Yueni, Isobe, Kazuo, Senoo, Keishi, Peng, Xi, Wang, Danrui, He, Qing, Du, Xiongfeng, Li, Shuzhen, Li, Yan, Deng, Ye. Evaluation and redesign of the primers for detecting nitrogen cycling genes in environments. METHODS IN ECOLOGY AND EVOLUTION[J]. 2022, 第 13 作者  通讯作者  13(9): 1976-1989, https://www.doi.org/10.1111/2041-210X.13946.
[45] 张琪, 邓晔, 邵宗泽, 王万鹏. 潮间带沉积物厌氧烃降解细菌的多样性及Desulfovi-brio subterraneus ND17的分离鉴定. 海洋学报[J]. 2022, 第 2 作者44(8): 78-86, http://lib.cqvip.com/Qikan/Article/Detail?id=7107777321.
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[267] He, Zhili, Xiong, Jinbo, Kent, Angela D, Deng, Ye, Xue, Kai, Wang, Gejiao, Wu, Liyou, Van Nostrand, Joy D, Zhou, Jizhong. Distinct responses of soil microbial communities to elevated CO2 and O-3 in a soybean agro-ecosystem. ISME JOURNAL[J]. 2014, 第 4 作者8(3): 714-726, https://www.webofscience.com/wos/woscc/full-record/WOS:000331879900019.
[268] Luo, Chengwei, RodriguezR, Luis M, Johnston, Eric R, Wu, Liyou, Cheng, Lei, Xue, Kai, Tu, Qichao, Deng, Ye, He, Zhili, Shi, Jason Zhou, Yuan, Mengting Maggie, Sherry, Rebecca A, Li, Dejun, Luo, Yiqi, Schuur, Edward A G, Chain, Patrick, Tiedje, James M, Zhou, Jizhong, Konstantinidis, Konstantinos T. Soil Microbial Community Responses to a Decade of Warming as Revealed by Comparative Metagenomics. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2014, 第 8 作者80(5): 1777-1786, http://dx.doi.org/10.1128/AEM.03712-13.
[269] Tu, Qichao, He, Zhili, Li, Yan, Chen, Yanfei, Deng, Ye, Lin, Lu, Hemme, Christopher L, Yuan, Tong, Van Nostrand, Joy D, Wu, Liyou, Zhou, Xuedong, Shi, Wenyuan, Li, Lanjuan, Xu, Jian, Zhou, Jizhong. Development of HuMiChip for Functional Profiling of Human Microbiomes. PLOS ONE[J]. 2014, 第 5 作者9(3): http://www.irgrid.ac.cn/handle/1471x/1000809.
[270] 邓晔. 中国东部农田氨氧化细菌和古菌的纬度分布特征. Applied and environmental microbiology. 2014, 第 1 作者
[271] Zhou, Jizhong, Deng, Ye, Zhang, Ping, Xue, Kai, Liang, Yuting, Van Nostrand, Joy D, Yang, Yunfeng, He, Zhili, Wu, Liyou, Stahl, David A, Hazen, Terry C, Tiedje, James M, Arkin, Adam P. Stochasticity, succession, and environmental perturbations in a fluidic ecosystem. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2014, 第 2 作者111(9): E836-E845, http://www.irgrid.ac.cn/handle/1471x/936359.
[272] Tu, Qichao, Yu, Hao, He, Zhili, Deng, Ye, Wu, Liyou, Van Nostrand, Joy D, Zhou, Aifen, Voordeckers, James, Lee, YongJin, Qin, Yujia, Hemme, Christopher L, Shi, Zhou, Xue, Kai, Yuan, Tong, Wang, Aijie, Zhou, Jizhong. GeoChip 4: a functional gene-array-based high-throughput environmental technology for microbial community analysis. MOLECULAR ECOLOGY RESOURCES[J]. 2014, 第 4 作者14(5): 914-928, http://dx.doi.org/10.1111/1755-0998.12239.
[273] 邓晔. 开发HuMiChip检测人体微生物群落的功能特征. PloS One. 2014, 第 1 作者  通讯作者  
[274] Paula, Fabiana S, Rodrigues, Jorge L M, Zhou, Jizhong, Wu, Liyou, Mueller, Rebecca C, Mirza, Babur S, Bohannan, Brendan J M, Nuesslein, Klaus, Deng, Ye, Tiedje, James M, Pellizari, Vivian H. Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities. MOLECULAR ECOLOGY[J]. 2014, 第 9 作者23(12): 2988-2999, http://dx.doi.org/10.1111/mec.12786.
[275] Tu, Qichao, He, Zhili, Deng, Ye, Zhou, Jizhong. Strain/Species-Specific Probe Design for Microbial Identification Microarrays. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2013, 第 3 作者79(16): 5085-5088, https://www.webofscience.com/wos/woscc/full-record/WOS:000322161700037.
[276] Zhou, Aifen, He, Zhili, Qin, Yujia, Lu, Zhenmei, Deng, Ye, Tu, Qichao, Hemme, Christopher L, Van Nostrand, Joy D, Wu, Liyou, Hazen, Terry C, Arkin, Adam P, Zhou, Jizhong. StressChip as a High-Throughput Tool for Assessing Microbial Community Responses to Environmental Stresses. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2013, 第 5 作者47(17): 9841-9849, https://www.webofscience.com/wos/woscc/full-record/WOS:000330094700036.
