刘永鑫博士，2008年毕业于东北农业大学微生物专业，2014年于中科院遗传发育所获生物信息学博士，2016年遗传学博士后出站留所工作，任宏基因组学实验室工程师。目前主要研究方向为宏基因组数据分析和植物微生物组，QIIME 2项目参与人。目前在Science、Nature Biotechnology等杂志发表论文十余篇。2017年7月创办“宏基因组”公众号，目前分享宏基因组、扩增子原创文章400余篇，代表博文有《扩增子图表解读、分析流程和统计绘图三部曲(21篇)》、《Nature综述：手把手教你分析菌群数据(1.8万字)》、《QIIME2中文教程(18篇)》等，关注人数5.5万+，累计阅读800万+。

宏基因组数据分析

植物微生物组

Ancheng C. Huang, Ting Jiang, Yong-Xin Liu, Yue-Chen Bai, James Reed, Baoyuan Qu, Alain Goossens, Hans-Wilhelm Nützmann, Yang Bai & Anne Osbourn. A specialized metabolic network selectively modulates Arabidopsis root microbiota. Science 364, eaau6389, doi:10.1126/science.aau6389 (2019).

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. NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice. Nature Biotechnology 37, 676-684, doi:10.1038/s41587-019-0104-4 (2019).

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. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nature Biotechnology 37, 852-857, doi:10.1038/s41587-019-0209-9 (2019).

Maosheng Zheng, Nan Zhou, Shufeng Liu, Chenyuan Dang, Yong-Xin Liu, Shishi He, Yijun Zhao, Wen Liu & Xiangke Wang. N2O and NO emission from a biological aerated filter treating coking wastewater: Main source and microbial community. Journal of Cleaner Production 213, 365-374, doi:10.1016/j.jclepro.2018.12.182 (2019).

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. Recently duplicated sesterterpene (C25) gene clusters in Arabidopsis thaliana modulate root microbiota. Science China Life Sciences62, 947-958, doi:10.1007/s11427-019-9521-2 (2019).

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. Root microbiota shift in rice correlates with resident time in the field and developmental stage. Science China Life Sciences 61, 613-621, doi:10.1007/s11427-018-9284-4 (2018).

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. Expression of the Nitrate Transporter Gene OsNRT1.1A/OsNPF6.3 Confers High Yield and Early Maturation in Rice. The Plant Cell 30, 638-651, doi:10.1105/tpc.17.00809 (2018).

Yong-Xin Liu, Meng Wang & Xiu-Jie Wang. Endogenous Small RNA Clusters in Plants. Genomics, proteomics & bioinformatics 12, 64-71, doi:10.1016/j.gpb.2014.04.003 (2014).