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个人简历
教育经历
2007.09 - 2010.11，博士，德国科隆大学, 植物发育生物学
2005.09 - 2007.06，硕士，武汉大学
2001.09 - 2005.06，学士，武汉大学
2005.09 - 2007.06，硕士，武汉大学
2001.09 - 2005.06，学士，武汉大学
工作经历
2024.02 - 至今，长聘副教授，北京大学
2024.02 - 至今，研究员，北京大学生命科学学院
2016.05 - 2024.01，研究员，中国科学院遗传与发育生物学研究所
2016.05 - 2024.01，研究员，中国科学院-英国约翰英纳斯中心植物和微生物科学联合研究中心
2011.10 - 2016.04，博士后，德国马克斯普朗克植物育种研究所
2010.12 - 2011.09，博士后，德国科隆大学
2024.02 - 至今，研究员，北京大学生命科学学院
2016.05 - 2024.01，研究员，中国科学院遗传与发育生物学研究所
2016.05 - 2024.01，研究员，中国科学院-英国约翰英纳斯中心植物和微生物科学联合研究中心
2011.10 - 2016.04，博士后，德国马克斯普朗克植物育种研究所
2010.12 - 2011.09，博士后，德国科隆大学
荣誉奖励
第五届腾讯“科学探索奖”，2023
科睿唯安“全球高被引科学家” ，2022-2023
中国植物生理与植物分子生物学学会杰出青年科学家奖，2022
Rising Stars in Plant Science，2022
中组部“万人计划”领军人才，2020
科技部中青年科技创新领军人才，2019
国家海外高层次人才引进计划（青年项目），2017
科睿唯安“全球高被引科学家” ，2022-2023
中国植物生理与植物分子生物学学会杰出青年科学家奖，2022
Rising Stars in Plant Science，2022
中组部“万人计划”领军人才，2020
科技部中青年科技创新领军人才，2019
国家海外高层次人才引进计划（青年项目），2017
学术任职
2023-，中国微生物学会，微生物组专业委员会，副主任
2023-，中国植物营养与肥料学会，生物与有机肥料专业委员会，副主任
2022-，中国土壤学会，土壤生物和生化专业委员会，委员
2019-，中国植物生理与植物分子生物学学会植物微生物分子互作专业委员会，委员
2023-，中国植物营养与肥料学会，生物与有机肥料专业委员会，副主任
2022-，中国土壤学会，土壤生物和生化专业委员会，委员
2019-，中国植物生理与植物分子生物学学会植物微生物分子互作专业委员会，委员
杂志任职
2019-，New Phytologist，编委
2020-，Journal of Integrative Plant Biology，编委
2020-，Soil Ecology Letters，编委
2022-，mLife，编委
2020-，Journal of Integrative Plant Biology，编委
2020-，Soil Ecology Letters，编委
2022-，mLife，编委
会议发言与组织
2023, June 5–9, invited talk, 33rd International Conference on Arabidopsis Research, Chiba, Japan
2022, November 4, invited talk, International workshop “Unveiling the secret of underground: technologies for visualizing root and rhizosphere”, Japan, online
2022, May 19, Invited talk, University of Amsterdam, Netherland, online
2021, December 1–2, Moderator, IS-MPMI eSymposia, USA, online
2021, May 24–28, Keynote talk, 11rd Symposium of the International Society of Root Research, Missouri, USA, online
2021, February 3, Invited talk, John Innes Center, Norwich, UK, online
2020, December 2–4, Invited talk, 43rd Annual Meeting of the Molecular Biology Society of Japan, Japan, online
2019, October 11–14, Invited talk, National Congress of Plant Biology, Chengdu, China
2019, October 27–30, Invited talk, 11th Annual Meeting of Crop Research, Hangzhou, China
2019, October 4–6, Invited talk, 3rd International Conference on Plant Synthetic Biology, Bioengineering and Biotechnology, Cambridge, UK
2019, August 6–9, Invited talk, Annual Meeting of Plant Nutrition and Fertilization, Chongqing, China
2019, July 5–8, Invited talk, Annual Meeting of Plant Physiology and Molecular Biology, Jiangxi, China
2019, June 16–21, Invited talk, 30rd International Conference on Arabidopsis Research, Wuhan, China
2019, June 2–5, Invited talk, 1st International Forum on Crop Science, Wuhan, China
2018, October 2, Invited talk, Max Planck Institute for Plant Breeding Research, Cologne, Germany
2018, September 24–28, Co-organizer, First Sino-German Symposium on Plant Health and Microbiomics, Wuhan, China
2017, November 27–29, Plenary talk, 2017 mBiome International Conference, Seoul, Korea
2017, July 23–29, Invited talk, International Botanic Congress, Shenzhen, China
2022, November 4, invited talk, International workshop “Unveiling the secret of underground: technologies for visualizing root and rhizosphere”, Japan, online
2022, May 19, Invited talk, University of Amsterdam, Netherland, online
2021, December 1–2, Moderator, IS-MPMI eSymposia, USA, online
2021, May 24–28, Keynote talk, 11rd Symposium of the International Society of Root Research, Missouri, USA, online
2021, February 3, Invited talk, John Innes Center, Norwich, UK, online