[277] Jizhong Zhou, Wenzong Liu, Ye Deng, YiHuei Jiang, Kai Xue, Zhili He, Joy D Van Nostrand, Liyou Wu, Yunfeng Yang, Aijie Wang. Stochastic Assembly Leads to Alternative Communities with Distinct Functions in a Bioreactor Microbial Community. MBIO[J]. 2013, 第 3 作者4(2): https://www.webofscience.com/wos/woscc/full-record/WOS:000318431500040.
[278] Lee, YongJin, van Nostrand, Joy D, Tu, Qichao, Lu, Zhenmei, Cheng, Lei, Yuan, Tong, Deng, Ye, Carter, Michelle Q, He, Zhili, Wu, Liyou, Yang, Fang, Xu, Jian, Zhou, Jizhong. The PathoChip, a functional gene array for assessing pathogenic properties of diverse microbial communities. ISME JOURNAL[J]. 2013, 第 7 作者7(10): 1974-1984, http://dx.doi.org/10.1038/ismej.2013.88.
[279] Li, Xinyu, Deng, Ye, Li, Qi, Lu, Caiyan, Wang, Jingjing, Zhang, Huiwen, Zhu, Jianguo, Zhou, Jizhong, He, Zhili. Shifts of functional gene representation in wheat rhizosphere microbial communities under elevated ozone. ISME JOURNAL[J]. 2013, 第 2 作者7(3): 660-671, http://dx.doi.org/10.1038/ismej.2012.120.
[280] Xu, Meiying, He, Zhili, Deng, Ye, Wu, Liyou, van Nostrand, Joy D, Hobbie, Sarah E, Reich, Peter B, Zhou, Jizhong. Elevated CO2 influences microbial carbon and nitrogen cycling. BMC MICROBIOLOGY[J]. 2013, 第 3 作者13(1): 124-124, http://dx.doi.org/10.1186/1471-2180-13-124.
[281] 邓晔. StressChip作为检测环境逆境中微生物群落反应的工具. Environmental Science and Technology. 2013, 第 1 作者  通讯作者  
[282] Zhou, Jizhong, Jiang, YiHuei, Deng, Ye, Shi, Zhou, Zhou, Benjamin Yamin, Xue, Kai, Wu, Liyou, He, Zhili, Yang, Yunfeng. Random Sampling Process Leads to Overestimation of beta-Diversity of Microbial Communities. MBIO[J]. 2013, 第 3 作者4(3): http://dx.doi.org/10.1128/mBio.00324-13.
[283] Sul, Woo Jun, AsumingBrempong, Stella, Wang, Qiong, Tourlousse, Dieter M, Penton, C Ryan, Deng, Ye, Rodrigues, Jorge L M, Adiku, Samuel G K, Jones, James W, Zhou, Jizhong, Cole, James R, Tiedje, James M. Tropical agricultural land management influences on soil microbial communities through its effect on soil organic carbon. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2013, 第 6 作者65: 33-38, http://dx.doi.org/10.1016/j.soilbio.2013.05.007.
[284] Lu, Zhenmei, He, Zhili, Parisi, Victoria A, Kang, Sanghoon, Deng, Ye, Van Nostrand, Joy D, Masoner, Jason R, Cozzarelli, Isabelle M, Suflita, Joseph M, Zhou, Jizhong. GeoChip-Based Analysis of Microbial Functional Gene Diversity in a Landfill Leachate-Contaminated Aquifer (vol 46, pg 5824, 2012). ENVIRONMENTAL SCIENCE & TECHNOLOGY. 2013, 第 5 作者47(4): 2142-2142, https://www.webofscience.com/wos/woscc/full-record/WOS:000315326700047.
[285] Xue, Kai, Wu, Liyou, Deng, Ye, He, Zhili, Van Nostrand, Joy, Robertson, Philip G, Schmidt, Thomas M, Zhou, Jizhong. Functional Gene Differences in Soil Microbial Communities from Conventional, Low-Input, and Organic Farmlands. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2013, 第 3 作者79(4): 1284-1292, https://www.webofscience.com/wos/woscc/full-record/WOS:000314891500025.
[286] Li, Mengyan, Mathieu, Jacques, Yang, Yu, Fiorenza, Stephanie, Deng, Ye, He, Zhili, Zhou, Jizhong, Alvarez, Pedro J J. Widespread Distribution of Soluble Di-Iron Monooxygenase (SDIMO) Genes in Arctic Groundwater Impacted by 1,4-Dioxane. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2013, 第 5 作者47(17): 9950-9958, http://dx.doi.org/10.1021/es402228x.
[287] 邓晔. 菌株或者菌种特异探针设计. Appl. Environ. Microbiol. 2013, 第 1 作者
[288] He, Zhili, Piceno, Yvette, Deng, Ye, Xu, Meiying, Lu, Zhenmei, DeSantis, Todd, Andersen, Gary, Hobbie, Sarah E, Reich, Peter B, Zhou, Jizhong. The phylogenetic composition and structure of soil microbial communities shifts in response to elevated carbon dioxide. ISME JOURNAL[J]. 2012, 第 3 作者6(2): 259-272, https://www.webofscience.com/wos/woscc/full-record/WOS:000300984200005.
[289] 邓晔. 深海原油泄漏引起微生物功能基因富集. The ISME Journal. 2012, 第 1 作者
