基本信息
邓晔  男  博导  中国科学院生态环境研究中心
电子邮件: yedeng@rcees.ac.cn
通信地址: 北京市海淀区双清路18号
邮政编码: 100085

招生信息

   
招生专业
071300-生态学
071005-微生物学
071021-生物信息学
招生方向
微生物生态学
环境微生物技术
生物统计学

教育背景

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

工作经历

   
工作简历
2009-09~2014-01,美国俄克拉荷马大学, 研究科学家
社会兼职
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

教授课程

现代环境生物技术
分子生物学在环境生物技术中的应用

专利与奖励

   
专利成果
[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.

出版信息

   
发表论文
[1] 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, 14: http://dx.doi.org/10.3389/fmicb.2023.1109128.
[2] 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, 856: http://dx.doi.org/10.1016/j.scitotenv.2022.158939.
[3] 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, 223: http://dx.doi.org/10.1016/j.envres.2023.115470.
[4] 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, 11(5): http://dx.doi.org/10.3390/microorganisms11051114.
[5] 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, 59(8): 911-926, http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:001046257400001.
[6] 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, 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.
[7] 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, 229: http://dx.doi.org/10.1016/j.watres.2022.119406.
[8] 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, 17(8): 1303-1314, http://dx.doi.org/10.1038/s41396-023-01447-4.
[9] 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, 11(1): http://dx.doi.org/10.1186/s40168-023-01539-5.
[10] 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, 233: http://dx.doi.org/10.1016/j.watres.2023.119730.
[11] 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, 44(5): 2928-2935, http://lib.cqvip.com/Qikan/Article/Detail?id=7109683443.
[12] 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, 85(3): 1013-1027, http://dx.doi.org/10.1007/s00248-022-01997-8.
[13] 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, 45(7): 91-99, http://lib.cqvip.com/Qikan/Article/Detail?id=7110203451.
[14] 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, 8: 101-, http://dx.doi.org/10.1038/s41522-022-00367-z.
[15] 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, 13(9): 1976-1989, http://dx.doi.org/10.1111/2041-210X.13946.
[16] 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, 44(8): 78-86, http://lib.cqvip.com/Qikan/Article/Detail?id=7107777321.
[17] Wei, Wei, Li, Jia, Liu, Fan, Wu, Miaomiao, Xiong, Kaixin, He, Qing, Zhang, Bo, Deng, Ye, Li, Yan. Alteration of intestinal microecology by oral antibiotics promotes oral squamous cell carcinoma development. MOLECULAR IMMUNOLOGY[J]. 2022, 149: 94-106, http://dx.doi.org/10.1016/j.molimm.2022.06.013.
[18] 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. 2022, http://dx.doi.org/10.1007/s00248-022-01997-8.
[19] 彭玺, 冯凯, 厉舒祯, 邓晔. 宏基因组学技术与微生物群落多样性分析方法. 科技导报[J]. 2022, 40(3): 99-111, http://lib.cqvip.com/Qikan/Article/Detail?id=7106895727.
[20] Yang, Xingsheng, Zhang, Zhaojing, Li, Shuzhen, He, Qing, Peng, Xi, Du, Xiongfeng, Feng, Kai, Wang, Shang, Deng, Ye. Fungal dynamics and potential functions during anaerobic digestion of food waste. ENVIRONMENTAL RESEARCH[J]. 2022, 212: http://dx.doi.org/10.1016/j.envres.2022.113298.
[21] Wei, Wei, Li, Jia, Shen, Xin, Lyu, Jinglu, Yan, Caixia, Tang, Boyu, Ma, Wenjuan, Xie, Huixu, Zhao, Lei, Cheng, Lei, Deng, Ye, Li, Yan. Oral Microbiota from Periodontitis Promote Oral Squamous Cell Carcinoma Development via gamma delta T Cell Activation. MSYSTEMS[J]. 2022, 7(5): http://dx.doi.org/10.1128/msystems.00469-22.
[22] Li, Shuzhen, Deng, Ye, Lian, Shengyang, Dai, Chunxiao, Ma, Qiao, Qu, Yuanyuan. Succession of diversity, functions, and interactions of the fungal community in activated sludge under aromatic hydrocarbon stress. ENVIRONMENTAL RESEARCH[J]. 2022, 204: http://dx.doi.org/10.1016/j.envres.2021.112143.
[23] Ma, Kun, Wang, Yingcheng, Jin, Xin, Zhao, Yangan, Yan, Huilin, Zhang, Haijuan, Zhou, Xueli, Lu, Guangxin, Deng, Ye. Application of Organic Fertilizer Changes the Rhizosphere Microbial Communities of a Gramineous Grass on Qinghai-Tibet Plateau. MICROORGANISMS[J]. 2022, 10(6): http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:000818137300001.
[24] Wang, Danrui, Wang, Shang, Du, Xiongfeng, He, Qing, Liu, Yue, Wang, Zhujun, Feng, Kai, Li, Yan, Deng, Ye. ddPCR surpasses classical qPCR technology in quantitating bacteria and fungi in the environment. MOLECULAR ECOLOGY RESOURCES[J]. 2022, 22(7): 2587-2598, https://www.doi.org/10.1111/1755-0998.13644.
[25] 颜珲璘, 芦光新, 邓晔, 顾松松, 颜程良, 马坤, 赵阳安, 张海娟, 王英成, 周学丽, 窦声云. 高寒地区根瘤菌拌种对禾/豆混播土壤微生物群落的影响. 生物技术通报. 2022, 38(10): 204-215, http://lib.cqvip.com/Qikan/Article/Detail?id=7108600679.
[26] Li, Shuzhen, Shen, Wenli, Lian, Shengyang, Wu, Yueni, Qu, Yuanyuan, Deng, Ye. DARHD: A sequence database for aromatic ring-hydroxylating dioxygenase analysis and primer evaluation. JOURNAL OF HAZARDOUS MATERIALS[J]. 2022, 436: http://dx.doi.org/10.1016/j.jhazmat.2022.129230.
[27] Tian, Dashuan, Xiang, Yangzhou, Seabloom, Eric, Chen, Han Y H, Wang, Jinsong, Yu, Guirui, Deng, Ye, Li, Zhaolei, Niu, Shuli. Ecosystem restoration and belowground multifunctionality: A network view. ECOLOGICAL APPLICATIONS[J]. 2022, 32(5): https://www.doi.org/10.1002/eap.2575.
[28] Wu, Shanghua, Dong, Yuzhu, Deng, Ye, Cui, Lijuan, Zhuang, Xuliang. Protistan consumers and phototrophs are more sensitive than bacteria and fungi to pyrene exposure in soil. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2022, 822: http://dx.doi.org/10.1016/j.scitotenv.2022.153539.
[29] Yan, Huilin, Gu, Songsong, Li, Shuzhen, Shen, Wenli, Zhou, Xueli, Yu, Hao, Ma, Kun, Zhao, Yangan, Wang, Yingcheng, Zheng, Hua, Deng, Ye, Lu, Guangxin. Grass-legume mixtures enhance forage production via the bacterial community. AGRICULTURE ECOSYSTEMS & ENVIRONMENT[J]. 2022, 338: http://dx.doi.org/10.1016/j.agee.2022.108087.
[30] 马坤, 芦光新, 邓晔, 颜珲璘, 王英成, 赵阳安, 张海娟, 周学丽, 窦声云. 有机肥对垂穗披碱草根际微生物及土壤理化性质的影响. 草地学报[J]. 2022, 30(3): 594-602, http://lib.cqvip.com/Qikan/Article/Detail?id=7106816476.
[31] Wei, Ziyan, Shen, Wenli, Feng, Kai, Feng, Youzhi, He, Zhili, Li, Yan, Jiang, Chengying, Liu, Shuangjiang, Zhu, YongGuan, Deng, Ye. Organic fertilizer potentiates the transfer of typical antibiotic resistance gene among special bacterial species. JOURNAL OF HAZARDOUS MATERIALS[J]. 2022, 435: http://dx.doi.org/10.1016/j.jhazmat.2022.128985.
[32] Wu, Shanghua, Dong, Yuzhu, Deng, Ye, Cui, Lijuan, Zhuang, Xuliang. Protistan consumers and phototrophs are more sensitive than bacteria and fungi to pyrene exposure in soil. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2022, 822: http://dx.doi.org/10.1016/j.scitotenv.2022.153539.
[33] Wang, Chao, Li, Xinan, Jin, Decai, Gong, Peipan, Li, Qiuchi, Zhang, Yunhui, Li, Xiangrui, Deng, Ye, Cernava, Tomislav, Zhu, Xun. Implications of environmentally shaped microbial communities for insecticide resistance in Sitobion miscanthi. ENVIRONMENTAL RESEARCH[J]. 2022, 215: 114409-1, http://dx.doi.org/10.1016/j.envres.2022.114409.
[34] Zhang, Zheng, Li, Hongjun, Shen, Wenli, Du, Xiongfeng, Li, Shuzhen, Wei, Ziyan, Zhang, Zhaojing, Feng, Kai, Deng, Ye. The large-scale spatial patterns of ecological networks between phytoplankton and zooplankton in coastal marine ecosystems. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2022, 827: http://dx.doi.org/10.1016/j.scitotenv.2022.154285.
[35] Wei, Ziyan, Shen, Wenli, Feng, Kai, Feng, Youzhi, He, Zhili, Li, Yan, Jiang, Chengying, Liu, Shuangjiang, Zhu, YongGuan, Deng, Ye. Organic fertilizer potentiates the transfer of typical antibiotic resistance gene among special bacterial species. JOURNAL OF HAZARDOUS MATERIALS[J]. 2022, 435: http://dx.doi.org/10.1016/j.jhazmat.2022.128985.
[36] Kang, Luyao, Chen, Leiyi, Zhang, Dianye, Peng, Yunfeng, Song, Yutong, Kou, Dan, Deng, Ye, Yang, Yuanhe. Stochastic processes regulate belowground community assembly in alpine grasslands on the Tibetan Plateau. ENVIRONMENTAL MICROBIOLOGY[J]. 2022, 24(1): 179-194, http://dx.doi.org/10.1111/1462-2920.15827.
[37] 赵阳安, 芦光新, 邓晔, 王英成, 马坤, 颜珲璘, 张海娟, 周学丽, 窦声云. 根瘤菌拌种对两种苜蓿生长及根际微生物多样性的影响. 草地学报[J]. 2022, 30(2): 370-378, http://lib.cqvip.com/Qikan/Article/Detail?id=7106678937.
[38] 晏彩霞, 王琨, 张波, 肖丽英, 厉舒桢, 邓晔, 李燕. 口腔扁平苔藓患者唾液细菌组和真菌组结构解析. 四川大学学报:医学版[J]. 2022, 53(2): 274-280, http://lib.cqvip.com/Qikan/Article/Detail?id=7106908177.
[39] Tan, Lin, Xiao, Yansong, Zeng, Weiai, Gu, Songsong, Zhai, Zhengguang, Wu, Shaolong, Li, Pengfei, Feng, Kai, Deng, Ye, Hu, Qiulong. Network analysis reveals the root endophytic fungi associated with Fusarium root rot invasion. APPLIED SOIL ECOLOGY[J]. 2022, 178: [40] Wang, Shang, Hou, Weiguo, Jiang, Hongchen, Huang, Liuqin, Dong, Hailiang, Chen, Shu, Wang, Bin, Chen, Yongcan, Lin, Binliang, Deng, Ye. Microbial diversity accumulates in a downstream direction in the Three Gorges Reservoir. JOURNAL OF ENVIRONMENTAL SCIENCES[J]. 2021, 101(3): 156-167, http://sciencechina.cn/gw.jsp?action=detail.jsp&internal_id=6887700&detailType=1.
[41] Wang, Yingcheng, Lu, Guangxin, Yu, Hao, Du, Xiongfeng, He, Qing, Yao, Shiting, Zhao, Lirong, Huang, Caixia, Wen, Xiaocheng, Deng, Ye. Meadow degradation increases spatial turnover rates of the fungal community through both niche selection and dispersal limitation. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2021, 798: http://dx.doi.org/10.1016/j.scitotenv.2021.149362.
[42] Du, Xiongfeng, Deng, Ye, Li, Shuzhen, Escalas, Arthur, Feng, Kai, He, Qing, Wang, Zhujun, Wu, Yueni, Wang, Danrui, Peng, Xi, Wang, Shang. Steeper spatial scaling patterns of subsoil microbiota are shaped by deterministic assembly process. MOLECULAR ECOLOGY[J]. 2021, 30(4): 1072-1085, http://dx.doi.org/10.1111/mec.15777.
[43] Rueger, Lioba, Feng, Kai, Dumack, Kenneth, Freudenthal, Jule, Chen, Yan, Sun, Ruibo, Wilson, Monica, Yu, Peng, Sun, Bo, Deng, Ye, Hochholdinger, Frank, Vetterlein, Doris, Bonkowski, Michael. Assembly Patterns of the Rhizosphere Microbiome Along the Longitudinal Root Axis of Maize (Zea mays L.). FRONTIERS IN MICROBIOLOGY[J]. 2021, 12: [44] Wang, Pei, Kong, Xiao, Chen, Hongsong, Xiao, Youlun, Liu, Huijun, Li, Xiaojuan, Zhang, Zhuo, Tan, Xinqiu, Wang, Diandong, Jin, Decai, Deng, Ye, Cernava, Tomislav. Exploration of Intrinsic Microbial Community Modulators in the Rice Endosphere Indicates a Key Role of Distinct Bacterial Taxa Across Different Cultivars. FRONTIERS IN MICROBIOLOGY[J]. 2021, 12: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7920960/.