2020, December 2–4, Invited talk, 43rd Annual Meeting of the Molecular Biology Society of Japan, Japan, online
2019, October 11–14, Invited talk, National Congress of Plant Biology, Chengdu, China
2019, October 27–30, Invited talk, 11th Annual Meeting of Crop Research, Hangzhou, China
2019, October 4–6, Invited talk, 3rd International Conference on Plant Synthetic Biology, Bioengineering and Biotechnology, Cambridge, UK
2019, August 6–9, Invited talk, Annual Meeting of Plant Nutrition and Fertilization, Chongqing, China
2019, July 5–8, Invited talk, Annual Meeting of Plant Physiology and Molecular Biology, Jiangxi, China
2019, June 16–21, Invited talk, 30rd International Conference on Arabidopsis Research, Wuhan, China
2019, June 2–5, Invited talk, 1st International Forum on Crop Science, Wuhan, China
2018, October 2, Invited talk, Max Planck Institute for Plant Breeding Research, Cologne, Germany
2018, September 24–28, Co-organizer, First Sino-German Symposium on Plant Health and Microbiomics, Wuhan, China
2017, November 27–29, Plenary talk, 2017 mBiome International Conference, Seoul, Korea
2017, July 23–29, Invited talk, International Botanic Congress, Shenzhen, China
科研领域描述
白洋实验室致力于研究微生物组与宿主的良性互作机制，重点关注非模式微生物。这些非模式微生物在微生物组中占据绝大多数，与宿主形成良性互作关系，对宿主的生长与健康至关重要。然而，我们对他们的了解非常有限。实验室的研究方向主要包括：
研究方向一：运用微生物组学数据分析、微生物高通量培养和分子遗传学技术，探索根际微生物组对水稻、拟南芥等植物生长与健康所起的作用，以及其潜在的分子机制。
研究方向二：基于微生物基因组和宏基因组资源，高效挖掘微生物中尚未被发现的暗物质，探索全新的生物学过程及其在实际应用中的潜力。
研究方向三：结合微生物分子遗传学和生物信息学等方法，开发推动微生物组领域发展的关键技术。
研究方向一：运用微生物组学数据分析、微生物高通量培养和分子遗传学技术，探索根际微生物组对水稻、拟南芥等植物生长与健康所起的作用，以及其潜在的分子机制。
研究方向二：基于微生物基因组和宏基因组资源，高效挖掘微生物中尚未被发现的暗物质，探索全新的生物学过程及其在实际应用中的潜力。
研究方向三：结合微生物分子遗传学和生物信息学等方法，开发推动微生物组领域发展的关键技术。
代表性论文
代表性论文：
1.Shouyue Zhang#, Ao Sun#, Jing-Mei Qian#, Shuo Lin#, Wenjing Xing, Yun Yang, Han-Zhou Zhu, Xin-Yi Zhou, Yan-Shuo Guo, Yun Liu, Yu Meng, Shu-Lin Jin, Wenhao Song, Cheng-Ping Li, Zhaofu Li1, Shuai Jin, Jian-Hua Wang, Meng-Qiu Dong, Caixia Gao, Chunlai Chen*, Yang Bai*, Jun-Jie Gogo Liu*. (2024). Pro-CRISPR PcrIIC1 associated Cas9 system for enhanced bacterial immunity. Nature, 630: 484–492.
2.Jingying Zhang, Weidong Liu, Jingshu Bu, Yanbing Lin, Yang Bai*. (2023). Host genetics regulate the plant microbiome. Current Opinion in Microbiology, 72:102268.
3.Sunde Xu#, Yong-Xin Liu#, Tomislav Cernava#, Hongkai Wang, Yaqi Zhou, Tie Xia, Shugeng Cao, Gabriele Berg, Xing-Xing Shen, Ziyue Wen, Chunshun Li, Baoyuan Qu, Hefei Ruan, Yunrong Chai, Xueping Zhou, Zhonghua Ma, Yan Shi, Yunlong Yu*, Yang Bai*, Yun Chen*. (2022). Fusarium fruiting body microbiome member Pantoea agglomerans inhibits fungal pathogenesis by targeting lipid rafts. Nature Microbiology, 7: 831–843.
4.Bo Bai, Weidong Liu, Xingyu Qiu, Jie Zhang, Jingying Zhang*, Yang Bai*. (2022). The root microbiome: Community assembly and its contributions to plant fitness. Journal of Integrative Plant Biology, 64: 230–243.
5.Jingying Zhang#, Yong-Xin Liu#, Xiaoxuan Guo, Yuan Qin, Ruben Garrido-Oter*, Paul Schulze-Lefert*, Yang Bai*. (2021). High-throughput cultivation and identification of bacteria from the plant root microbiota. Nature Protocols, 16: 988–1012.
6.Yong-Xin Liu#*, Yuan Qin#, Tong Chen#, Meiping Lu, Xubo Qian, Xiaoxuan Guo, Yang Bai*. (2021). A practical guide to amplicon and metagenomic analysis of microbiome data. Protein Cell, 12: 315–330.
7.Jingying Zhang#, Yong-Xin Liu#, Na Zhang#, Bin Hu#, Tao Jin#, Haoran Xu, Yuan Qin, Pengxu Yan, Xiaoning Zhang, Xiaoxuan Guo, Jing Hui, Shouyun Cao, Xin Wang, Chao Wang, Hui Wang, Baoyuan Qu, Guangyi Fan, Lixing Yuan, Ruben Garrido-Oter, Chengcai Chu*, Yang Bai*. (2019). NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice. Nature Biotechnology, 37: 676–684.