[290] Deng, Ye, Jiang, YiHuei, Yang, Yunfeng, He, Zhili, Luo, Feng, Zhou, Jizhong. Molecular ecological network analyses. BMC BIOINFORMATICS[J]. 2012, 第 1 作者13(1): 113-113, http://oa.las.ac.cn/oainone/service/browseall/read1?ptype=JA&workid=JA201706282679299ZK.
[291] 邓晔. 二氧化碳升高引起土壤微生物群落结构变化. APPLENVIRONMICROBIOL. 2012, 第 1 作者
[292] 邓晔. 臭氧升高改变了小麦根际周边微生物群落的功能基因表型. The ISME Journal. 2012, 第 1 作者
[293] Zhou, Jizhong, Xue, Kai, Xie, Jianping, Deng, Ye, Wu, Liyou, Cheng, Xiaoli, Fei, Shenfeng, Deng, Shiping, He, Zhili, Van Nostrand, Joy D, Luo, Yiqi. Microbial mediation of carbon-cycle feedbacks to climate warming. NATURE CLIMATE CHANGE[J]. 2012, 第 4 作者2(2): 106-110, http://202.127.146.157/handle/2RYDP1HH/802.
[294] Liang, Yuting, Van Nostrand, Joy D, NGuessan, Lucie A, Peacock, Aaron D, Deng, Ye, Long, Philip E, Resch, C Tom, Wu, Liyou, He, Zhili, Li, Guanghe, Hazen, Terry C, Lovley, Derek R, Zhou, Jizhong. Microbial Functional Gene Diversity with a Shift of Subsurface Redox Conditions during In Situ Uranium Reduction. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2012, 第 5 作者78(8): 2966-2972, https://www.webofscience.com/wos/woscc/full-record/WOS:000302147300054.
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[296] 邓晔. 微生物介导的全球升温中碳循环的反馈效应. Nature Climate Change. 2012, 第 1 作者
[297] Lu, Zhenmei, Deng, Ye, Van Nostrand, Joy D, He, Zhili, Voordeckers, James, Zhou, Aifen, Lee, YongJin, Mason, Olivia U, Dubinsky, Eric A, Chavarria, Krystle L, Tom, Lauren M, Fortney, Julian L, Lamendella, Regina, Jansson, Janet K, Dhaeseleer, Patrik, Hazen, Terry C, Zhou, Jizhong. Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume. ISME JOURNAL[J]. 2012, 第 2 作者6(2): 451-460, https://www.webofscience.com/wos/woscc/full-record/WOS:000300984200021.
[298] Deng, Ye, He, Zhili, Xu, Meiying, Qin, Yujia, Van Nostrand, Joy D, Wu, Liyou, Roe, Bruce A, Wiley, Graham, Hobbie, Sarah E, Reich, Peter B, Zhou, Jizhong. Elevated Carbon Dioxide Alters the Structure of Soil Microbial Communities. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2012, 第 1 作者78(8): 2991-2995, https://www.webofscience.com/wos/woscc/full-record/WOS:000302147300058.
[299] Lu, Zhenmei, He, Zhili, Parisi, Victoria A, Kang, Sanghoon, Deng, Ye, Van Nostrand, Joy D, Masoner, Jason R, Cozzarelli, Isabelle M, Suflita, Joseph M, Zhou, Jizhong. GeoChip-Based Analysis of Microbial Functional Gene Diversity in a Landfill Leachate-Contaminated Aquifer. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2012, 第 5 作者46(11): 5824-5833, http://dx.doi.org/10.1021/es300478j.
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[306] Xie, Jianping, He, Zhili, Liu, Xinxing, Liu, Xueduan, Van Nostrand, Joy D, Deng, Ye, Wu, Liyou, Zhou, Jizhong, Qiu, Guanzhou. GeoChip-Based Analysis of the Functional Gene Diversity and Metabolic Potential of Microbial Communities in Acid Mine Drainage. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2011, 第 6 作者77(3): 991-999, http://dx.doi.org/10.1128/AEM.01798-10.
[307] Liang, Yuting, Van Nostrand, Joy D, Deng, Ye, He, Zhili, Wu, Liyou, Zhang, Xu, Li, Guanghe, Zhou, Jizhong. Functional gene diversity of soil microbial communities from five oil-contaminated fields in China. ISME JOURNAL[J]. 2011, 第 3 作者5(3): 403-413, https://www.webofscience.com/wos/woscc/full-record/WOS:000290021000004.
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[312] Epelde, Lur, Becerril, Jose M, Kowalchuk, George A, Deng, Ye, Zhou, Jizhong, Garbisu, Carlos. Impact of Metal Pollution and Thlaspi caerulescens Growth on Soil Microbial Communities. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2010, 第 4 作者76(23): 7843-7853, https://www.webofscience.com/wos/woscc/full-record/WOS:000284310500020.
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（ 1 ） 分子生态网络分析, Molecular ecological network analysis, Springer, 2014-06, 第 1 作者
（ 2 ） 生物芯片数据分析, Microarray data analysis, Horizon Scientific Press, 2014-06, 第 1 作者