[45] 姚世庭, 芦光新, 邓晔, 范月君, 周华坤, 党宁, 王英成, 张海娟, 颜珲璘. 模拟增温对高寒草地土壤原核生物群落组成及多样性影响. 草地学报[J]. 2021, 29(S01): 27-34, http://lib.cqvip.com/Qikan/Article/Detail?id=7105981621.
[46] Ye Deng. Warming-driven migration of core microbiota projects soil property changes at continental scale. Science Bulletin. 2021, [47] Zhou, Yuqi, Sun, Baoyu, Xie, Baohua, Feng, Kai, Zhang, Zhaojing, Zhang, Zheng, Li, Shuzhen, Du, Xiongfeng, Zhang, Qi, Gu, Songsong, Song, Wen, Wang, Linlin, Xia, Jianyang, Han, Guangxuan, Deng, Ye. Warming reshaped the microbial hierarchical interactions. GLOBAL CHANGE BIOLOGY[J]. 2021, 27(24): 6331-6347, http://apps.webofknowledge.com/CitedFullRecord.do?product=UA&colName=WOS&SID=5CCFccWmJJRAuMzNPjj&search_mode=CitedFullRecord&isickref=WOS:000700272200001.
[48] Wei, Ziyan, Feng, Kai, Wang, Zhujun, Zhang, Yu, Yang, Min, Zhu, YongGuan, Virta, Marko P J, Deng, Ye. 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[J]. 2021, 55(17): 11824-11834, http://dx.doi.org/10.1021/acs.est.1c01250.
[49] Wang, Shang, Bao, Xuelian, Feng, Kai, Deng, Ye, Zhou, Wenjun, Shao, Pengshuai, Zheng, Tiantian, Yao, Fei, Yang, Shan, Liu, Shengen, Shi, Rongjiu, Bai, Zhen, Xie, Hongtu, Yu, Jinghua, Zhang, Ying, Zhang, Yiping, Sha, Liqing, Song, Qinghai, Liu, Yuntong, Zhou, Jizhong, Zhang, Yuguang, Li, Hui, Wang, Qingkui, Han, Xingguo, Zhu, Yongguan, Liang, Chao. Warming-driven migration of core microbiota indicates soil property changes at continental scale. SCIENCE BULLETIN[J]. 2021, 66(19): 2025-2035, http://sciencechina.cn/gw.jsp?action=detail.jsp&internal_id=7108179&detailType=1.
[50] 杨兴盛, 王尚, 何晴, 王朱珺, 张照婧, 姜成英, 马黎萍, 刘贤伟, 胡宝兰, 李咏梅, 邓晔. 典型有机固废厌氧消化微生物研究现状与发展方向. 生物工程学报[J]. 2021, 37(10): 3425-3438, http://lib.cqvip.com/Qikan/Article/Detail?id=7105822245.
[51] Li, Enze, Deng, Tongchu, Yan, Lei, Zhou, Jizhong, He, Zhili, Deng, Ye, Xu, Meiying. Elevated nitrate simplifies microbial community compositions and interactions in sulfide-rich river sediments. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2021, 750: http://dx.doi.org/10.1016/j.scitotenv.2020.141513.
[52] 姚世庭, 芦光新, 邓晔, 党宁, 王英成, 张海娟, 颜珲璘. 模拟增温对土壤真菌群落组成及多样性的影响. 生态环境学报[J]. 2021, 30(7): 1404-1411, http://lib.cqvip.com/Qikan/Article/Detail?id=7105682923.
[53] 周煜琦, 张照婧, 位光山, 张政, 邓晔. 全球变化下海岸带微生物生态研究进展. 微生物学报[J]. 2021, 61(6): 1743-1760, http://lib.cqvip.com/Qikan/Article/Detail?id=7105041738.
[54] Cai, Weiwei, Wang, Bo, Liu, Wenzong, Yao, Hong, Deng, Ye, Wang, Aijie. Sessile methanogens dominated cathodic biofilm: Distribution and network in physiological transitions. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2021, 795: http://dx.doi.org/10.1016/j.scitotenv.2021.148724.
[55] 王英成, 芦光新, 赵丽蓉, 邓晔, 王军邦. 高寒草甸退化对土壤电导率变化影响的研究. 干旱区研究[J]. 2021, 38(1): 104-113, https://d.wanfangdata.com.cn/periodical/ghqyj202101012.
[56] 邓晔. 土壤中塑料与微生物的相互作用及其生态效应. 中国环境科学. 2021, [57] Yu, Hao, Deng, Ye, He, Zhili, Pendall, Elise, Carrillo, Yolima, Wang, Shang, Jin, Decai, Wu, Liyou, Wang, Aijie, Xu, Ying, Liu, Baoyong, Tai, Xin, Zhou, Jizhong. Stimulation of soil microbial functioning by elevated CO2 may surpass effects mediated by irrigation in a semiarid grassland. GEODERMA[J]. 2021, 401: http://dx.doi.org/10.1016/j.geoderma.2021.115162.
[58] Li, Hui, Yang, Shan, Semenov, Mikhail V, Yao, Fei, Ye, Ji, Bu, Rencang, Ma, Ruiao, Lin, Junjie, Kurganova, Irina, Wang, Xugao, Deng, Ye, Kravchenko, Irina, Jiang, Yong, Kuzyakov, Yakov. Temperature sensitivity of SOM decomposition is linked with a K-selected microbial community. GLOBAL CHANGE BIOLOGY[J]. 2021, 27(12): 2763-2779, http://dx.doi.org/10.1111/gcb.15593.
[59] Ju, Zhicheng, Du, Xiongfeng, Feng, Kai, Li, Shuzhen, Gu, Songsong, Jin, Decai, Deng, Ye. The Succession of Bacterial Community Attached on Biodegradable Plastic Mulches During the Degradation in Soil. FRONTIERS IN MICROBIOLOGY[J]. 2021, 12: [60] Li, Shuzhen, Deng, Ye, Du, Xiongfeng, Feng, Kai, Wu, Yueni, He, Qing, Wang, Zhujun, Liu, Yangying, Wang, Danrui, Peng, Xi, Zhang, Zhaojing, Escalas, Arthur, Qu, Yuanyuan. Sampling cores and sequencing depths affected the measurement of microbial diversity in soil quadrats. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2021, 767: http://dx.doi.org/10.1016/j.scitotenv.2021.144966.
[61] Dong, Yuzhu, Wu, Shanghua, Deng, Ye, Wang, Shijie, Fan, Haonan, Li, Xianglong, Bai, Zhihui, Zhuang, Xuliang. Distinct Functions and Assembly Mechanisms of Soil Abundant and Rare Bacterial Taxa Under Increasing Pyrene Stresses. FRONTIERS IN MICROBIOLOGY[J]. 2021, 12: http://dx.doi.org/10.3389/fmicb.2021.689762.
[62] Liu, Nana, Hu, Huifeng, Ma, Wenhong, Deng, Ye, Wang, Qinggang, Luo, Ao, Meng, Jiahui, Feng, Xiaojuan, Wang, Zhiheng. Relative Importance of Deterministic and Stochastic Processes on Soil Microbial Community Assembly in Temperate Grasslands. MICROORGANISMS[J]. 2021, 9(9): https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000701148700001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=3a85505900f77cc629623c3f2907beab.
[63] Wang, Shang, Hou, Weiguo, Jiang, Hongchen, Dong, Hailiang, Huang, Liuqin, Chen, Shu, Wang, Bin, Chen, Yongcan, Lin, Binliang, Deng, Ye. The Lifestyle-Dependent Microbial Interactions Vary Between Upstream and Downstream of the Three Gorges Dam. FRONTIERS IN ECOLOGY AND EVOLUTION[J]. 2021, 9: https://doaj.org/article/4d26c9fc849446c4833aad73e1aaf1f3.
[64] Tan, Lin, Zeng, WeiAi, Xiao, Yansong, Li, Pengfei, Gu, Songsong, Wu, Shaolong, Zhai, Zhengguang, Feng, Kai, Deng, Ye, Hu, Qiulong. Fungi-Bacteria Associations in Wilt Diseased Rhizosphere and Endosphere by Interdomain Ecological Network Analysis. FRONTIERS IN MICROBIOLOGY[J]. 2021, 12: https://doaj.org/article/13b35434e6b64ebc8ef92af194091bdd.
[65] He, Qing, Wang, Shang, Hou, Weiguo, Feng, Kai, Li, Fangru, Hai, Wanming, Zhang, Yidi, Sun, Yuxuan, Deng, Ye. Temperature and microbial interactions drive the deterministic assembly processes in sediments of hot springs. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2021, 772: http://dx.doi.org/10.1016/j.scitotenv.2021.145465.
[66] 王丹蕊, 沈文丽, 魏子艳, 王尚, 邓晔. 单细胞测序技术在微生物生态领域中的应用. 生物技术通报[J]. 2020, 36(10): 237-246, https://kns.cnki.net/KCMS/detail/detail.aspx?dbcode=CJFQ&dbname=CJFDLAST2020&filename=SWJT202010029&v=MDAwNDFyQ1VSN3VmWnVackZ5M2xWTDNJTmpyQmVyRzRITkhOcjQ5SGJZUjhlWDFMdXhZUzdEaDFUM3FUcldNMUY=.
[67] 周文君. Exploring the accuracy of amplicon-based internal transcribed spacer (ITS) markers for fungal community. Molecular Ecology Resources. 2020, [68] 段云峰, 王升跃, 陈禹保, 杨瑞馥, 李后开, 朱怀球, 童贻刚, 杜文斌, 付钰, 胡松年, 王军, 辛玉华, 赵方庆, 鲍一明, 张雯, 李娟, 曾明, 牛海涛, 周欣, 李岩, 崔生辉, 袁静, 李俊桦, 王加义, 刘东来, 倪铭, 孙青, 邓晔, 朱宝利. 微生物组测序与分析专家共识. 生物工程学报[J]. 2020, 36(12): 2516-2524, http://lib.cqvip.com/Qikan/Article/Detail?id=7103610501.
[69] Hu, Qiulong, Tan, Lin, Gu, Songsong, Xiao, Yansong, Xiong, Xingyao, Zeng, Weiai, Feng, Kai, Wei, Zhong, Deng, Ye. Network analysis infers the wilt pathogen invasion associated with non-detrimental bacteria. NPJ BIOFILMS AND MICROBIOMES[J]. 2020, 6(1): https://doaj.org/article/ff3f926f23a944a6af50859e8b2773c4.
[70] 杜雄峰, 厉舒祯, 冯凯, 何晴, 王朱珺, 吴悦妮, 王丹蕊, 彭玺, 王尚, 邓晔. 农牧交错带草地土壤剖面微生物总量、多样性和互作网络的垂直分布特征. 微生物学通报[J]. 2020, 47(9): 2789-2806, http://lib.cqvip.com/Qikan/Article/Detail?id=7103088372.
[71] Zhao, Mengxin, Cong, Jing, Cheng, Jingmin, Qi, Qi, Sheng, Yuyu, Ning, Daliang, Lu, Hui, Wyckoff, Kristen N, Deng, Ye, Li, Diqiang, Zhou, Jizhong, Zhang, Yuguang. Soil Microbial Community Assembly and Interactions Are Constrained by Nitrogen and Phosphorus in Broadleaf Forests of Southern China. FORESTS[J]. 2020, 11(3): https://doaj.org/article/fd04d70a07b44885a48199f01991a2eb.
[72] Hu, Qiulong, Tan, Lin, Yang, Xingxing, Deng, Ye, Gu, Songsong, Chen, Jiren, Cai, Liu, Zhou, Qian, Hu, Xinxi, Qin, Yuzhi, Xiong, Xingyao. The Divergence of Bacterial Communities among Continuous Cropping, Rotational Cropping and New Planting Potato Soils. INTERNATIONAL JOURNAL OF AGRICULTURE AND BIOLOGY[J]. 2020, 23(4): 721-729, https://www.webofscience.com/wos/woscc/full-record/WOS:000516544600006.
[73] 吴悦妮, 冯凯, 厉舒祯, 王朱珺, 张照婧, 邓晔. 16S/18S/ITS扩增子高通量测序引物的生物信息学评估和改进. 微生物学通报[J]. 2020, 47(9): 2897-2912, http://lib.cqvip.com/Qikan/Article/Detail?id=7103088381.
[74] Feng, Kai, Wang, Shang, Wei, Ziyan, Wang, Zhujun, Zhang, Zhaojing, Wu, Yueni, Zhang, Yuguang, Deng, Ye. Niche width of above- and below-ground organisms varied in predicting biodiversity profiling along a latitudinal gradient. MOLECULAR ECOLOGY[J]. 2020, 29(10): 1890-1902, http://dx.doi.org/10.1111/mec.15441.
[75] Tu, Qichao, Yan, Qingyun, Deng, Ye, Michaletz, Sean T, Buzzard, Vanessa, Weiser, Michael D, Waide, Robert, Ning, Daliang, Wu, Liyou, He, Zhili, Zhou, Jizhong. Biogeographic patterns of microbial co-occurrence ecological networks in six American forests. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2020, 148: http://dx.doi.org/10.1016/j.soilbio.2020.107897.
[76] Wu, Yueni, Feng, Kai, Wei, Ziyan, Wang, Zhujun, Deng, Ye. ARDEP, a Rapid Degenerate Primer Design Pipeline Based onk-mers for Amplicon Microbiome Studies. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH[J]. 2020, 17(16): http://dx.doi.org/10.3390/ijerph17165958.
[77] Chen, SongCan, Sun, GuoXin, Yan, Yu, Konstantinidis, Konstantinos T, Zhang, SiYu, Deng, Ye, Li, XiaoMin, Cui, HuiLing, Musat, Florin, Popp, Denny, Rosen, Barry P, Zhu, YongGuan. The Great Oxidation Event expanded the genetic repertoire of arsenic metabolism and cycling. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2020, 117(19): 10414-10421, http://dx.doi.org/10.1073/pnas.2001063117.
[78] Cheng, Jingmin, Zhao, Mengxin, Cong, Jing, Qi, Qi, Xiao, Ye, Cong, Wei, Deng, Ye, Zhou, Jizhong, Zhang, Yuguang. Soil pH exerts stronger impacts than vegetation type and plant diversity on soil bacterial community composition in subtropical broad-leaved forests. PLANT AND SOIL[J]. 2020, 450(1-2): 273-286, http://dx.doi.org/10.1007/s11104-020-04507-2.
[79] Lian, Shengyang, Qu, Yuanyuan, Li, Shuzhen, Zhang, Zhaojing, Zhang, Henglin, Dai, Chunxiao, Deng, Ye. Interaction of graphene-family nanomaterials with microbial communities in sequential batch reactors revealed by high-throughput sequencing. ENVIRONMENTAL RESEARCH[J]. 2020, 184: http://dx.doi.org/10.1016/j.envres.2020.109392.