8.Ancheng C. Huang#, Ting Jiang#, Yong-Xin Liu, Yue-Chen Bai, James Reed, Baoyuan Qu, Alain Goossens, Hans-Wilhelm Nützmann, Yang Bai*, Anne Osbourn*. (2019). A specialized metabolic network selectively modulates Arabidopsis root microbiota. Science, 364: eaau6389.
9.Yong-Xin Liu, Yuan Qin, Yang Bai*. (2019). Reductionist synthetic community approaches in root microbiome research. Current Opinion in Microbiology, 49: 97–102.
10.Qingwen Chen#, Ting Jiang#, Yong-Xin Liu, Haili Liu, Tao Zhao, Zhixi Liu, Xiaochao Gan, Asis Hallab, Xuemei Wang, Juan He, Yihua Ma, Fengxia Zhang, Tao Jin, M.Eric Schranz, Yong Wang, Yang Bai*, Guodong Wang*. (2019). Recently duplicated sesterterpene (C25) gene clusters in Arabidopsis thaliana modulate root microbiota. Science China Life Sciences, 62: 947–958.
11.Jingying Zhang#, Na Zhang#, Yong-Xin Liu#, Xiaoning Zhang, Bin Hu, Yuan Qin, Haoran Xu, Hui Wang, Xiaoxuan Guo, Jingmei Qian, Wei Wang, Pengfan Zhang, Tao Jin*, Chengcai Chu*, Yang Bai*. (2018). Root microbiota shift in rice correlates with resident time in the field and developmental stage. Science China Life Sciences, 61: 613–621.
12.Yang Bai#, Daniel Müller#, Girish Srinivas#, Ruben Garrido-Oter#, Eva Potthoff, Matthias Rott, Nina Dombrowski, Philipp Münch, Stijn Spaepen, Mitja Remus-Emsermann, Bruno Hüttel, Alice McHardy, Julia Vorholt*, Paul Schulze-Lefert*. (2015). Functional overlap of the Arabidopsis leaf and root microbiota. Nature, 528: 364–369.
其他论文：
1.Yanjun Li, Cunhu Wang, Lei Zheng, Wenjing Ma, Mingjia Li, Zilong Guo, Qingsong Zhao, Kefei Zhang, Ran Liu, Yucheng Liu, Zhixi Tian, Yang Bai, Yongjia Zhong, Hong Liao. (2023). Natural variation of GmRj2/Rfg1 determines symbiont differentiation in soybean. Current Biology, 33:2478-2490.e5.
2.Xuhui Deng, Na Zhang, Yuchan Li, Chengzhi Zhu, Baoyuan Qu, Hongjun Liu, Rong Li*, Yang Bai, Qirong Shen, Joana Falcao Salles. (2022). Bio-organic soil amendment promotes the suppression of Ralstonia solanacearum by inducing changes in the functionality and composition of rhizosphere bacterial communities. New Phytologist, 235: 1558–1574.
3.Kunkun Fan, Hannah Holland-Moritz, Corinne Walsh, Xisheng Guo, Daozhong Wang, Yang Bai, Yong-guan Zhu, Noah Fierer, Haiyan Chu. (2022). Identification of the rhizosphere microbes that actively consume plant-derived carbon. Soil Biology and Biochemistry, 166: 108577.
4.Jing-Mei Qian & Yang Bai*. (2021). Stuck on you: Bacterial-auxin-mediated bacterial colonization of plant roots. Cell Host & Microbe, 29: 1471–1473.
5.Zhiyao Lv#, Rui Dai#, Haoran Xu#, Yongxin Liu, Bo Bai, Ying Meng, Haiyan Li, Xiaofeng Cao*, Yang Bai*, Xianwei Song*, Jingying Zhang*. (2021). The rice histone methylation regulates hub species of the root microbiota. Journal of Genetics and Genomics, 48: 836–843.
6.Pengfan Zhang, Stjin Spaepen, Yang Bai, Stephane Hacquard, Ruben Garrido-Oter. (2021). Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities. ISME Communications, 1: 73.
7.Baoyuan Qu, Yuan Qin, Yang Bai*. (2020). From signaling to function: how strigolactones regulate plant development. Science China Life Sciences, 63: 1768–1770.
8.Xiaoxuan Guo#, Xiaoning Zhang#, Yuan Qin#, Yong-Xin Liu, Jingying Zhang, Na Zhang, Kun Wu, Baoyuan Qu, Zishan He, Xin Wang, Xinjian Zhang, Stéphane Hacquard, Xiangdong Fu*, Yang Bai*. (2020). Host-associated quantitative abundance profiling reveals the microbial load variation of root microbiome. Plant Communications, 1: 100003.
9.Qin Han, Qun Ma, Yong Chen, Bing Tian, Lanxi Xu, Yang Bai*, Wenfeng Chen*, Xia Li*. (2020). Variation in rhizosphere microbial communities and its association with the symbiotic efficiency of rhizobia in soybean. The ISME Journal, 14: 1915–1928.
10.Wei Wang#, Jing Yang#, Jian Zhang, Yong-Xin Liu, Caiping Tian, Baoyuan Qu, Chulei Gao, Peiyong Xin, Shujing Cheng, Wenjing Zhang, Pei Miao, Lei Li, Xiaojuan Zhang, Jinfang Chu, Jianru Zuo, Jiayang Li, Yang Bai, Xiaoguang Lei*, Jian-Min Zhou*. (2020). An Arabidopsis secondary metabolite directly targets expression of the bacterial type III secretion system to inhibit bacterial virulence. Cell Host & Microbe, 27: 601–613.