   

（ 1 ） 生产过程中抗生素与抗药基因的排放特征、环境行为及控制技术, 参与, 国家级, 2015-01--2019-12
（ 2 ） 典型森林土壤微生物空间格局及驱动机制, 参与, 部委级, 2014-01--2018-12
（ 3 ） 东江高度集约开发区域水质风险控制与水生态功能恢复技术集成及综合示范, 参与, 国家级, 2015-01--2017-12
（ 4 ） 长江流域自然保护区内土壤微生物群落的种-面积关系变化与驱动机制, 主持, 国家级, 2016-01--2016-12
（ 5 ） 污染环境中功能微生物类群的快速识别和原位调控, 主持, 部委级, 2016-09--2020-12
（ 6 ） 北方农牧交错带草地退化形成机理与驱动机制, 参与, 国家级, 2016-07--2020-12

（1）微生物群落网络分析在重金属铀污染环境中研究   美国微生物学会2013年度大会   Ye Deng   2013-06-22
（2）微生物群落网络分析   美国微生物学会2011年度大会   Ye Deng   2011-06-22

Dr. Jizhong Zhou (University of Oklahoma)
Dr. James M. Tiedje (Michigan State University)
Dr. James Hemphill Brown (Univ of New Mexico)
Dr. Joan B. Rose (Michigan State University)
Dr. Terry C. Hazen (LBL, University of Tennessee)
Dr. Rob Knight (University of Colorado)
Dr. Nianzhi Jiao (Xiamen Univ)

现指导学生

魏子艳  01  19368  

刘洋荧  02  67011  

孔晓  01  19367  

王朱珺  01  19367  

吴悦妮  01  19367  

杜雄峰  02  67011  

秦化宇  01  67674  

冯凯  01  67674