[80] Zhang, Zhaojing, Qu, Yuanyuan, Li, Shuzhen, Feng, Kai, Cai, Weiwei, Yin, Huaqun, Wang, Shang, Liu, Wenzong, Wang, Aijie, Deng, Ye. Florfenicol restructured the microbial interaction network for wastewater treatment by microbial electrolysis cells. ENVIRONMENTAL RESEARCH[J]. 2020, 183: http://dx.doi.org/10.1016/j.envres.2020.109145.
[81] Li, Shuzhen, Wang, Zhujun, Wang, Yuanyuan, Song, Maoyong, Lu, Guangxin, Dang, Ning, Yin, Huaqun, Qu, Yuanyuan, Deng, Ye. Effects of graphene oxide on PCR amplification for microbial community survey. BMC MICROBIOLOGY[J]. 2020, 20(1): http://dx.doi.org/10.1186/s12866-020-01965-7.
[82] Tai, Xin, Li, Rui, Zhang, Bao, Yu, Hao, Kong, Xiao, Bai, Zhihui, Deng, Ye, Jia, Lan, Jin, Decai. Pollution Gradients Altered the Bacterial Community Composition and Stochastic Process of Rural Polluted Ponds. MICROORGANISMS[J]. 2020, 8(2): https://doaj.org/article/5a753f7a9abe41789d50412cbb08131f.
[83] He, Zhili, Deng, Ye, Xu, Meiying, Li, Juan, Liang, Junyi, Xiong, Jinbo, Yu, Hao, Wu, Bo, Wu, Liyou, Xue, Kai, Shi, Shengjing, Carrillo, Yolima, Van Nostrand, Joy D, Hobbie, Sarah E, Reich, Peter B, Schadt, Christopher W, Kent, Angela D, Pendall, Elise, Wallenstein, Matthew, Luo, Yiqi, Yan, Qingyun, Zhou, Jizhong. Microbial functional genes commonly respond to elevated carbon dioxide. ENVIRONMENT INTERNATIONAL[J]. 2020, 144: https://doaj.org/article/e7efe5c79a874f00b77f724da58bf626.
[84] Li, Shuzhen, Deng, Ye, Wang, Zhujun, Zhang, Zhaojing, Kong, Xiao, Zhou, Wenjun, Yi, Yanyun, Qu, Yuanyuan. Exploring the accuracy of amplicon-based internal transcribed spacer markers for a fungal community. MOLECULAR ECOLOGY RESOURCES[J]. 2020, 20(1): 170-184, http://dx.doi.org/10.1111/1755-0998.13097.
[85] 厉舒祯, 邓晔, 张照婧, 曲媛媛. 生物降解芳香族化合物的分子检测技术研究进展. 中国环境科学[J]. 2019, 39(6): 2577-2587, http://lib.cqvip.com/Qikan/Article/Detail?id=7002213609.
[86] Qin, Huayu, Wang, Shang, Feng, Kai, He, Zhili, Virta, Marko P J, Hou, Weiguo, Dong, Hailiang, Deng, Ye. Unraveling the diversity of sedimentary sulfate-reducing prokaryotes (SRP) across Tibetan saline lakes using epicPCR. MICROBIOME[J]. 2019, 7(1): https://doaj.org/article/98a85da2510846ba9312afc83927abb2.
[87] Zhou Shi, Huaqun Yin, Joy D Van Nostrand, James W Voordeckers, Qichao Tu, Ye Deng, Mengting Yuan, Aifen Zhou, Ping Zhang, Naijia Xiao, Daliang Ning, Zhili He, Liyou Wu, Jizhong Zhou. Functional Gene Array-Based Ultrasensitive and Quantitative Detection of Microbial Populations in Complex Communities. MSYSTEMS[J]. 2019, 4(4): http://dx.doi.org/10.1128/mSystems.00296-19.
[88] Feng, Kai, Zhang, Yuguang, He, Zhili, Ning, Daliang, Deng, Ye. Interdomain ecological networks between plants and microbes. MOLECULAR ECOLOGY RESOURCES[J]. 2019, 19(6): 1565-1577, http://dx.doi.org/10.1111/1755-0998.13081.
[89] Zhu, Tingting, Cai, Weiwei, Wang, Bo, Liu, Wenzong, Feng, Kai, Deng, Ye, Wang, Aijie. Enhanced nitrate removal in an Fe-0-driven autotrophic denitrification system using hydrogen-rich water. ENVIRONMENTAL SCIENCE-WATER RESEARCH & TECHNOLOGY[J]. 2019, 5(8): 1380-1388, https://www.webofscience.com/wos/woscc/full-record/WOS:000477038200002.
[90] Liang, Bin, Ma, Jincai, Cai, Weiwei, Li, Zhiling, Liu, Wenzong, Qi, Mengyuan, Zhao, Youkang, Ma, Xiaodan, Deng, Ye, Wang, Aijie, Zhou, Jizhong. Response of chloramphenicol-reducing biocathode resistome to continuous electrical stimulation. WATER RESEARCH[J]. 2019, 148: 398-406, http://dx.doi.org/10.1016/j.watres.2018.10.073.
[91] Yang, Yuzhan, Gao, Yangchun, Huang, Xuena, Ni, Ping, Wu, Yueni, Deng, Ye, Zhan, Aibin. Adaptive shifts of bacterioplankton communities in response to nitrogen enrichment in a highly polluted river. ENVIRONMENTAL POLLUTION[J]. 2019, 245: 290-299, http://dx.doi.org/10.1016/j.envpol.2018.11.002.
[92] Zhujun Wang, Guangxin Lu, Mengting Yuan, Hao Yu, Shang Wang, Xin Li, Ye Deng. Elevated temperature overrides the effects of N amendment in Tibetan grassland on soil microbiome. SOIL BIOLOGY AND BIOCHEMISTRY. 2019, 136: 107532-, http://dx.doi.org/10.1016/j.soilbio.2019.107532.
[93] Kong, Xiao, Jin, Decai, Tai, Xin, Yu, Hao, Duan, Guilan, Yan, Xiulan, Pan, Jiangang, Song, Junhua, Deng, Ye. Bioremediation of dibutyl phthalate in a simulated agricultural ecosystem by Gordonia sp. strain QH-11 and the microbial ecological effects in soil. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2019, 667: 691-700, http://ir.igsnrr.ac.cn/handle/311030/48641.
[94] Gu, Songsong, Hu, Qiulong, Liu, Zhonghua, Xiao, Wenjun, Gong, Zhihua, Cheng, Yuqi, Deng, Ye, Feng, Kai, Tan, Lin. Comparative Study on Soil Microbial Community Structure and Diversity in Five Tea (Camellia sinensis) Cultivars. INTERNATIONAL JOURNAL OF AGRICULTURE AND BIOLOGY[J]. 2019, 22(6): 1553-1559, http://dx.doi.org/10.17957/IJAB/15.1234.
[95] Cai, Weiwei, Liu, Wenzong, Zhang, Zhaojing, Feng, Kai, Ren, Ge, Pu, Chuanliang, Li, Jiaqi, Deng, Ye, Wang, Aijie. Electro-driven methanogenic microbial community diversity and variability in the electron abundant niche. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2019, 661: 178-186, http://dx.doi.org/10.1016/j.scitotenv.2019.01.131.
[96] Gu, Songsong, Hu, Qiulong, Cheng, Yuqi, Bai, Lianyang, Liu, Zhonghua, Xiao, Wenjun, Gong, Zhihua, Wu, Yueni, Feng, Kai, Deng, Ye, Tan, Lin. Application of organic fertilizer improves microbial community diversity and alters microbial network structure in tea (Camellia sinensis) plantation soils. SOIL & TILLAGE RESEARCH[J]. 2019, 195: http://dx.doi.org/10.1016/j.still.2019.104356.
[97] Tan, Lin, Gu, Songsong, Li, Shi, Ren, Zuohua, Deng, Ye, Liu, Zhonghua, Gong, Zhihua, Xiao, Wenjun, Hu, Qiulong. Responses of Microbial Communities and Interaction Networks to Different Management Practices in Tea Plantation Soils. SUSTAINABILITY[J]. 2019, 11(16): https://doaj.org/article/d3bf947e16b64c9fb2c9d8c0a797b23b.
[98] 何晴, 王尚, 邓晔. 分子生物学技术在热泉地质微生物学研究中的应用. 微生物学报[J]. 2019, 59(6): 996-1011, http://lib.cqvip.com/Qikan/Article/Detail?id=7002209577.
[99] Kong, Xiao, Jin, Decai, Wang, Xinxin, Zhang, Fengsong, Duan, Guilan, Liu, Huijun, Jia, Minghong, Deng, Ye. Dibutyl phthalate contamination remolded the fungal community in agro-environmental system. CHEMOSPHERE[J]. 2019, 215: 189-198, http://ir.igsnrr.ac.cn/handle/311030/51528.
[100] Wu, Linwei, Ning, Daliang, Zhang, Bing, Li, Yong, Zhang, Ping, Shan, Xiaoyu, Zhang, Qiuting, Brown, Mathew Robert, Li, Zhenxin, Van Nostrand, Joy D, Ling, Fangqiong, Xiao, Naijia, Zhang, Ya, Vierheilig, Julia, Wells, George F, Yang, Yunfeng, Deng, Ye, Tu, Qichao, Wang, Aijie, Zhang, Tong, He, Zhili, Keller, Jurg, Nielsen, Per H, Alvarez, Pedro J J, Criddle, Craig S, Wagner, Michael, Tiedje, James M, He, Qiang, Curtis, Thomas P, Stahl, David A, AlvarezCohen, Lisa, Rittmann, Bruce E, Wen, Xianghua, Zhou, Jizhong, Global Water Microbiome Consortium. Global diversity and biogeography of bacterial communities in wastewater treatment plants (vol 4, pg 1183, 2019). NATURE MICROBIOLOGYnull. 2019, 4(12): 2579-2579, https://www.webofscience.com/wos/woscc/full-record/WOS:000499071100056.
[101] Wu, Linwei, Ning, Daliang, Zhang, Bing, Li, Yong, Zhang, Ping, Shan, Xiaoyu, Zhang, Qiuting, Brown, Mathew, Li, Zhenxin, Van Nostrand, Joy D, Ling, Fangqiong, Xiao, Naijia, Zhang, Ya, Vierheilig, Julia, Wells, George F, Yang, Yunfeng, Deng, Ye, Tu, Qichao, Wang, Aijie, Zhang, Tong, He, Zhili, Keller, Jurg, Nielsen, Per H, Alvarez, Pedro J J, Criddle, Craig S, Wagner, Michael, Tiedje, James M, He, Qiang, Curtis, Thomas P, Stahl, David A, AlvarezCohen, Lisa, Rittmann, Bruce E, Wen, Xianghua, Zhou, Jizhong, Acevedo, Dany, AgulloBarcelo, Miriam, Andersen, Gary L, de Araujo, Juliana Calabria, Boehnke, Kevin, Bond, Philip, Bott, Charles B, Bovio, Patricia, Brewster, Rebecca K, Bux, Faizal, Cabezas, Angela, Cabrol, Lea, Chen, Si, Etchebehere, Claudia, Ford, Amanda, Frigon, Dominic, Sanabria Gomez, Janeth, Griffin, James S, Gu, April Z, Habagil, Moshe, Hale, Lauren, Hardeman, Steven D, Harmon, Marc, Horn, Harald, Hu, Zhiqiang, Jauffur, Shameem, Johnson, David R, Keucken, Alexander, Kumari, Sheena, Leal, Cintia Dutra, Lebrun, Laura A, Lee, Jangho, Lee, Minjoo, Lee, Zarraz M P, Li, Mengyan, Li, Xu, Liu, Yu, Luthy, Richard G, MendoncaHagler, Leda C, Rodriguez de Menezes, Francisca Gleire, Meyers, Arthur J, Mohebbi, Amin, Oehmen, Adrian, Palmer, Andrew, Parameswaran, Prathap, Park, Joonhong, Patsch, Deborah, Reginatto, Valeria, de los Reyes, Francis L, III, Noyola Robles, Adalberto, Rossetti, Simona, Sidhu, Jatinder, Sloan, William T, Smith, Kylie, de Sousa, Oscarina Viana, Stephens, Kyle, Tian, Renmao, Tooker, Nicholas B, De los Cobos Vasconcelos, Daniel, Wakelin, Steve, Wang, Bei, Weaver, Joseph E, West, Stephanie, Wilmes, Paul, Woo, SungGeun, Wu, JerHorng, Wu, Liyou, Xi, Chuanwu, Xu, Meiying, Yan, Tao, Yang, Min, Young, Michelle, Yue, Haowei, Zhang, Qian, Zhang, Wen, Zhang, Yu, Zhou, Hongde, Brown, Matthew, Global Water Microbiome Consortium. Global diversity and biogeography of bacterial communities in wastewater treatment plants. NATURE MICROBIOLOGY[J]. 2019, 4(7): 1183-1195, http://dx.doi.org/10.1038/s41564-019-0426-5.
[102] Ji, Mukan, Kong, Weidong, Yue, Linyan, Wang, Junbo, Deng, Ye, Zhu, Liping. Salinity reduces bacterial diversity, but increases network complexity in Tibetan Plateau lakes. FEMS MICROBIOLOGY ECOLOGY[J]. 2019, 95(12): https://www.webofscience.com/wos/woscc/full-record/WOS:000507369300012.
[103] Zhang, Zhaojing, Deng, Ye, Feng, Kai, Cai, Weiwei, Li, Shuzhen, Yin, Huaqun, Xu, Meiying, Ning, Daliang, Qu, Yuanyuan. Deterministic Assembly and Diversity Gradient Altered the Biofilm Community Performances of Bioreactors. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2019, 53(3): 1315-1324, https://www.webofscience.com/wos/woscc/full-record/WOS:000458220600029.
[104] Ning, Daliang, Deng, Ye, Tiedje, James M, Zhou, Jizhong. A general framework for quantitatively assessing ecological stochasticity. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2019, 116(34): 16892-16898, http://dx.doi.org/10.1073/pnas.1904623116.
[105] Yangying Liu, Shang Wang, Zhujun Wang, Zhaojing Zhang, Huayu Qin, Ziyan Wei, Kai Feng, Shuzhen Li, Yueni Wu, Huaqun Yin, Hui Li, Ye Deng. Soil microbiome mediated nutrients decline during forest degradation process. 土壤生态学快报[J]. 2019, 1(1-2): 59-71, https://journal.hep.com.cn/sel/CN/10.1007/s42832-019-0009-7.