11.Evan Bolyen#, Jai Ram Rideout#, Matthew R. Dillon#, Nicholas A. Bokulich#, Christian C. Abnet, Gabriel A. Al-Ghalith, Harriet Alexander, Eric J. Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E. Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J. Brislawn, C. Titus Brown, Benjamin J. Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily K. Cope, Ricardo Da Silva, Christian Diener, Pieter C. Dorrestein, Gavin M. Douglas, Daniel M. Durall, Claire Duvallet, Christian F. Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M. Gauglitz, Sean M. Gibbons, Deanna L. Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin A. Huttley, Stefan Janssen, Alan K. Jarmusch, Lingjing Jiang, Benjamin D. Kaehler, Kyo Bin Kang, Christopher R. Keefe, Paul Keim, Scott T. Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G. I. Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D. Martin, Daniel McDonald, Lauren J. McIver, Alexey V. Melnik, Jessica L. Metcalf, Sydney C. Morgan, Jamie T. Morton, Ahmad Turan Naimey, Jose A. Navas-Molina, Louis Felix Nothias, Stephanie B. Orchanian, Talima Pearson, Samuel L. Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S. Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R. Spear, Austin D. Swafford, Luke R. Thompson, Pedro J. Torres, Pauline Trinh, Anupriya Tripathi, Peter J. Turnbaugh, Sabah Ul-Hasan, Justin J. J. van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C. Weber, Charles H. D. Williamson, Amy D. Willis, Zhenjiang Zech Xu, Jesse R. Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J. Gregory Caporaso*. (2019). Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology, 37: 852–857.
12.Mathias J. E. E. E. Voges, Yang Bai, Paul Schulze-Lefert, Elizabeth S. Sattely*. (2019). Plant-derived coumarins shape the composition of an Arabidopsis synthetic root microbiome. PNAS. 116: 12558–12565.
13.Chunlei Zhang, Youming Zhang, Zhaojun Ding*, Yang Bai*. (2019). Contribution of microbial inter-kingdom balance to plant health. Molecular Plant, 12: 148–149.
14.Kabin Xie*, Liang Guo, Yang Bai, Wende Liu, Jianbing Yan, Marcel Bucher*. (2019). Microbiomics and plant health: an interdisciplinary and international workshop on the plant microbiome. Molecular Plant, 12: 1–3.
15.Jun Yuan, Jun Zhao, Tao Wen, Mengli Zhao, Rong Li, Pim Goossens, Qiwei Huang, Yang Bai, Jorge M. Vivanco, George A. Kowalchuk, Roeland L. Berendsen, Qirong Shen*. (2018). Root exudates drive the soil-borne legacy of aboveground pathogen infection. Microbiome, 6: 156.
16.Hirokazu Toju*, Kabir G. Peay, Masato Yamamichi, Kazuhiko Narisawa, Kei Hiruma, Ken Naito, Shinji Fukuda, Masayuki Ushio, Shinji Nakaoka, Yusuke Onoda, Kentaro Yoshida, Klaus Schlaeppi, Yang Bai, Ryo Sugiura, Yasunori Ichihashi, Kiwamu Minamisawa, E. Toby Kiers. (2018). Core microbiomes for sustainable agroecosystems. Nature Plants, 4: 247–257.
17.Kunkun Fan, Pamela Weisenhorn, Jack A Gilbert, Yu Shi, Yang Bai, Haiyan Chu*. (2018). Soil pH correlates with the co-occurrence and assemblage process of diazotrophic communities in rhizosphere and bulk soils of wheat fields. Soil Biology and Biochemistry, 121: 185–192.
18.Wei Wang#, Bin Hu#, Dingyang Yuan, Yongqiang Liu, Ronghui Che, Yingchun Hu, Shujun Ou, Zhihua Zhang, Hongru Wang, Hua Li, Zhimin Jiang, Zhengli Zhang, Xiaokai Gao, Yahong Qiu, Xiangbing Meng, Yong-Xin Liu, Yang Bai, Yan Liang, Yi-Qin Wang, Lianhe Zhang, Legong Li, Sodmergen Sodmergen, Hai-Chun Jing, Jiayang Li, Chengcai Chu*. (2018). Expression of the nitrate transporter gene OsNRT1.1A/OsNPF6.3 confers high yield and early maturation in rice. The Plant Cell, 30: 638–651.
19.Alexander Sczyrba#*, Peter Hofmann#, Peter Belmann#, David Koslicki, Stefan Janssen, Johannes Dröge, Ivan Gregor, Stephan Majda, Jessika Fiedler, Eik Dahms, Andreas Bremges, Adrian Fritz, Ruben Garrido-Oter, Tue Sparholt Jørgensen, Nicole Shapiro, Philip D. Blood, Alexey Gurevich, Yang Bai, Dmitrij Turaev, Matthew Z. DeMaere, Rayan Chikhi, Niranjan Nagarajan, Christopher Quince, Fernando Meyer, Monika Balvočiūtė, Lars Hestbjerg Hansen, Søren J. Sørensen, Burton K. H. Chia, Bertrand Denis, Jeff L. Froula, Zhong Wang, Robert Egan, Dongwan Don Kang, Jeffrey J. Cook, Charles Deltel, Michael Beckstette, Claire Lemaitre, Pierre Peterlongo, Guillaume Rizk, Dominique Lavenier, Yu-Wei Wu, Steven W. Singer, Chirag Jain, Marc Strous, Heiner Klingenberg, Peter Meinicke, Michael D. Barton, Thomas Lingner, Hsin-Hung Lin, Yu-Chieh Liao, Genivaldo Gueiros Z. Silva, Daniel A. Cuevas, Robert A. Edwards, Surya Saha, Vitor C. Piro, Bernhard Y. Renard, Mihai Pop, Hans-Peter Klenk, Markus Göker, Nikos C. Kyrpides, Tanja Woyke, Julia A. Vorholt, Paul Schulze-Lefert, Edward M. Rubin, Aaron E. Darling, Thomas Rattei, Alice C. McHardy*. (2017). Critical assessment of metagenome interpretation—a benchmark of metagenomics software. Nature Methods, 14: 1063.