[106] Buzzard, Vanessa, Michaletz, Sean T, Deng, Ye, He, Zhili, Ning, Daliang, Shen, Lina, Tu, Qichao, Van Nostrand, Joy D, Voordeckers, James W, Wang, Jianjun, Weiser, Michael D, Kaspari, Michael, Waide, Robert B, Zhou, Jizhong, Enquist, Brian J. Continental scale structuring of forest and soil diversity via functional traits. NATURE ECOLOGY & EVOLUTION[J]. 2019, 3(9): 1298-1308, http://dx.doi.org/10.1038/s41559-019-0954-7.
[107] Zhang, Zhuo, Kong, Xiao, Jin, Decai, Yu, Hao, Zhu, Xun, Su, Xiaofeng, Wang, Pei, Zhang, Ruiyong, Jia, Minghong, Deng, Ye. Euonymus japonicus phyllosphere microbiome is significantly changed by powdery mildew. ARCHIVES OF MICROBIOLOGY[J]. 2019, 201(8): 1099-1109, [108] Sun, Haishu, Xu, Shengjun, Wu, Shanghua, Wang, Rui, Zhuang, Guoqiang, Bai, Zhihui, Deng, Ye, Zhuang, Xuliang. Enhancement of facultative anaerobic denitrifying communities by oxygen release from roots of the macrophyte in constructed wetlands. JOURNAL OF ENVIRONMENTAL MANAGEMENT[J]. 2019, 246: 157-163, http://dx.doi.org/10.1016/j.jenvman.2019.05.136.
[109] Wei, Ziyan, Wu, Yueni, Feng, Kai, Yang, Min, Zhang, Yu, Tu, Qichao, Wang, Jun, Deng, Ye. ARGA, a pipeline for primer evaluation on antibiotic resistance genes. ENVIRONMENT INTERNATIONAL[J]. 2019, 128: 137-145, http://dx.doi.org/10.1016/j.envint.2019.04.030.
[110] Liu, Nana, Hu, Huifeng, Ma, Wenhong, Deng, Ye, Liu, Yuqing, Hao, Baihui, Zhang, Xinying, Dimitrov, Dimitar, Feng, Xiaojuan, Wang, Zhiheng. Contrasting Biogeographic Patterns of Bacterial and Archaeal Diversity in the Top- and Subsoils of Temperate Grasslands. MSYSTEMS[J]. 2019, 4(5): https://doaj.org/article/02b90f9ea41648cbbe7caa827792bb56.
[111] 杜雄峰, 于皓, 王尚, 邓晔. 宏基因组方法揭示草地土壤微生物群落响应全球变化. 生态学杂志[J]. 2019, 38(11): 3516-3526, http://lib.cqvip.com/Qikan/Article/Detail?id=7100347195.
[112] Wang, Zhujun, Lu, Guangxin, Yuan, Mengting, Yu, Hao, Wang, Shang, Li, Xin, Deng, Ye. Elevated temperature overrides the effects of N amendment in Tibetan grassland on soil microbiome. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2019, 136: 107532-, http://dx.doi.org/10.1016/j.soilbio.2019.107532.
[113] Tu, Qichao, Lin, Lu, Cheng, Lei, Deng, Ye, He, Zhili. NCycDB: a curated integrative database for fast and accurate metagenomic profiling of nitrogen cycling genes. BIOINFORMATICS[J]. 2019, 35(6): 1040-1048, [114] Wu, Bo, Liu, Feifei, Weiser, Michael D, Ning, Daliang, Okie, Jordan G, Shen, Lina, Li, Juan, Chai, Benli, Deng, Ye, Feng, Kai, Wu, Liyou, Chen, Shouwen, Zhou, Jizhong, He, Zhili. Temperature determines the diversity and structure of N2O-reducing microbial assemblages. FUNCTIONAL ECOLOGY[J]. 2018, 32(7): 1867-1878, https://www.webofscience.com/wos/woscc/full-record/WOS:000437281100019.
[115] Yuan, Mengting M, Zhang, Jin, Xue, Kai, Wu, Liyou, Deng, Ye, Deng, Jie, Hale, Lauren, Zhou, Xishu, He, Zhili, Yang, Yunfeng, Van Nostrand, Joy D, Schuur, Edward A G, Konstantinidis, Konstantinos T, Penton, Christopher R, Cole, James R, Tiedje, James M, Luo, Yiqi, Zhou, Jizhong. Microbial functional diversity covaries with permafrost thaw-induced environmental heterogeneity in tundra soil. GLOBAL CHANGE BIOLOGY[J]. 2018, 24(1): 297-307, http://dx.doi.org/10.1111/gcb.13820.
[116] Kong, Xiao, Jin, Decai, Jin, Shulan, Wang, Zhigang, Yin, Huaqun, Xu, Meiying, Deng, Ye. Responses of bacterial community to dibutyl phthalate pollution in a soil- vegetable ecosystem. JOURNAL OF HAZARDOUS MATERIALS[J]. 2018, 353: 142-150, http://ir.rcees.ac.cn/handle/311016/41293.
[117] Wu, Yueni, Yang, Yuzhan, Cao, Lei, Yin, Huaqun, Xu, Meiying, Wang, Zhujun, Liu, Yangying, Wang, Xin, Deng, Ye. Habitat environments impacted the gut microbiome of long-distance migratory swan geese but central species conserved. SCIENTIFIC REPORTS[J]. 2018, 8(1): https://doaj.org/article/1d2172401ece45209021e63f535730dc.
[118] Jin, Decai, Kong, Xiao, Wang, Jie, Sun, Jiajun, Yu, Xiangyang, Zhuang, Xuliang, Deng, Ye, Bai, Zhihui. Chitinophaga caeni sp nov., isolated from activated sludge. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY[J]. 2018, 68(7): 2209-2213, http://ir.rcees.ac.cn/handle/311016/41241.
[119] Xu, Shengjun, Feng, Shugeng, Sun, Haishu, Wu, Shanghua, Zhuang, Guoqiang, Deng, Ye, Bai, Zhihui, Jing, Chuanyong, Zhuang, Xuliang. Linking N2O Emissions from Biofertilizer-Amended Soil of Tea Plantations to the Abundance and Structure of N2O-Reducing Microbial Communities. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2018, 52(19): 11338-11345, http://ir.rcees.ac.cn/handle/311016/41275.
[120] Li, Ming, Sun, Shuqian, Li, Bo, Asghari, Hossein, Deng, Ye, Li, Wei, Zhu, Ninghua. Time-bandwidth compression of microwave signals. OPTICS EXPRESS[J]. 2018, 26(2): 990-999, https://www.webofscience.com/wos/woscc/full-record/WOS:000422935900056.
[121] Weiser, Michael D, Michaletz, Sean T, Buzzard, Vanessa, Deng, Ye, He, Zhili, Shen, Lina, Enquist, Brian J, Waide, Robert B, Zhou, Jizhong, Kaspari, Michael. Toward a theory for diversity gradients: the abundance-adaptation hypothesis. ECOGRAPHY[J]. 2018, 41(2): 255-264, https://www.webofscience.com/wos/woscc/full-record/WOS:000423807400002.
[122] Deng, Ye, Ning, Daliang, Qin, Yujia, Xue, Kai, Wu, Liyou, He, Zhili, Yin, Huaqun, Liang, Yuting, Buzzard, Vanessa, Michaletz, Sean T, Zhou, Jizhong. Spatial scaling of forest soil microbial communities across a temperature gradient. ENVIRONMENTAL MICROBIOLOGY[J]. 2018, 20(10): 3504-3513, http://ir.rcees.ac.cn/handle/311016/41295.
[123] Li, Hui, Xu, Zhuwen, Yan, Qingyun, Yang, Shan, Van Nostrand, Joy D, Wang, Zhirui, He, Zhili, Zhou, Jizhong, Jiang, Yong, Deng, Ye. Soil microbial beta-diversity is linked with compositional variation in aboveground plant biomass in a semi-arid grassland. PLANT AND SOIL[J]. 2018, 423(1-2): 465-480, http://dx.doi.org/10.1007/s11104-017-3524-2.
[124] Yu, Hao, Deng, Ye, He, Zhili, Van Nostrand, Joy D, Wang, Shang, Jin, Decai, Wang, Aijie, Wu, Liyou, Wang, Daohan, Tai, Xin, Zhou, Jizhong. Elevated CO2 and Warming Altered Grassland Microbial Communities in Soil Top-Layers. FRONTIERS IN MICROBIOLOGY[J]. 2018, 9: https://doaj.org/article/d762ce40090f4fb29ad50791892dbc79.
[125] Liu, Wenzong, Piao, Yongjian, Zhang, Fugui, Liu, Lin, Meng, Dongfang, Nan, Jun, Deng, Ye, Wang, Aijie. Hydrogen consumption and methanogenic community evolution in anodophilic biofilms in single chamber microbial electrolysis cells under different startup modes. ENVIRONMENTAL SCIENCE-WATER RESEARCH & TECHNOLOGY[J]. 2018, 4(11): 1839-1850, http://ir.rcees.ac.cn/handle/311016/41269.
[126] Liu, Shengen, Wang, Hang, Deng, Ye, Tian, Peng, Wang, Qingkui. Forest conversion induces seasonal variation in microbial beta-diversity. ENVIRONMENTAL MICROBIOLOGY[J]. 2018, 20(1): 111-123, http://ir.rcees.ac.cn/handle/311016/41263.
[127] Jin, Decai, Kong, Xiao, Cui, Bingjian, Jin, Shulan, Xie, Yunfeng, Wang, Xingrun, Deng, Ye. Bacterial communities and potential waterborne pathogens within the typical urban surface waters. SCIENTIFIC REPORTS[J]. 2018, 8(1): http://ir.rcees.ac.cn/handle/311016/41237.
[128] Ren, Ge, Ma, Anzhou, Zhang, Yanfen, Deng, Ye, Zheng, Guodong, Zhuang, Xuliang, Zhuang, Guoqiang, Fortin, Danielle. Electron acceptors for anaerobic oxidation of methane drive microbial community structure and diversity in mud volcanoes. ENVIRONMENTAL MICROBIOLOGY[J]. 2018, 20(7): 2370-2385, http://ir.rcees.ac.cn/handle/311016/41251.
[129] Wei, Ziyan, Liu, Yangying, Feng, Kai, Li, Shuzhen, Wang, Shang, Jin, Decai, Zhang, Yu, Chen, Hongrui, Yin, Huaqun, Xu, Meiying, Deng, Ye. The divergence between fungal and bacterial communities in seasonal and spatial variations of wastewater treatment plants. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2018, 628-629: 969-978, http://ir.rcees.ac.cn/handle/311016/41300.
[130] He, Jinzhi, Tu, Qichao, Ge, Yichen, Qin, Yujia, Cui, Bomiao, Hu, Xiaoyu, Wang, Yuxia, Deng, Ye, Wang, Kun, Van Nostrand, Joy D, Li, Jiyao, Zhou, Jizhong, Li, Yan, Zhou, Xuedong. Taxonomic and Functional Analyses of the Supragingival Microbiome from Caries-Affected and Caries-Free Hosts. MICROBIAL ECOLOGY[J]. 2018, 75(2): 543-554, https://www.webofscience.com/wos/woscc/full-record/WOS:000418740200025.
[131] Yu, Hao, He, Zhili, Wang, Aijie, Xie, Jianping, Wu, Liyou, Van Nostrand, Joy D, Jin, Decai, Shao, Zhimin, Schadt, Christopher W, Zhou, Jizhong, Deng, Ye. Divergent Responses of Forest Soil Microbial Communities under Elevated CO2 in Different Depths of Upper Soil Layers. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2018, 84(1): http://dx.doi.org/10.1128/AEM.01694-17.
[132] Cai, Weiwei, Liu, Wenzong, Zhang, Zhaojing, Feng, Kai, Ren, Ge, Pu, Chuanliang, Sun, Haishu, Li, Jiaqi, Deng, Ye, Wang, Aijie. mcrA sequencing reveals the role of basophilic methanogens in a cathodic methanogenic community. WATERRESEARCH[J]. 2018, 136: 192-199, http://ir.rcees.ac.cn/handle/311016/41276.
[133] Wang, Shang, Wang, Xiaobo, Han, Xingguo, Deng, Ye. Higher precipitation strengthens the microbial interactions in semi-arid grassland soils. GLOBAL ECOLOGY AND BIOGEOGRAPHY[J]. 2018, 27(5): 570-580, http://ir.rcees.ac.cn/handle/311016/41268.
[134] Jing Tian, Nianpeng He, Weidong Kong, Ye Deng, Kai Feng, Sophie M Green, Xiaobo Wang, Jizhong Zhou, Yakov Kuzyakov, Guirui Yu. Deforestation decreases spatial turnover and alters the network interactions in soil bacterial communities. SOIL BIOLOGY AND BIOCHEMISTRY. 2018, 123: 80-86, http://dx.doi.org/10.1016/j.soilbio.2018.05.007.
[135] Wei, Ziyan, Feng, Kai, Li, Shuzhen, Zhang, Yu, Chen, Hongrui, Yin, Huaqun, Xu, Meiying, Deng, Ye. Exploring abundance, diversity and variation of a widespread antibiotic resistance gene in wastewater treatment plants. ENVIRONMENT INTERNATIONAL[J]. 2018, 117: 186-195, http://ir.rcees.ac.cn/handle/311016/41258.
[136] Tian, Jing, He, Nianpeng, Kong, Weidong, Deng, Ye, Feng, Kai, Green, Sophie M, Wang, Xiaobo, Zhou, Jizhong, Kuzyakov, Yakov, Yu, Guirui. Deforestation decreases spatial turnover and alters the network interactions in soil bacterial communities. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2018, 123: 80-86, http://dx.doi.org/10.1016/j.soilbio.2018.05.007.
[137] 刘洋荧, 王尚, 厉舒祯, 邓晔. 基于功能基因的微生物碳循环分子生态学研究进展. 微生物学通报[J]. 2017, 44(7): 1676-1689, http://ir.rcees.ac.cn/handle/311016/38159.
[138] Ye Deng. Reply to "Pseudoreplication in a continental-scale forest soil microbial diversity study". Nature Communications. 2017, [139] Sun, Haishu, Liu, Feng, Xu, Shengjun, Wu, Shanghua, Zhuang, Guoqiang, Deng, Ye, Wu, Jinshui, Zhuang, Xuliang. Myriophyllum aquaticum Constructed Wetland Effectively Removes Nitrogen in Swine Wastewater. FRONTIERS IN MICROBIOLOGY[J]. 2017, 8: https://doaj.org/article/0253d9414fa04739af8ca5065bb8185d.
[140] Feng, Kai, Zhang, Zhaojing, Cai, Weiwei, Liu, Wenzong, Xu, Meiying, Yin, Huaqun, Wang, Aijie, He, Zhili, Deng, Ye. Biodiversity and species competition regulate the resilience of microbial biofilm community. MOLECULAR ECOLOGY[J]. 2017, 26(21): 6170-6182, https://www.webofscience.com/wos/woscc/full-record/WOS:000415362500022.
[141] Li, Ping, Jiang, Zhou, Wang, Yanhong, Deng, Ye, Van Nostrand, Joy D, Yuan, Tong, Liu, Han, Wei, Dazhun, Zhou, Jizhong. Analysis of the functional gene structure and metabolic potential of microbial community in high arsenic groundwater. WATER RESEARCH[J]. 2017, 123: 268-276, http://dx.doi.org/10.1016/j.watres.2017.06.053.
[142] Cheng, Lei, Zhang, Naifang, Yuan, Mengting, Xiao, Jing, Qin, Yujia, Deng, Ye, Tu, Qichao, Xue, Kai, Van Nostrand, Joy D, Wu, Liyou, He, Zhili, Zhou, Xuhui, Leigh, Mary Beth, Konstantinidis, Konstantinos T, Schuur, Edward A G, Luo, Yiqi, Tiedje, James M, Zhou, Jizhong. Warming enhances old organic carbon decomposition through altering functional microbial communities. ISME JOURNAL[J]. 2017, 11(8): 1825-1835, http://dx.doi.org/10.1038/ismej.2017.48.
[143] 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[J]. 2017, 7(1): https://doaj.org/article/156292a579b74e1ba7e5c6f3014eaa80.
[144] 厉舒祯, 沈文丽, 邓晔, 裴晓芳, 由胜男, 张照婧, 王经伟, 张旭旺, 曲媛媛. 微生物还原Se(VI)和Se(IV)合成SeNPs机理研究新进展. 应用与环境生物学报[J]. 2017, 23(3): 579-585, http://sciencechina.cn/gw.jsp?action=detail.jsp&internal_id=6025875&detailType=1.
[145] Bai, Ren, Wang, JunTao, Deng, Ye, He, JiZheng, Feng, Kai, Zhang, LiMei. Microbial Community and Functional Structure Significantly Varied among Distinct Types of Paddy Soils But Responded Differently along Gradients of Soil Depth Layers. FRONTIERS IN MICROBIOLOGY[J]. 2017, 8: https://doaj.org/article/818f50b343bd4ca684f37c0275b9c8c4.
[146] SongCan Chen, GuoXin Sun, Barry P Rosen, SiYu Zhang, Ye Deng, BoKai Zhu, Christopher Rensing, YongGuan Zhu. Recurrent horizontal transfer of arsenite methyltransferase genes facilitated adaptation of life to arsenic. SCIENTIFIC REPORTS[J]. 2017, 7(1): http://ir.rcees.ac.cn/handle/311016/39085.
[147] Wang, XiaoBo, Lu, XiaoTao, Yao, Jing, Wang, ZhengWen, Deng, Ye, Cheng, WeiXin, Zhou, JiZhong, Han, XingGuo. Habitat-specific patterns and drivers of bacterial beta-diversity in China's drylands. ISME JOURNAL[J]. 2017, 11(6): 1345-1358, http://dx.doi.org/10.1038/ismej.2017.11.
[148] Chen, YongLiang, Xu, TianLe, Veresoglou, Stavros D, Hu, HangWei, Hao, ZhiPeng, Hu, YaJun, Liu, Lei, Deng, Ye, Rillig, Matthias C, Chen, BaoDong. Plant diversity represents the prevalent determinant of soil fungal community structure across temperate grasslands in northern China. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2017, 110(7): 12-21, http://dx.doi.org/10.1016/j.soilbio.2017.02.015.
[149] Dai, Wenfang, Zhang, Jinjie, Tu, Qichao, Deng, Ye, Qiu, Qiongfen, Xiong, Jinbo. Bacterioplankton assembly and interspecies interaction indicating increasing coastal eutrophication. CHEMOSPHERE[J]. 2017, 177: 317-325, http://ir.rcees.ac.cn/handle/311016/39611.
[150] Li, Hui, Yang, Shan, Xu, Zhuwen, Yan, Qingyun, Li, Xiaobin, van Nostrand, Joy D, He, Zhili, Yao, Fei, Han, Xingguo, Zhou, Jizhong, Deng, Ye, Jiang, Yong. Responses of soil microbial functional genes to global changes are indirectly influenced by aboveground plant biomass variation. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2017, 104(1): 18-29, http://dx.doi.org/10.1016/j.soilbio.2016.10.009.
[151] Wen, Chongqing, Wu, Liyou, Qin, Yujia, Van Nostrand, Joy D, Ning, Daliang, Sun, Bo, Xue, Kai, Liu, Feifei, Deng, Ye, Liang, Yuting, Zhou, Jizhong. Evaluation of the reproducibility of amplicon sequencing with Illumina MiSeq platform. PLOS ONE[J]. 2017, 12(4): https://doaj.org/article/e68bbe2a174e4b36b9205089f69e865a.
[152] Wang, Honggui, Wei, Zhong, Mei, Lijuan, Gu, Jingxin, Yin, Suisui, Faust, Karoline, Raes, Jeroen, Deng, Ye, Wang, Yulong, Shen, Qirong, Yin, Shixue. Combined use of network inference tools identifies ecologically meaningful bacterial associations in a paddy soil. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2017, 105: 227-235, http://ir.rcees.ac.cn/handle/311016/39613.
[153] Zhang, Yuguang, Liu, Xiao, Cong, Jing, Lu, Hui, Sheng, Yuyu, Wang, Xiulei, Li, Diqiang, Liu, Xueduan, Yin, Huaqun, Zhou, Jizhong, Deng, Ye. The microbially mediated soil organic carbon loss under degenerative succession in an alpine meadow. MOLECULAR ECOLOGY[J]. 2017, 26(14): 3676-3686, https://www.webofscience.com/wos/woscc/full-record/WOS:000404618000009.
[154] 吴波, 冯凯, 职晓阳, 何强, 许玫英, 邓晔, 肖凡书, 汪善全, 于玲, 鲁祺鸿, 连英丽, 罗丽娟, 原珂, 陈保卫, 颜庆云, 仇荣亮, 栾天罡, 贺志理. 环境微生物组多样性及功能研究进展. 中山大学学报:自然科学版[J]. 2017, 56(5): 1-11, http://lib.cqvip.com/Qikan/Article/Detail?id=673386086.
[155] 张照婧, 王经伟, 张旭旺, 曲媛媛, 厉舒祯, 沈文丽, 邓晔, 裴晓芳, 由胜男. 微生物还原Se(Ⅵ)和Se(Ⅳ)合成SeNPs机理研究新进展. 应用与环境生物学报[J]. 2017, 23(3): 579-585, http://ir.rcees.ac.cn/handle/311016/38158.
[156] Chen, YongLiang, Deng, Ye, Ding, JinZhi, Hu, HangWei, Xu, TianLe, Li, Fei, Yang, GuiBiao, Yang, YuanHe. Distinct microbial communities in the active and permafrost layers on the Tibetan Plateau. MOLECULAR ECOLOGY[J]. 2017, 26(23): 6608-6620, http://ir.ibcas.ac.cn/handle/2S10CLM1/15955.
[157] Zhen, Quan, Deng, Ye, Wang, Yaqing, Wang, Xiaoke, Zhang, Hongxing, Sun, Xu, Ouyang, Zhiyun. Meteorological factors had more impact on airborne bacterial communities than air pollutants. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 2017, 601: 703-712, http://dx.doi.org/10.1016/j.scitotenv.2017.05.049.
[158] Zheng, Wei, Xue, Dongmei, Li, Xiangzhen, Deng, Ye, Rui, Junpeng, Feng, Kai, Wang, Zhongliang. The responses and adaptations of microbial communities to salinity in farmland soils: A molecular ecological network analysis. APPLIED SOIL ECOLOGY[J]. 2017, 120: 239-246, http://dx.doi.org/10.1016/j.apsoil.2017.08.019.
[159] Zhang, Xiaoxia, Zhang, Ruijie, Gao, Jusheng, Wang, Xiucheng, Fan, Fenliang, Ma, Xiaotong, Yin, Huaqun, Zhang, Caiwen, Feng, Kai, Deng, Ye. Thirty-one years of rice-rice-green manure rotations shape the rhizosphere microbial community and enrich beneficial bacteria. SOIL BIOLOGY & BIOCHEMISTRY[J]. 2017, 104: 208-217, http://ir.rcees.ac.cn/handle/311016/39656.
[160] Zhang, Ping, He, Zhili, Van Nostrand, Joy D, Qin, Yujia, Deng, Ye, Wu, Liyou, Tu, Qichao, Wang, Jianjun, Schadt, Christopher W, Fields, Matthew W, Hazen, Terry C, Arkin, Adam P, Stahl, David A, Zhou, Jizhong. Dynamic Succession of Groundwater Sulfate-Reducing Communities during Prolonged Reduction of Uranium in a Contaminated Aquifer. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2017, 51(7): 3609-3620, http://159.226.73.51/handle/332005/17276.
[161] Ye Deng. Soil microbial quantification approaches coupling with relative abundances reflecting the changes of taxa in different locations. Scientific Reports. 2017, [162] Yan, Qingyun, Stegen, James C, Yu, Yuhe, Deng, Ye, Li, Xinghao, Wu, Shu, Dai, Lili, Zhang, Xiang, Li, Jinjin, Wang, Chun, Ni, Jiajia, Li, Xuemei, Hu, Hongjuan, Xiao, Fanshu, Feng, Weisong, Ning, Daliang, He, Zhili, Van Nostrand, Joy D, Wu, Liyou, Zhou, Jizhong. Nearly a decade-long repeatable seasonal diversity patterns of bacterioplankton communities in the eutrophic Lake Donghu (Wuhan, China). MOLECULAR ECOLOGY[J]. 2017, 26(14): 3839-3850, http://dx.doi.org/10.1111/mec.14151.
[163] Jin, Decai, Kong, Xiao, Jia, Minghong, Yu, Xiangyang, Wang, Xinxin, Zhuang, Xuliang, Deng, Ye, Bai, Zhihui. Gordonia phthalatica sp nov., a di-n-butyl phthalate-degrading bacterium isolated from activated sludge. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY[J]. 2017, 67(12): 5128-5133, http://ir.rcees.ac.cn/handle/311016/39635.
[164] 厉舒祯, 沈文丽, 刘洋荧, 邓晔, 由胜男, 裴晓芳, 李会杰, 张照婧, 曲媛媛. 真菌介导的纳米金合成及其应用研究进展. 环境科学与技术[J]. 2016, 39(9): 82-, http://ir.rcees.ac.cn/handle/311016/36704.
[165] Zu, Qianhui, Zhong, Linghao, Deng, Ye, Shi, Yu, Wang, Baozhan, Jia, Zhongjun, Lin, Xiangui, Feng, Youzhi. Geographical Distribution of Methanogenic Archaea in Nine Representative Paddy Soils in China. FRONTIERS IN MICROBIOLOGY[J]. 2016, 7: https://doaj.org/article/a59c09c318cb4f648def31a875f100b7.
[166] Shen, Congcong, Shi, Yu, Ni, Yingying, Deng, Ye, Van Nostrand, Joy D, He, Zhili, Zhou, Jizhong, Chu, Haiyan. Dramatic Increases of Soil Microbial Functional Gene Diversity at the Treeline Ecotone of Changbai Mountain. FRONTIERS IN MICROBIOLOGY[J]. 2016, 7: http://www.corc.org.cn/handle/1471x/2374460.
[167] Zhao, JianKang, Li, XiaoMing, Ai, GuoMin, Deng, Ye, Liu, ShuangJiang, Jiang, ChengYing. Reconstruction of metabolic networks in a fluoranthene-degrading enrichments from polycyclic aromatic hydrocarbon polluted soil. JOURNAL OF HAZARDOUS MATERIALS[J]. 2016, 318: 90-98, http://www.corc.org.cn/handle/1471x/2376213.
[168] Yuan, HaiYan, Ding, LongJun, Wang, Ning, Chen, SongCan, Deng, Ye, Li, XiaoMing, Zhu, YongGuan. Geographic distance and amorphous iron affect the abundance and distribution of Geobacteraceae in paddy soils in China. JOURNAL OF SOILS AND SEDIMENTS[J]. 2016, 16(12): 2657-2665, http://ir.rcees.ac.cn/handle/311016/35593.
[169] Liang, Yuting, Zhao, Huihui, Deng, Ye, Zhou, Jizhong, Li, Guanghe, Sun, Bo. Long-Term Oil Contamination Alters the Molecular Ecological Networks of Soil Microbial Functional Genes. FRONTIERS IN MICROBIOLOGY[J]. 2016, 7: https://doaj.org/article/1bb546f3caa445d1b8443c48c6c718d5.
[170] Deng, Ye, He, Zhili, Xiong, Jinbo, Yu, Hao, Xu, Meiying, Hobbie, Sarah E, Reich, Peter B, Schadt, Christopher W, Kent, Angela, Pendall, Elise, Wallenstein, Matthew, Zhou, Jizhong. Elevated carbon dioxide accelerates the spatial turnover of soil microbial communities. GLOBAL CHANGE BIOLOGY[J]. 2016, 22(2): 957-964, http://ir.rcees.ac.cn/handle/311016/36124.
[171] Niu, Jiaojiao, Deng, Jie, Xiao, Yunhua, He, Zhili, Zhang, Xian, Van Nostrand, J D, Liang, Yili, Deng, Ye, Liu, Xueduan, Yin, Huaqun. The shift of microbial communities and their roles in sulfur and iron cycling in a copper ore bioleaching system. SCIENTIFIC REPORTS[J]. 2016, 6: http://dx.doi.org/10.1038/srep34744.