20.Tao Jin#, Yayu Wang#, Yueying Huang#, Jin Xu#, Pengfan Zhang, Nian Wang, Xin Liu, Haiyan Chu, Guang Liu, Honggang Jiang, Yuzhen Li, Jing Xu, Karsten Kristiansen, Liang Xiao, Yunzeng Zhang, Gengyun Zhang, Guohua Du, Houbao Zhang, Hongfeng Zou, Haifeng Zhang, Zhuye Jie, Suisha Liang, Huijue Jia, Jingwang Wan, Dechun Lin, Jinying Li, Guangyi Fan, Huanming Yang, Jian Wang, Yang Bai*, Xun Xu*. (2017). Taxonomic structure and functional association of foxtail millet root microbiome. GigaScience, 6: 1–12.
21.Shujuan Tian#, Jingjing Wu#, Fen Li, Jianwei Zou, Yuwen Liu, Bing Zhou, Yang Bai, Meng-Xiang Sun*. (2016). NtKRP, a kinesin-12 protein, regulates embryo/seed size and seed germination via involving in cell cycle progression at the G2/M transition. Scientific Reports, 6: 35641.
22.Daniel B. Müller, Christine Vogel, Yang Bai, Julia A. Vorholt*. (2016). The plant microbiota: systems-level insights and perspectives. Annual Review of Genetics, 50: 211–234.
23.Christos Zamioudis, Jolanda Korteland, Johan A. Van Pelt, Muriël van Hamersveld, Nina Dombrowski, Yang Bai, Johannes Hanson, Marcel C. Van Verk, Hong-Qing Ling, Paul Schulze-Lefert & Corné M. J. Pieterse. (2015). Rhizobacterial volatiles and photosynthesis-related signals coordinate MYB72 expression in Arabidopsis roots during onset of induced systemic resistance and iron-deficiency responses. The Plant Journal, 84: 309-322.
24.Yang Bai, Prasad Vaddepalli, Lynette Fulton, Hemal Bhasin, Martin Hülskamp & Kay Schneitz. (2013). ANGUSTIFOLIA is a central component of tissue morphogenesis mediated by the atypical receptor-like kinase STRUBBELIG. BMC Plant Biology, 13: 16.
25.Yang Bai, Stefanie Falk, Arp Schnittger, Marc J. Jakoby & Martin Hülskamp. (2010). Tissue layer specific regulation of leaf length and width in Arabidopsis as revealed by the cell autonomous action of ANGUSTIFOLIA. The Plant Journal 61: 191–199.
1.Shouyue Zhang#, Ao Sun#, Jing-Mei Qian#, Shuo Lin#, Wenjing Xing, Yun Yang, Han-Zhou Zhu, Xin-Yi Zhou, Yan-Shuo Guo, Yun Liu, Yu Meng, Shu-Lin Jin, Wenhao Song, Cheng-Ping Li, Zhaofu Li1, Shuai Jin, Jian-Hua Wang, Meng-Qiu Dong, Caixia Gao, Chunlai Chen*, Yang Bai*, Jun-Jie Gogo Liu*. (2024). Pro-CRISPR PcrIIC1 associated Cas9 system for enhanced bacterial immunity. Nature, 630: 484–492.
2.Jingying Zhang, Weidong Liu, Jingshu Bu, Yanbing Lin, Yang Bai*. (2023). Host genetics regulate the plant microbiome. Current Opinion in Microbiology, 72:102268.
3.Sunde Xu#, Yong-Xin Liu#, Tomislav Cernava#, Hongkai Wang, Yaqi Zhou, Tie Xia, Shugeng Cao, Gabriele Berg, Xing-Xing Shen, Ziyue Wen, Chunshun Li, Baoyuan Qu, Hefei Ruan, Yunrong Chai, Xueping Zhou, Zhonghua Ma, Yan Shi, Yunlong Yu*, Yang Bai*, Yun Chen*. (2022). Fusarium fruiting body microbiome member Pantoea agglomerans inhibits fungal pathogenesis by targeting lipid rafts. Nature Microbiology, 7: 831–843.
4.Bo Bai, Weidong Liu, Xingyu Qiu, Jie Zhang, Jingying Zhang*, Yang Bai*. (2022). The root microbiome: Community assembly and its contributions to plant fitness. Journal of Integrative Plant Biology, 64: 230–243.
5.Jingying Zhang#, Yong-Xin Liu#, Xiaoxuan Guo, Yuan Qin, Ruben Garrido-Oter*, Paul Schulze-Lefert*, Yang Bai*. (2021). High-throughput cultivation and identification of bacteria from the plant root microbiota. Nature Protocols, 16: 988–1012.
6.Yong-Xin Liu#*, Yuan Qin#, Tong Chen#, Meiping Lu, Xubo Qian, Xiaoxuan Guo, Yang Bai*. (2021). A practical guide to amplicon and metagenomic analysis of microbiome data. Protein Cell, 12: 315–330.