[172] 邓晔, 冯凯, 魏子艳, 刘文宗, 梁玉婷, 金德才. 宏基因组学在环境工程领域的应用及研究进展. 环境工程学报[J]. 2016, 10(7): 3373-3382, http://ir.rcees.ac.cn/handle/311016/36698.
[173] Yang, Yuzhan, Deng, Ye, Cao, Lei. Characterising the interspecific variations and convergence of gut microbiota in Anseriformes herbivores at wintering areas. SCIENTIFIC REPORTS[J]. 2016, 6: http://ir.rcees.ac.cn/handle/311016/36107.
[174] Xu, Tianle, Veresoglou, Stavros D, Chen, Yongliang, Rillig, Matthias C, Xiang, Dan, Ondrej, Daniel, Hao, Zhipeng, Liu, Lei, Deng, Ye, Hu, Yajun, Chen, Weiping, Wang, Juntao, He, Jizheng, Chen, Baodong. Plant community, geographic distance and abiotic factors play different roles in predicting AMF biogeography at the regional scale in northern China. ENVIRONMENTAL MICROBIOLOGY REPORTS[J]. 2016, 8(6): 1048-1057, http://dx.doi.org/10.1111/1758-2229.12485.
[175] Weiss, Sophie, Van Treuren, Will, Lozupone, Catherine, Faust, Karoline, Friedman, Jonathan, Deng, Ye, Xia, Li Charlie, Xu, Zhenjiang Zech, Ursell, Luke, Alm, Eric J, Birmingham, Amanda, Cram, Jacob A, Fuhrman, Jed A, Raes, Jeroen, Sun, Fengzhu, Zhou, Jizhong, Knight, Rob. Correlation detection strategies in microbial data sets vary widely in sensitivity and precision. ISME JOURNAL[J]. 2016, 10(7): 1669-1681, https://www.webofscience.com/wos/woscc/full-record/WOS:000378292100011.
[176] Jin, Decai, Zhu, Ying, Wang, Xinxin, Kong, Xiao, Liu, Huijun, Wang, Yafeng, Deng, Ye, Jia, Minghong. Draft Genome Sequence of Sphingobium yanoikuyae TJ, a Halotolerant Di-n-Butyl-Phthalate-Degrading Bacterium. MICROBIOLOGY RESOURCE ANNOUNCEMENTS[J]. 2016, 4(3): [177] Tu, Qichao, Deng, Ye, Yan, Qingyun, Shen, Lina, Lin, Lu, He, Zhili, Wu, Liyou, Van Nostrand, Joy D, Buzzard, Vanessa, Michaletz, Sean T, Enquist, Brian J, Weiser, Michael D, Kaspari, Michael, Waide, Robert B, Brown, James H, Zhou, Jizhong. Biogeographic patterns of soil diazotrophic communities across six forests in the North America. MOLECULAR ECOLOGY[J]. 2016, 25(12): 2937-2948, http://ir.rcees.ac.cn/handle/311016/36105.
[178] 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[J]. 2016, 7(1): http://ir.rcees.ac.cn/handle/311016/36149.
[179] Penton, C Ryan, Yang, Caiyun, Wu, Liyou, Wang, Qiong, Zhang, Jin, Liu, Feifei, Qin, Yujia, Deng, Ye, Hemme, Christopher L, Zheng, Tanling, Schuur, Edward A G, Tiedje, James, Zhou, Jizhong. NifH-Harboring Bacterial Community Composition across an Alaskan Permafrost Thaw Gradient. FRONTIERS IN MICROBIOLOGY[J]. 2016, 7: http://www.corc.org.cn/handle/1471x/2197697.
[180] Xue, Kai, Xie, Jianping, Zhou, Aifen, Liu, Feifei, Li, Dejun, Wu, Liyou, Deng, Ye, He, Zhili, Van Nostrand, Joy D, Luo, Yiqi, Zhou, Jizhong. Warming Alters Expressions of Microbial Functional Genes Important to Ecosystem Functioning. FRONTIERS IN MICROBIOLOGY[J]. 2016, 7: http://dx.doi.org/10.3389/fmicb.2016.00668.
[181] Xue, Kai, Yuan, Mengting M, Shi, Zhou J, Qin, Yujia, Deng, Ye, Cheng, Lei, Wu, Liyou, He, Zhili, Van Nostrand, Joy D, Bracho, Rosvel, Natali, Susan, Schuur, Edward A G, Luo, Chengwei, Konstantinidis, Konstantinos T, Wang, Qiong, Cole, James R, Tiedje, James M, Luo, Yiqi, Zhou, Jizhong, 薛凯. Tundra soil carbon is vulnerable to rapid microbial decomposition under climate warming. NATURE CLIMATE CHANGE[J]. 2016, 6(6): 595-+, http://dx.doi.org/10.1038/NCLIMATE2940.
[182] Wang, Yu, Zhang, Rui, Zheng, Qiang, Deng, Ye, Van Nostrand, Joy D, Zhou, Jizhong, Jiao, Nianzhi. Bacterioplankton community resilience to ocean acidification: evidence from microbial network analysis. ICES JOURNAL OF MARINE SCIENCE[J]. 2016, 73(3): 865-875, http://ir.rcees.ac.cn/handle/311016/36099.
[183] Jin, Decai, Kong, Xiao, Li, Honghong, Luo, Luyun, Zhuang, Xuliang, Zhuang, Guoqiang, Deng, Ye, Bai, Zhihui. Patulibacter brassicae sp nova., isolated from rhizosphere soil of Chinese cabbage (Brassica campestris). INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY[J]. 2016, 66: 5056-5060, http://dx.doi.org/10.1099/lisem.0.001469.
[184] Wang, Xiaohui, Wen, Xianghua, Deng, Ye, Xia, Yu, Yang, Yunfeng, Zhou, Jizhong. Distance-Decay Relationship for Biological Wastewater Treatment Plants. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2016, 82(16): 4860-4866, http://dx.doi.org/10.1128/AEM.01071-16.
[185] Ye Deng. s there a distance-decay relationship in biological wastewater treatment plants?. Applied and environmental microbiology. 2016, [186] Deng, Ye, Xu, Su, Zhang, Runren, Zheng, Bin, Chen, Hua, Gao, Fei, Yu, Faxin, Zhang, Baile, Chen, Hongsheng. Ultra-broadband carpet cloak for transverse-electric polarization. JOURNAL OF OPTICS[J]. 2016, 18(4): https://www.webofscience.com/wos/woscc/full-record/WOS:000375753700007.
[187] Zhang, Yuguang, Cong, Jing, Lu, Hui, Deng, Ye, Liu, Xiao, Zhou, Jizhong, Li, Diqiang. Soil bacterial endemism and potential functional redundancy in natural broadleaf forest along a latitudinal gradient. SCIENTIFIC REPORTS[J]. 2016, 6: http://ir.rcees.ac.cn/handle/311016/36146.
[188] Leclercq, Sebastien Olivier, Wang, Chao, Sui, Zhihai, Wu, Hai, Zhu, Baoli, Deng, Ye, Feng, Jie. A multiplayer game: species of Clostridium, Acinetobacter, and Pseudomonas are responsible for the persistence of antibiotic resistance genes in manure-treated soils. ENVIRONMENTAL MICROBIOLOGY[J]. 2016, 18(10): 3494-3508, https://www.webofscience.com/wos/woscc/full-record/WOS:000388613200022.
[189] Cai, Weiwei, Zhang, Zhaojing, Ren, Ge, Shen, Qiuxuan, Hou, Yanan, Ma, Anzhou, Deng, Ye, Wang, Aijie, Liu, Wenzong. Quorum sensing alters the microbial community of electrode-respiring bacteria and hydrogen scavengers toward improving hydrogen yield in microbial electrolysis cells. APPLIED ENERGY[J]. 2016, 183: 1133-1141, http://dx.doi.org/10.1016/j.apenergy.2016.09.074.
[190] Deng, Ye, Zhang, Ping, Qin, Yujia, Tu, Qichao, Yang, Yunfeng, He, Zhili, Schadt, Christopher Warren, Zhou, Jizhong. Network succession reveals the importance of competition in response to emulsified vegetable oil amendment for uranium bioremediation. ENVIRONMENTAL MICROBIOLOGY[J]. 2016, 18(1): 205-218, http://dx.doi.org/10.1111/1462-2920.12981.
[191] Jin, Decai, Kong, Xiao, Liu, Huijun, Wang, Xinxin, Deng, Ye, Jia, Minghong, Yu, Xiangyang. Characterization and Genomic Analysis of a Highly Efficient Dibutyl Phthalate-Degrading Bacterium Gordonia sp Strain QH-12. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES[J]. 2016, 17(7): http://ir.rcees.ac.cn/handle/311016/36108.
[192] Kai Xue, Mengting M Yuan, Jianping Xie, Dejun Li, Yujia Qin, Lauren E Hale, Liyou Wu, Ye Deng, Zhili He, Joy D Van Nostrand, Yiqi Luo, James M Tiedje, Jizhong Zhou, 薛凯. Annual Removal of Aboveground Plant Biomass Alters Soil Microbial Responses to Warming. MBIO[J]. 2016, 7(5): https://doaj.org/article/0129c222431b4f3eb63ad035a57451a2.
[193] De-Cai Jin, Zhihui Bai. Patulibacter brassicae sp. nov., isolated from rhizosphere soil of Chinese cabbage (Brassica campestris). International Journal of Systematic and Evolutionary Microbiology[J]. 2016, [194] Cong, Jing, Liu, Xueduan, Lu, Hui, Xu, Han, Li, Yide, Deng, Ye, Li, Diqiang, Zhang, Yuguang. Available nitrogen is the key factor influencing soil microbial functional gene diversity in tropical rainforest. BMC MICROBIOLOGY[J]. 2015, 15(1): http://dx.doi.org/10.1186/s12866-015-0491-8.
[195] Ding, Junjun, Zhang, Yuguang, Wang, Mengmeng, Sun, Xin, Cong, Jing, Deng, Ye, Lu, Hui, Yuan, Tong, Van Nostrand, Joy D, Li, Diqiang, Zhou, Jizhong, Yang, Yunfeng. Soil organic matter quantity and quality shape microbial community compositions of subtropical broadleaved forests. MOLECULAR ECOLOGY[J]. 2015, 24(20): 5175-5185, http://dx.doi.org/10.1111/mec.13384.
[196] 魏子艳, 金德才, 邓晔. 环境微生物宏基因组学研究中的生物信息学方法. 微生物学通报[J]. 2015, 42(5): 890-901, http://ir.rcees.ac.cn/handle/311016/33366.
[197] 邓晔. 三峡大坝对微生物群落和潜在功能的影响. Scientific Reports. 2015, [198] 邓晔. 功能微生物群落在乙醇类燃料泄漏过程中的演变. Environmental Pollution. 2015, [199] Xiong, Jinbo, He, Zhili, Shi, Shengjing, Kent, Angela, Deng, Ye, Wu, Liyou, Van Nostrand, Joy D, Zhou, Jizhong. Elevated CO2 shifts the functional structure and metabolic potentials of soil microbial communities in a C-4 agroecosystem. SCIENTIFIC REPORTS[J]. 2015, 5: http://ir.rcees.ac.cn/handle/311016/32926.
[200] Yang, Bo, Kong, Xiao, Cui, Bingjian, Jin, Decai, Deng, Ye, Zhuang, Xuliang, Zhuang, Guoqiang, Bai, Zhihui. Impact of Rural Domestic Wastewater Irrigation on the Physicochemical and Microbiological Properties of Pakchoi and Soil. WATER[J]. 2015, 7(5): 1825-1839, http://ir.rcees.ac.cn/handle/311016/32931.
[201] Tu, Qichao, Yuan, Mengting, He, Zhili, Deng, Ye, Xue, Kai, Wu, Liyou, Hobbie, Sarah E, Reich, Peter B, Zhou, Jizhong. Fungal Communities Respond to Long-Term CO2 Elevation by Community Reassembly. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2015, 81(7): 2445-2454, https://www.webofscience.com/wos/woscc/full-record/WOS:000351842000019.
[202] 邓晔. 真菌群落对长期二氧化碳升高的反应. Applied and environmental microbiology. 2015, [203] Ma, Jie, Deng, Ye, Yuan, Tong, Zhou, Jizhong, Alvarez, Pedro J J. Succession of microbial functional communities in response to a pilot-scale ethanol-blended fuel release throughout the plume life cycle. ENVIRONMENTAL POLLUTION[J]. 2015, 198: 154-160, http://dx.doi.org/10.1016/j.envpol.2015.01.005.
[204] Qu, Yuanyuan, Zhang, Xuwang, Ma, Qiao, Deng, Jie, Deng, Ye, Van Nostrand, Joy D, Wu, Liyou, He, Zhili, Qin, Yujia, Zhou, Jiti, Zhou, Jizhong. Microbial Community Dynamics and Activity Link to Indigo Production from Indole in Bioaugmented Activated Sludge Systems. PLOS ONE[J]. 2015, 10(9): http://dx.doi.org/10.1371/journal.pone.0138455.
[205] Hemme, Christopher L, Tu, Qichao, Shi, Zhou, Qin, Yujia, Gao, Weimin, Deng, Ye, Van Nostrand, Joy D, Wu, Liyou, He, Zhili, Chain, Patrick S G, Tringe, Susannah G, Fields, Matthew W, Rubin, Edward M, Tiedje, James M, Hazen, Terry C, Arkin, Adam P, Zhou, Jizhong. Comparative metagenomics reveals impact of contaminants on groundwater microbiomes. FRONTIERS IN MICROBIOLOGY[J]. 2015, 6: https://doaj.org/article/1b2c605b760c4f3ea36301c3a218336b.
[206] Jizhong Zhou, Zhili He, Yunfeng Yang, Ye Deng, Susannah G Tringe, Lisa AlvarezCohen. High-Throughput Metagenomic Technologies for Complex Microbial Community Analysis: Open and Closed Formats. MBIO[J]. 2015, 6(1): http://dx.doi.org/10.1128/mBio.02288-14.
[207] Liang, Yuting, Jiang, Yuji, Wang, Feng, Wen, Chongqing, Deng, Ye, Xue, Kai, Qin, Yujia, Yang, Yunfeng, Wu, Liyou, Zhou, Jizhong, Sun, Bo. Long-term soil transplant simulating climate change with latitude significantly alters microbial temporal turnover. ISME JOURNAL[J]. 2015, 9(12): 2561-2572, http://dx.doi.org/10.1038/ismej.2015.78.
[208] 邓晔. 使用宏基因组和网络分析揭示土壤微生物在森林林线附近的分布. Scientific Reports. 2015, [209] Zhang, Ping, Van Nostrand, Joy D, He, Zhili, Chakraborty, Romy, Deng, Ye, Curtis, Daniel, Fields, Matthew W, Hazen, Terry C, Arkin, Adam P, Zhou, Jizhong. A Slow-Release Substrate Stimulates Groundwater Microbial Communities for Long-Term in Situ Cr(VI) Reduction. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2015, 49(21): 12922-12931, http://ir.rcees.ac.cn/handle/311016/32909.
[210] Ding, Junjun, Zhang, Yuguang, Deng, Ye, Cong, Jing, Lu, Hui, Sun, Xin, Yang, Caiyun, Yuan, Tong, Van Nostrand, Joy D, Li, Diqiang, Zhou, Jizhong, Yang, Yunfeng. Integrated metagenomics and network analysis of soil microbial community of the forest timberline. SCIENTIFIC REPORTS[J]. 2015, 5: http://ir.rcees.ac.cn/handle/311016/32795.
[211] Wang, Xiaobo, Van Nostrand, Joy D, Deng, Ye, Lu, Xiaotao, Wang, Chao, Zhou, Jizhong, Han, Xingguo. Scale-dependent effects of climate and geographic distance on bacterial diversity patterns across northern China's grasslands. FEMS MICROBIOLOGY ECOLOGY[J]. 2015, 91(12): http://dx.doi.org/10.1093/femsec/fiv133.
[212] 邓晔. 高通量宏基因组技术用于微生物群落分析:开放和封闭体系. mBio. 2015, [213] Wu, Liyou, Wen, Chongqing, Qin, Yujia, Yin, Huaqun, Tu, Qichao, Van Nostrand, Joy D, Yuan, Tong, Yuan, Menting, Deng, Ye, Zhou, Jizhong. Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis. BMC MICROBIOLOGY[J]. 2015, 15(1): http://dx.doi.org/10.1186/s12866-015-0450-4.
[214] 孔晓, 崔丙健, 金德才, 吴尚华, 杨波, 邓晔, 庄国强, 庄绪亮. 农村污水膜生物反应器系统中微生物群落解析. 环境科学[J]. 2015, 36(9): 3329-3338, http://ir.rcees.ac.cn/handle/311016/33377.
[215] Jin, Decai, Kong, Xiao, Li, Yujie, Bai, Zhihui, Zhuang, Guoqiang, Zhuang, Xuliang, Deng, Ye. Biodegradation of di-n-Butyl Phthalate by Achromobacter sp Isolated from Rural Domestic Wastewater. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH[J]. 2015, 12(10): 13510-13522, http://ir.rcees.ac.cn/handle/311016/32913.
[216] Zhang, Yuguang, Cong, Jing, Lu, Hui, Li, Guangliang, Xue, Yadong, Deng, Ye, Li, Hui, Zhou, Jizhong, Li, Diqiang. Soil bacterial diversity patterns and drivers along an elevational gradient on Shennongjia Mountain, China. MICROBIAL BIOTECHNOLOGY[J]. 2015, 8(4): 739-746, http://ir.rcees.ac.cn/handle/311016/32377.
[217] Yuting Liang, Liyou Wu, Ian M Clark, Kai Xue, Yunfeng Yang, Joy D Van Nostrand, Ye Deng, Zhili He, Steve McGrath, Jonathan Storkey, Penny R Hirsch, Bo Sun, Jizhong Zhou. Over 150 Years of Long-Term Fertilization Alters Spatial Scaling of Microbial Biodiversity. MBIO[J]. 2015, 6(2): https://www.webofscience.com/wos/woscc/full-record/WOS:000355312400053.
[218] Macdonald, Catriona A, Crawley, Michael J, Wright, Denis J, Kuczynski, Justin, Robinson, Lucinda, Knight, Rob, Abu AlSoud, Waleed, Sorensen, Soren J, Deng, Ye, Zhou, Jizhong, Singh, Brajesh K. Identifying qualitative effects of different grazing types on below-ground communities and function in a long-term field experiment. ENVIRONMENTAL MICROBIOLOGY[J]. 2015, 17(3): 841-854, https://www.webofscience.com/wos/woscc/full-record/WOS:000351435600026.
[219] Yan, Qingyun, Bi, Yonghong, Deng, Ye, He, Zhili, Wu, Liyou, Van Nostrand, Joy D, Shi, Zhou, Li, Jinjin, Wang, Xi, Hu, Zhengyu, Yu, Yuhe, Zhou, Jizhong. Impacts of the Three Gorges Dam on microbial structure and potential function. SCIENTIFIC REPORTS[J]. 2015, 5: http://dx.doi.org/10.1038/srep08605.
[220] Li, Yan, He, Jinzhi, He, Zhili, Zhou, Yuan, Yuan, Mengting, Xu, Xin, Sun, Feifei, Liu, Chengcheng, Li, Jiyao, Xie, Wenbo, Deng, Ye, Qin, Yujia, VanNostrand, Joy D, Xiao, Liying, Wu, Liyou, Zhou, Jizhong, Shi, Wenyuan, Zhou, Xuedong. Phylogenetic and functional gene structure shifts of the oral microbiomes in periodontitis patients. ISME JOURNAL[J]. 2014, 8(9): 1879-1891, http://dx.doi.org/10.1038/ismej.2014.28.
[221] Yang, Fang, Ning, Kang, Chang, Xingzhi, Yuan, Xiao, Tu, Qichao, Yuan, Tong, Deng, Ye, Hemme, Christopher L, Van Nostrand, Joy, Cui, Xinping, He, Zhili, Chen, Zhenggang, Guo, Dawei, Yu, Jiangbo, Zhang, Yue, Zhou, Jizhong, Xu, Jian. Saliva Microbiota Carry Caries-Specific Functional Gene Signatures. PLOS ONE[J]. 2014, 9(2): http://dx.doi.org/10.1371/journal.pone.0076458.
[222] Chen, Yanfei, Qin, Nan, Guo, Jing, Qian, Guirong, Fang, Daiqiong, Shi, Ding, Xu, Min, Yang, Fengling, He, Zhili, Van Nostrand, Joy D, Yuan, Tong, Deng, Ye, Zhou, Jizhong, Li, Lanjuan. Functional gene arrays-based analysis of fecal microbiomes in patients with liver cirrhosis. BMC GENOMICS[J]. 2014, 15(1): http://dx.doi.org/10.1186/1471-2164-15-753.
[223] 邓晔. GeoChip4用于分析微生物群落的功能基因芯片. MOLECULARECOLOGYRESOURCES. 2014, [224] Yang, Yunfeng, Gao, Ying, Wang, Shiping, Xu, Depeng, Yu, Hao, Wu, Linwei, Lin, Qiaoyan, Hu, Yigang, Li, Xiangzhen, He, Zhili, Deng, Ye, Zhou, Jizhong. The microbial gene diversity along an elevation gradient of the Tibetan grassland. ISME JOURNAL[J]. 2014, 8(2): 430-440, http://www.irgrid.ac.cn/handle/1471x/965973.
[225] 邓晔. 随机性因素对水生生态系统的连续影响. Proceedings of the National Academy of Sciences of the United States of America. 2014, [226] 邓晔. 土壤微生物在大豆农业生态系统中对二氧化碳和臭氧升高的直接反应. The ISME Journal. 2014, [227] Jiang, Hongchen, Huang, Liuqin, Deng, Ye, Wang, Shang, Zhou, Yu, Liu, Li, Dong, Hailiang. Latitudinal Distribution of Ammonia-Oxidizing Bacteria and Archaea in the Agricultural Soils of Eastern China. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2014, 80(18): 5593-5602, http://dx.doi.org/10.1128/AEM.01617-14.
[228] 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, 8(3): 714-726, https://www.webofscience.com/wos/woscc/full-record/WOS:000331879900019.
[229] 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, 80(5): 1777-1786, http://dx.doi.org/10.1128/AEM.03712-13.
[230] 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, 9(3): http://www.irgrid.ac.cn/handle/1471x/1000809.
[231] 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, [232] 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, 111(9): E836-E845, http://www.irgrid.ac.cn/handle/1471x/936359.
[233] 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, 14(5): 914-928, http://dx.doi.org/10.1111/1755-0998.12239.
[234] 邓晔. 开发HuMiChip检测人体微生物群落的功能特征. PloS One. 2014, [235] 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, 23(12): 2988-2999, http://dx.doi.org/10.1111/mec.12786.
[236] Tu, Qichao, He, Zhili, Deng, Ye, Zhou, Jizhong. Strain/Species-Specific Probe Design for Microbial Identification Microarrays. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2013, 79(16): 5085-5088, https://www.webofscience.com/wos/woscc/full-record/WOS:000322161700037.
[237] 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, 47(17): 9841-9849, https://www.webofscience.com/wos/woscc/full-record/WOS:000330094700036.
[238] 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, 4(2): https://www.webofscience.com/wos/woscc/full-record/WOS:000318431500040.
[239] 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, 7(10): 1974-1984, http://dx.doi.org/10.1038/ismej.2013.88.
[240] 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, 7(3): 660-671, http://dx.doi.org/10.1038/ismej.2012.120.
[241] 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, 13(1): 124-124, http://dx.doi.org/10.1186/1471-2180-13-124.
[242] 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, [243] 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, 4(3): http://dx.doi.org/10.1128/mBio.00324-13.
[244] 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, 65: 33-38, http://dx.doi.org/10.1016/j.soilbio.2013.05.007.
[245] 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 & TECHNOLOGYnull. 2013, 47(4): 2142-2142, https://www.webofscience.com/wos/woscc/full-record/WOS:000315326700047.
[246] 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, 79(4): 1284-1292, https://www.webofscience.com/wos/woscc/full-record/WOS:000314891500025.
[247] 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, 47(17): 9950-9958, http://dx.doi.org/10.1021/es402228x.
[248] 邓晔. 菌株或者菌种特异探针设计. Appl. Environ. Microbiol. 2013, [249] 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, 6(2): 259-272, https://www.webofscience.com/wos/woscc/full-record/WOS:000300984200005.
[250] 邓晔. 深海原油泄漏引起微生物功能基因富集. The ISME Journal. 2012, [251] Deng, Ye, Jiang, YiHuei, Yang, Yunfeng, He, Zhili, Luo, Feng, Zhou, Jizhong. Molecular ecological network analyses. BMC BIOINFORMATICS[J]. 2012, 13(1): 113-113, http://dx.doi.org/10.1186/1471-2105-13-113.
[252] 邓晔. 二氧化碳升高引起土壤微生物群落结构变化. APPLENVIRONMICROBIOL. 2012, [253] 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, [254] 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, 2(2): 106-110, http://202.127.146.157/handle/2RYDP1HH/802.
[255] 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, 78(8): 2966-2972, https://www.webofscience.com/wos/woscc/full-record/WOS:000302147300054.
[256] He, Zhili, Deng, Ye, Zhou, Jizhong. Development of functional gene microarrays for microbial community analysis. CURRENT OPINION IN BIOTECHNOLOGYnull. 2012, 23(1): 49-55, http://dx.doi.org/10.1016/j.copbio.2011.11.001.
[257] 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, [258] 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, 6(2): 451-460, https://www.webofscience.com/wos/woscc/full-record/WOS:000300984200021.
[259] 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, 78(8): 2991-2995, https://www.webofscience.com/wos/woscc/full-record/WOS:000302147300058.
[260] 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, 46(11): 5824-5833, http://dx.doi.org/10.1021/es300478j.
[261] Van Nostrand, Joy D, Wu, Liyou, Wu, WeiMin, Huang, Zhijian, Gentry, Terry J, Deng, Ye, Carley, Jack, Carroll, Sue, He, Zhili, Gu, Baohua, Luo, Jian, Criddle, Craig S, Watson, David B, Jardine, Philip M, Marsh, Terence L, Tiedje, James M, Hazen, Terry C, Zhou, Jizhong. Dynamics of Microbial Community Composition and Function during In Situ Bioremediation of a Uranium-Contaminated Aquifer. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2011, 77(11): 3860-3869, https://www.webofscience.com/wos/woscc/full-record/WOS:000290847800038.