7.Jingying Zhang#, Yong-Xin Liu#, Na Zhang#, Bin Hu#, Tao Jin#, Haoran Xu, Yuan Qin, Pengxu Yan, Xiaoning Zhang, Xiaoxuan Guo, Jing Hui, Shouyun Cao, Xin Wang, Chao Wang, Hui Wang, Baoyuan Qu, Guangyi Fan, Lixing Yuan, Ruben Garrido-Oter, Chengcai Chu*, Yang Bai*. (2019). NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice. Nature Biotechnology, 37: 676–684.
8.Ancheng C. Huang#, Ting Jiang#, Yong-Xin Liu, Yue-Chen Bai, James Reed, Baoyuan Qu, Alain Goossens, Hans-Wilhelm Nützmann, Yang Bai*, Anne Osbourn*. (2019). A specialized metabolic network selectively modulates Arabidopsis root microbiota. Science, 364: eaau6389.
9.Yong-Xin Liu, Yuan Qin, Yang Bai*. (2019). Reductionist synthetic community approaches in root microbiome research. Current Opinion in Microbiology, 49: 97–102.
10.Qingwen Chen#, Ting Jiang#, Yong-Xin Liu, Haili Liu, Tao Zhao, Zhixi Liu, Xiaochao Gan, Asis Hallab, Xuemei Wang, Juan He, Yihua Ma, Fengxia Zhang, Tao Jin, M.Eric Schranz, Yong Wang, Yang Bai*, Guodong Wang*. (2019). Recently duplicated sesterterpene (C25) gene clusters in Arabidopsis thaliana modulate root microbiota. Science China Life Sciences, 62: 947–958.
11.Jingying Zhang#, Na Zhang#, Yong-Xin Liu#, Xiaoning Zhang, Bin Hu, Yuan Qin, Haoran Xu, Hui Wang, Xiaoxuan Guo, Jingmei Qian, Wei Wang, Pengfan Zhang, Tao Jin*, Chengcai Chu*, Yang Bai*. (2018). Root microbiota shift in rice correlates with resident time in the field and developmental stage. Science China Life Sciences, 61: 613–621.
12.Yang Bai#, Daniel Müller#, Girish Srinivas#, Ruben Garrido-Oter#, Eva Potthoff, Matthias Rott, Nina Dombrowski, Philipp Münch, Stijn Spaepen, Mitja Remus-Emsermann, Bruno Hüttel, Alice McHardy, Julia Vorholt*, Paul Schulze-Lefert*. (2015). Functional overlap of the Arabidopsis leaf and root microbiota. Nature, 528: 364–369.
其他论文：
1.Yanjun Li, Cunhu Wang, Lei Zheng, Wenjing Ma, Mingjia Li, Zilong Guo, Qingsong Zhao, Kefei Zhang, Ran Liu, Yucheng Liu, Zhixi Tian, Yang Bai, Yongjia Zhong, Hong Liao. (2023). Natural variation of GmRj2/Rfg1 determines symbiont differentiation in soybean. Current Biology, 33:2478-2490.e5.
2.Xuhui Deng, Na Zhang, Yuchan Li, Chengzhi Zhu, Baoyuan Qu, Hongjun Liu, Rong Li*, Yang Bai, Qirong Shen, Joana Falcao Salles. (2022). Bio-organic soil amendment promotes the suppression of Ralstonia solanacearum by inducing changes in the functionality and composition of rhizosphere bacterial communities. New Phytologist, 235: 1558–1574.
3.Kunkun Fan, Hannah Holland-Moritz, Corinne Walsh, Xisheng Guo, Daozhong Wang, Yang Bai, Yong-guan Zhu, Noah Fierer, Haiyan Chu. (2022). Identification of the rhizosphere microbes that actively consume plant-derived carbon. Soil Biology and Biochemistry, 166: 108577.
4.Jing-Mei Qian & Yang Bai*. (2021). Stuck on you: Bacterial-auxin-mediated bacterial colonization of plant roots. Cell Host & Microbe, 29: 1471–1473.
5.Zhiyao Lv#, Rui Dai#, Haoran Xu#, Yongxin Liu, Bo Bai, Ying Meng, Haiyan Li, Xiaofeng Cao*, Yang Bai*, Xianwei Song*, Jingying Zhang*. (2021). The rice histone methylation regulates hub species of the root microbiota. Journal of Genetics and Genomics, 48: 836–843.
6.Pengfan Zhang, Stjin Spaepen, Yang Bai, Stephane Hacquard, Ruben Garrido-Oter. (2021). Rbec: a tool for analysis of amplicon sequencing data from synthetic microbial communities. ISME Communications, 1: 73.
7.Baoyuan Qu, Yuan Qin, Yang Bai*. (2020). From signaling to function: how strigolactones regulate plant development. Science China Life Sciences, 63: 1768–1770.
8.Xiaoxuan Guo#, Xiaoning Zhang#, Yuan Qin#, Yong-Xin Liu, Jingying Zhang, Na Zhang, Kun Wu, Baoyuan Qu, Zishan He, Xin Wang, Xinjian Zhang, Stéphane Hacquard, Xiangdong Fu*, Yang Bai*. (2020). Host-associated quantitative abundance profiling reveals the microbial load variation of root microbiome. Plant Communications, 1: 100003.
9.Qin Han, Qun Ma, Yong Chen, Bing Tian, Lanxi Xu, Yang Bai*, Wenfeng Chen*, Xia Li*. (2020). Variation in rhizosphere microbial communities and its association with the symbiotic efficiency of rhizobia in soybean. The ISME Journal, 14: 1915–1928.
10.Wei Wang#, Jing Yang#, Jian Zhang, Yong-Xin Liu, Caiping Tian, Baoyuan Qu, Chulei Gao, Peiyong Xin, Shujing Cheng, Wenjing Zhang, Pei Miao, Lei Li, Xiaojuan Zhang, Jinfang Chu, Jianru Zuo, Jiayang Li, Yang Bai, Xiaoguang Lei*, Jian-Min Zhou*. (2020). An Arabidopsis secondary metabolite directly targets expression of the bacterial type III secretion system to inhibit bacterial virulence. Cell Host & Microbe, 27: 601–613.
11.Evan Bolyen#, Jai Ram Rideout#, Matthew R. Dillon#, Nicholas A. Bokulich#, Christian C. Abnet, Gabriel A. Al-Ghalith, Harriet Alexander, Eric J. Alm, Manimozhiyan Arumugam, Francesco Asnicar, Yang Bai, Jordan E. Bisanz, Kyle Bittinger, Asker Brejnrod, Colin J. Brislawn, C. Titus Brown, Benjamin J. Callahan, Andrés Mauricio Caraballo-Rodríguez, John Chase, Emily K. Cope, Ricardo Da Silva, Christian Diener, Pieter C. Dorrestein, Gavin M. Douglas, Daniel M. Durall, Claire Duvallet, Christian F. Edwardson, Madeleine Ernst, Mehrbod Estaki, Jennifer Fouquier, Julia M. Gauglitz, Sean M. Gibbons, Deanna L. Gibson, Antonio Gonzalez, Kestrel Gorlick, Jiarong Guo, Benjamin Hillmann, Susan Holmes, Hannes Holste, Curtis Huttenhower, Gavin A. Huttley, Stefan Janssen, Alan K. Jarmusch, Lingjing Jiang, Benjamin D. Kaehler, Kyo Bin Kang, Christopher R. Keefe, Paul Keim, Scott T. Kelley, Dan Knights, Irina Koester, Tomasz Kosciolek, Jorden Kreps, Morgan G. I. Langille, Joslynn Lee, Ruth Ley, Yong-Xin Liu, Erikka Loftfield, Catherine Lozupone, Massoud Maher, Clarisse Marotz, Bryan D. Martin, Daniel McDonald, Lauren J. McIver, Alexey V. Melnik, Jessica L. Metcalf, Sydney C. Morgan, Jamie T. Morton, Ahmad Turan Naimey, Jose A. Navas-Molina, Louis Felix Nothias, Stephanie B. Orchanian, Talima Pearson, Samuel L. Peoples, Daniel Petras, Mary Lai Preuss, Elmar Pruesse, Lasse Buur Rasmussen, Adam Rivers, Michael S. Robeson, Patrick Rosenthal, Nicola Segata, Michael Shaffer, Arron Shiffer, Rashmi Sinha, Se Jin Song, John R. Spear, Austin D. Swafford, Luke R. Thompson, Pedro J. Torres, Pauline Trinh, Anupriya Tripathi, Peter J. Turnbaugh, Sabah Ul-Hasan, Justin J. J. van der Hooft, Fernando Vargas, Yoshiki Vázquez-Baeza, Emily Vogtmann, Max von Hippel, William Walters, Yunhu Wan, Mingxun Wang, Jonathan Warren, Kyle C. Weber, Charles H. D. Williamson, Amy D. Willis, Zhenjiang Zech Xu, Jesse R. Zaneveld, Yilong Zhang, Qiyun Zhu, Rob Knight, J. Gregory Caporaso*. (2019). Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology, 37: 852–857.
12.Mathias J. E. E. E. Voges, Yang Bai, Paul Schulze-Lefert, Elizabeth S. Sattely*. (2019). Plant-derived coumarins shape the composition of an Arabidopsis synthetic root microbiome. PNAS. 116: 12558–12565.
13.Chunlei Zhang, Youming Zhang, Zhaojun Ding*, Yang Bai*. (2019). Contribution of microbial inter-kingdom balance to plant health. Molecular Plant, 12: 148–149.
14.Kabin Xie*, Liang Guo, Yang Bai, Wende Liu, Jianbing Yan, Marcel Bucher*. (2019). Microbiomics and plant health: an interdisciplinary and international workshop on the plant microbiome. Molecular Plant, 12: 1–3.
15.Jun Yuan, Jun Zhao, Tao Wen, Mengli Zhao, Rong Li, Pim Goossens, Qiwei Huang, Yang Bai, Jorge M. Vivanco, George A. Kowalchuk, Roeland L. Berendsen, Qirong Shen*. (2018). Root exudates drive the soil-borne legacy of aboveground pathogen infection. Microbiome, 6: 156.
16.Hirokazu Toju*, Kabir G. Peay, Masato Yamamichi, Kazuhiko Narisawa, Kei Hiruma, Ken Naito, Shinji Fukuda, Masayuki Ushio, Shinji Nakaoka, Yusuke Onoda, Kentaro Yoshida, Klaus Schlaeppi, Yang Bai, Ryo Sugiura, Yasunori Ichihashi, Kiwamu Minamisawa, E. Toby Kiers. (2018). Core microbiomes for sustainable agroecosystems. Nature Plants, 4: 247–257.