[262] Zhou, Jizhong, Deng, Ye, Luo, Feng, He, Zhili, Yang, Yunfeng. Phylogenetic Molecular Ecological Network of Soil Microbial Communities in Response to Elevated CO2. MBIO[J]. 2011, 2(4): https://www.webofscience.com/wos/woscc/full-record/WOS:000296844000009.
[263] Hemme, Christopher L, Fields, Matthew W, He, Qiang, Deng, Ye, Lin, Lu, Tu, Qichao, Mouttaki, Housna, Zhou, Aifen, Feng, Xueyang, Zuo, Zheng, Ramsay, Bradley D, He, Zhili, Wu, Liyou, Van Nostrand, Joy, Xu, Jian, Tang, Yinjie J, Wiegel, Juergen, Phelps, Tommy J, Zhou, Jizhong. Correlation of Genomic and Physiological Traits of Thermoanaerobacter Species with Biofuel Yields. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2011, 77(22): 7998-8008, http://dx.doi.org/10.1128/AEM.05677-11.
[264] Zhou, Jizhong, Wu, Liyou, Deng, Ye, Zhi, Xiaoyang, Jiang, YiHuei, Tu, Qichao, Xie, Jianping, Van Nostrand, Joy D, He, Zhili, Yang, Yunfeng. Reproducibility and quantitation of amplicon sequencing-based detection. ISME JOURNAL[J]. 2011, 5(8): 1303-1313, http://dx.doi.org/10.1038/ismej.2011.11.
[265] Van Nostrand, Joy D, Wu, Liyou, Wu, WeiMin, Huang, Zhijian, Gentry, Terry J, Deng, Ye, Carley, Jack, Carroll, Sue, He, Zhili, Gu, Baohua, Luo, Jian, Criddle, Craig S, Watson, David B, Jardine, Philip M, Marsh, Terence L, Tiedje, James M, Hazen, Terry C, Zhou, Jizhong. Dynamics of Microbial Community Composition and Function during In Situ Bioremediation of a Uranium-Contaminated Aquifer (vol 77, pg 3860, 2011). APPLIED AND ENVIRONMENTAL MICROBIOLOGYnull. 2011, 77(14): 5063-5063, https://www.webofscience.com/wos/woscc/full-record/WOS:000292510400046.
[266] He, Zhili, Van Nostrand, Joy D, Deng, Ye, Zhou, Jizhong. Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities. FRONTIERS OF ENVIRONMENTAL SCIENCE & ENGINEERING IN CHINA[J]. 2011, 5(1): 1-20, https://www.webofscience.com/wos/woscc/full-record/WOS:000287753800001.
[267] 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, 77(3): 991-999, http://dx.doi.org/10.1128/AEM.01798-10.
[268] 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, 5(3): 403-413, https://www.webofscience.com/wos/woscc/full-record/WOS:000290021000004.
[269] Hazen, Terry C, Dubinsky, Eric A, DeSantis, Todd Z, Andersen, Gary L, Piceno, Yvette M, Singh, Navjeet, Jansson, Janet K, Probst, Alexander, Borglin, Sharon E, Fortney, Julian L, Stringfellow, William T, Bill, Markus, Conrad, Mark E, Tom, Lauren M, Chavarria, Krystle L, Alusi, Thana R, Lamendella, Regina, Joyner, Dominique C, Spier, Chelsea, Baelum, Jacob, Auer, Manfred, Zemla, Marcin L, Chakraborty, Romy, Sonnenthal, Eric L, Dhaeseleer, Patrik, Holman, HoiYing N, Osman, Shariff, Lu, Zhenmei, Van Nostrand, Joy D, Deng, Ye, Zhou, Jizhong, Mason, Olivia U. Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria. SCIENCE[J]. 2010, 330(6001): 204-208, https://www.webofscience.com/wos/woscc/full-record/WOS:000282644600037.
[270] Hemme, Christopher L, Deng, Ye, Gentry, Terry J, Fields, Matthew W, Wu, Liyou, Barua, Soumitra, Barry, Kerrie, Tringe, Susannah G, Watson, David B, He, Zhili, Hazen, Terry C, Tiedje, James M, Rubin, Edward M, Zhou, Jizhong. Metagenomic insights into evolution of a heavy metal-contaminated groundwater microbial community. ISME JOURNAL[J]. 2010, 4(5): 660-672, http://dx.doi.org/10.1038/ismej.2009.154.
[271] Zhou, Aifen, He, Zhili, ReddingJohanson, Alyssa M, Mukhopadhyay, Aindrila, Hemme, Christopher L, Joachimiak, Marcin P, Luo, Feng, Deng, Ye, Bender, Kelly S, He, Qiang, Keasling, Jay D, Stahl, David A, Fields, Matthew W, Hazen, Terry C, Arkin, Adam P, Wall, Judy D, Zhou, Jizhong. Hydrogen peroxide-induced oxidative stress responses in Desulfovibrio vulgaris Hildenborough. ENVIRONMENTAL MICROBIOLOGY[J]. 2010, 12(10): 2645-2657, https://www.webofscience.com/wos/woscc/full-record/WOS:000282375400002.
[272] Liang, Yuting, He, Zhili, Wu, Liyou, Deng, Ye, Li, Guanghe, Zhou, Jizhong. Development of a Common Oligonucleotide Reference Standard for Microarray Data Normalization and Comparison across Different Microbial Communities. APPLIED AND ENVIRONMENTAL MICROBIOLOGY[J]. 2010, 76(4): 1088-1094, https://www.webofscience.com/wos/woscc/full-record/WOS:000274328900014.
[273] 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, 76(23): 7843-7853, https://www.webofscience.com/wos/woscc/full-record/WOS:000284310500020.
[274] Jin, Qingchao, Chen, Baoshan, Li, Youzhi, Peng, Youliang, Deng, Ye, Dai, ChengEn, Luo, Hongmei, Zhao, Dong, Chen, Jack, Li, Debao, Dong, Haitao. Expression Profile During the Development of Appressoria Induced by Hydrophobic Surfaces in Magnaporthe grisea Y34. JOURNAL OF PHYTOPATHOLOGY[J]. 2010, 158(3): 143-153, http://dx.doi.org/10.1111/j.1439-0434.2009.01588.x.
[275] He, Zhili, Xu, Meiying, Deng, Ye, Kang, Sanghoon, Kellogg, Laurie, Wu, Liyou, Van Nostrand, Joy D, Hobbie, Sarah E, Reich, Peter B, Zhou, Jizhong. Metagenomic analysis reveals a marked divergence in the structure of belowground microbial communities at elevated CO2. ECOLOGY LETTERS[J]. 2010, 13(5): 564-575, https://www.webofscience.com/wos/woscc/full-record/WOS:000276790200005.
[276] Xu, Meiying, Wu, WeiMin, Wu, Liyou, He, Zhili, Van Nostrand, Joy D, Deng, Ye, Luo, Jian, Carley, Jack, GinderVogel, Matthew, Gentry, Terry J, Gu, Baouhua, Watson, David, Jardine, Philip M, Marsh, Terence L, Tiedje, James M, Hazen, Terry, Criddle, Craig S, Zhou, Jizhong. Responses of microbial community functional structures to pilot-scale uranium in situ bioremediation. ISME JOURNAL[J]. 2010, 4(8): 1060-1070, https://www.webofscience.com/wos/woscc/full-record/WOS:000280592600010.
[277] Wang, Aijie, Liu, Wenzong, Deng, Ye, Van Nostrand, Joy D, Zhou, Jizhong. Multiple community states of planktonic communities on functional gene structure in microbial electrolysis cell (MEC). JOURNAL OF BIOTECHNOLOGYnull. 2010, 150: S239-S240, http://dx.doi.org/10.1016/j.jbiotec.2010.09.097.
[278] Jizhong Zhou, Ye Deng, Feng Luo, Zhili He, Qichao Tu, Xiaoyang Zhi. Functional Molecular Ecological Networks. MBIO[J]. 2010, 1(4): https://www.webofscience.com/wos/woscc/full-record/WOS:000284718000013.
[279] He, Zhili, Deng, Ye, Van Nostrand, Joy D, Tu, Qichao, Xu, Meiying, Hemme, Christopher L, Li, Xingyuan, Wu, Liyou, Gentry, Terry J, Yin, Yifeng, Liebich, Jost, Hazen, Terry C, Zhou, Jizhong. GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity. ISME JOURNAL[J]. 2010, 4(9): 1167-1179, https://www.webofscience.com/wos/woscc/full-record/WOS:000281663700015.
[280] Liu, Wenzong, Wang, Aijie, Cheng, Shaoan, Logan, Bruce E, Yu, Hao, Deng, Ye, Van Nostrand, Joy D, Wu, Liyou, He, Zhili, Zhou, Jizhong. Geochip-Based Functional Gene Analysis of Anodophilic Communities in Microbial Electrolysis Cells under Different Operational Modes. ENVIRONMENTAL SCIENCE & TECHNOLOGY[J]. 2010, 44(19): 7729-7735, https://www.webofscience.com/wos/woscc/full-record/WOS:000282209700088.
[281] Van Nostrand, Joy D, Wu, WeiMin, Wu, Liyou, Deng, Ye, Carley, Jack, Carroll, Sue, He, Zhili, Gu, Baohua, Luo, Jian, Criddle, Craig S, Watson, David B, Jardine, Philip M, Marsh, Terence L, Tiedje, James M, Hazen, Terry C, Zhou, Jizhong. GeoChip-based analysis of functional microbial communities during the reoxidation of a bioreduced uranium-contaminated aquifer. ENVIRONMENTAL MICROBIOLOGY[J]. 2009, 11(10): 2611-2626, http://dx.doi.org/10.1111/j.1462-2920.2009.01986.x.
[282] Wang, Fengping, Zhou, Huaiyang, Meng, Jun, Peng, Xiaotong, Jiang, Lijing, Sun, Ping, Zhang, Chuanlun, Van Nostrand, Joy D, Deng, Ye, He, Zhili, Wu, Liyou, Zhou, Jizhong, Xiao, Xiang. GeoChip-based analysis of metabolic diversity of microbial communities at the Juan de Fuca Ridge hydrothermal vent. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA[J]. 2009, 106(12): 4840-4845, https://www.webofscience.com/wos/woscc/full-record/WOS:000264522600049.
[283] Deng, Ye, He, Zhili, Van Nostrand, Joy D, Zhou, Jizhong. Design and analysis of mismatch probes for long oligonucleotide microarrays. BMC GENOMICS[J]. 2008, 9(1): 491-491, https://www.webofscience.com/wos/woscc/full-record/WOS:000260680100003.
[284] Shang, Jinjie, Wu, Xiaosong, Lan, Xiuwan, Fan, Yunyan, Dong, Haitao, Deng, Ye, Nuss, Donald L, Chen, Baoshan. Large-scale expressed sequence tap analysis for the chestnut blight fungus Cryphonectria parasitica. FUNGAL GENETICS AND BIOLOGY[J]. 2008, 45(3): 319-327, http://dx.doi.org/10.1016/j.fgb.2007.11.002.
[285] Dong, Haitao, Deng, Ye, Chen, Jack, Wang, Sheng, Peng, Sihua, Dai, Chengen, Fang, Yongqi, Shao, Jing, Lou, Yichun, Li, Debao. An exploration of 3 '-end processing signals and their tissue distribution in Oryza sativa. GENE[J]. 2007, 389(2): 107-113, http://dx.doi.org/10.1016/j.gene.2006.10.015.
[286] 金庆超, 董海涛, 陈保善, 邓晔, 戴承恩, 方永启, 邵菁, 娄沂春, 李有志, 李德葆, 彭友良. 稻瘟病菌发育cDNA文库构建与表达序列标签分析. 农业生物技术学报[J]. 2006, 14(6): 963-969, http://sciencechina.cn/gw.jsp?action=detail.jsp&internal_id=2654803&detailType=1.
[287] 张海燕, 董海涛, 姚海根, 向跃武, 谭学林, 方永启, 邓晔, 金庆超, Cabezas DANIEL, 姜玉新, 戴承恩, 阎文昭, 李德葆. 冻融法纯化水稻胚乳RNA及稻米品质重要相关基因表达谱研究. 中国水稻科学[J]. 2005, 19(2): 105-110, http://lib.cqvip.com/Qikan/Article/Detail?id=15161897.
[288] 郭小勤, 董海涛, 郑康乐, 骆红梅, 谭学林, 方永启, 王炎钦, 邓晔, 戴承恩, 娄沂春, 邵菁, 史文琴, 赵东, 李德葆. 水稻光温敏核不育系培矮64S在不同光周期/温度下表达谱的变化. 科学通报[J]. 2005, 50(22): 2509-2513, http://lib.cqvip.com/Qikan/Article/Detail?id=20752603.
[289] 王丽华, 邓晔, 方永启, 谭学林, 李德葆. 水稻花期特异表达基因的cDNA和RNA阵列检测. 中国水稻科学[J]. 2004, 18(3): 192-198, http://lib.cqvip.com/Qikan/Article/Detail?id=9596080.
[290] Xiao Kong, Decai Jin, Shulan Jin, Zhigang Wang, Huaqun Yin, Meiying Xu, Ye Deng. Responses of bacterial community to dibutyl phthalate (DBP) pollution in a soil-vegetable ecosystem. JOURNAL OF HAZARDOUS MATERIALS. http://dx.doi.org/10.1016/j.jhazmat.2018.04.015.
[291] 分子生态网络分析研究进展. http://159.226.73.51/handle/332005/15646.
[292] Li, XiuTong, Huang, ZhongSheng, Huang, Ye, Jiang, Zhen, Liang, ZongLin, Yin, HuaQun, Zhang, GuangJi, Jia, Yan, Deng, Ye, Liu, ShuangJiang, Jiang, ChengYing. Responses of microbial community to geochemical parameters on vertical depth in bioheap system of low-grade copper sulfide. SCIENCE OF THE TOTAL ENVIRONMENT[J]. 869: 11-, http://dx.doi.org/10.1016/j.scitotenv.2023.161752.
发表著作
( 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

科研活动

   
科研项目
( 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
参与会议
(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

合作情况

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)

指导学生

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