17.Kunkun Fan, Pamela Weisenhorn, Jack A Gilbert, Yu Shi, Yang Bai, Haiyan Chu*. (2018). Soil pH correlates with the co-occurrence and assemblage process of diazotrophic communities in rhizosphere and bulk soils of wheat fields. Soil Biology and Biochemistry, 121: 185–192.
18.Wei Wang#, Bin Hu#, Dingyang Yuan, Yongqiang Liu, Ronghui Che, Yingchun Hu, Shujun Ou, Zhihua Zhang, Hongru Wang, Hua Li, Zhimin Jiang, Zhengli Zhang, Xiaokai Gao, Yahong Qiu, Xiangbing Meng, Yong-Xin Liu, Yang Bai, Yan Liang, Yi-Qin Wang, Lianhe Zhang, Legong Li, Sodmergen Sodmergen, Hai-Chun Jing, Jiayang Li, Chengcai Chu*. (2018). Expression of the nitrate transporter gene OsNRT1.1A/OsNPF6.3 confers high yield and early maturation in rice. The Plant Cell, 30: 638–651.
19.Alexander Sczyrba#*, Peter Hofmann#, Peter Belmann#, David Koslicki, Stefan Janssen, Johannes Dröge, Ivan Gregor, Stephan Majda, Jessika Fiedler, Eik Dahms, Andreas Bremges, Adrian Fritz, Ruben Garrido-Oter, Tue Sparholt Jørgensen, Nicole Shapiro, Philip D. Blood, Alexey Gurevich, Yang Bai, Dmitrij Turaev, Matthew Z. DeMaere, Rayan Chikhi, Niranjan Nagarajan, Christopher Quince, Fernando Meyer, Monika Balvočiūtė, Lars Hestbjerg Hansen, Søren J. Sørensen, Burton K. H. Chia, Bertrand Denis, Jeff L. Froula, Zhong Wang, Robert Egan, Dongwan Don Kang, Jeffrey J. Cook, Charles Deltel, Michael Beckstette, Claire Lemaitre, Pierre Peterlongo, Guillaume Rizk, Dominique Lavenier, Yu-Wei Wu, Steven W. Singer, Chirag Jain, Marc Strous, Heiner Klingenberg, Peter Meinicke, Michael D. Barton, Thomas Lingner, Hsin-Hung Lin, Yu-Chieh Liao, Genivaldo Gueiros Z. Silva, Daniel A. Cuevas, Robert A. Edwards, Surya Saha, Vitor C. Piro, Bernhard Y. Renard, Mihai Pop, Hans-Peter Klenk, Markus Göker, Nikos C. Kyrpides, Tanja Woyke, Julia A. Vorholt, Paul Schulze-Lefert, Edward M. Rubin, Aaron E. Darling, Thomas Rattei, Alice C. McHardy*. (2017). Critical assessment of metagenome interpretation—a benchmark of metagenomics software. Nature Methods, 14: 1063.
20.Tao Jin#, Yayu Wang#, Yueying Huang#, Jin Xu#, Pengfan Zhang, Nian Wang, Xin Liu, Haiyan Chu, Guang Liu, Honggang Jiang, Yuzhen Li, Jing Xu, Karsten Kristiansen, Liang Xiao, Yunzeng Zhang, Gengyun Zhang, Guohua Du, Houbao Zhang, Hongfeng Zou, Haifeng Zhang, Zhuye Jie, Suisha Liang, Huijue Jia, Jingwang Wan, Dechun Lin, Jinying Li, Guangyi Fan, Huanming Yang, Jian Wang, Yang Bai*, Xun Xu*. (2017). Taxonomic structure and functional association of foxtail millet root microbiome. GigaScience, 6: 1–12.
21.Shujuan Tian#, Jingjing Wu#, Fen Li, Jianwei Zou, Yuwen Liu, Bing Zhou, Yang Bai, Meng-Xiang Sun*. (2016). NtKRP, a kinesin-12 protein, regulates embryo/seed size and seed germination via involving in cell cycle progression at the G2/M transition. Scientific Reports, 6: 35641.
22.Daniel B. Müller, Christine Vogel, Yang Bai, Julia A. Vorholt*. (2016). The plant microbiota: systems-level insights and perspectives. Annual Review of Genetics, 50: 211–234.
23.Christos Zamioudis, Jolanda Korteland, Johan A. Van Pelt, Muriël van Hamersveld, Nina Dombrowski, Yang Bai, Johannes Hanson, Marcel C. Van Verk, Hong-Qing Ling, Paul Schulze-Lefert & Corné M. J. Pieterse. (2015). Rhizobacterial volatiles and photosynthesis-related signals coordinate MYB72 expression in Arabidopsis roots during onset of induced systemic resistance and iron-deficiency responses. The Plant Journal, 84: 309-322.
24.Yang Bai, Prasad Vaddepalli, Lynette Fulton, Hemal Bhasin, Martin Hülskamp & Kay Schneitz. (2013). ANGUSTIFOLIA is a central component of tissue morphogenesis mediated by the atypical receptor-like kinase STRUBBELIG. BMC Plant Biology, 13: 16.
25.Yang Bai, Stefanie Falk, Arp Schnittger, Marc J. Jakoby & Martin Hülskamp. (2010). Tissue layer specific regulation of leaf length and width in Arabidopsis as revealed by the cell autonomous action of ANGUSTIFOLIA. The Plant Journal 61: 191–199.
执教课程
微生物学，本科生，春季学期，专业必修课，主持，北京大学
