个人简介
夏瑞，教授，博士生导师；入选国家级人才项目；南粤优秀教师；广东特支计划科技创新领军人才。美国弗吉尼亚理工大学获得园艺学博士。目前是亚热带农业生物资源保护与利用国家重点实验室和农业部华南地区园艺作物生物学与种质创制重点实验室的学术骨干。长期致力于园艺植物非编码RNA的研究，尤其是小分子RNA的生物合成及调控机理，已取得了国际领先的研究成果。目前主要利用生物信息学、基因组学及分子生物学等手段，围绕无患子科植物花性别决定机制以及南方主要水果花果发育调控等生物学问题开展研究。在Nature Communication, Genome Biology, The Plant Cell和Molecular Biology and Evolution 等学术刊物发表SCI论文40多篇。并已开发一系列生物信息数据分析工具数据库，如TBtools, sRNAminer, IGV-sRNAs和sRNAanno （www.plantsRNAs.org）等。
联系方式
电话：020-38348652
Email: rxia@scau.edu.cn
通迅地址：广东省广州市天河五山best365网页版登录913室
实验室网站：http://xialab.scau.edu.cn
教育背景
博士（园艺学）2009年8月-2013年5月
美国弗吉尼亚理工大学
Virginia Polytechnic Institute and State University, Blacksburg, Virginia, USA
硕士（果树学）2004年9月-2007年7月
华南农业大学，中国广州
学士 （园艺学）2000年9月-2004年7月
华南农业大学，中国广州
研究经历
教授，best365网页版登录，2016年6月-至今
博士后，美国唐纳德.丹佛斯植物科学中心 （Dr. Blake Meyers lab, Donald Danforth Plant Science Center, St. Louis, USA），2016年1月-2016年5月
博士后，美国特拉华大学植物与土壤科学系（Dr. Blake Meyers lab, Newark, Delaware, USA），2013年5月-2015年12月
研究助理，美国农业部阿帕拉契亚果树研究中心 （Kearneysville, West Virginia, USA），2010年9月-2013年4月
研究助理，弗吉尼亚理工大学Alson H. Smith Jr农业研究推广中心（Winchester, Virginia, USA），2009年8月-2010年8月
助理研究员，广东省农业科学院果树研究所（中国广州五山），2007年8月-2009年7月
研究助理，华南农业大学（中国广州五山），2004年9月-2007年7月
发表论文
http://scholar.google.com/citations?user=Qixt6fgAAAAJ
(49)Yanmin Zhu*#, Guanliang Li#, Jugpreet Singh#, Awais Khan, Gennaro Fazio, Melody Saltzgiver and Rui Xia*. Laccase directed lignification is one of the major processes associated with the defense response against pythium ultimum infection in apple roots. Frontiers in Plant Science. 2021 Sep 7;12 Article 629776. doi:10.3389/fpls.2021.629776.
(48)Daoheng Hu*, Yiming Yu*, Chun Wang*, Yanping Long, Yue Liu, Li Feng, Dongdong Lu, Bo Liu, Jinbu Jia, Rui Xia, Jiamu Du, Xuehua Zhong, Lei Gong, Kejian Wang# and Jixian Zhai#. Multiplex CRISPR-Cas9 editing of DNA methyltransferases in rice uncovers a class of non-CG methylation specific for GC-rich regions. The Plant Cell. 2021 Jun 12:koab162. doi: 10.1093/plcell/koab162.
(47)Kaili Wang, Yuanyuan Zhang, Hengmu Zhang, Xinchun Lin, Rui Xia, Lili Song*, Aimin Wu*. MicroRNAs play important roles in regulating the rapid growth of the phyllostachys edulis culm internode. New Phytologist. 2021 Sep;231(6):2215-2230. doi: 10.1111/nph.17542.
(46)Yongli Qiao*, Rui Xia, Jixian Zhai, Yingnan Hou, Li Feng, Yi Zhai, and Wenbo Ma*. Small RNAs in plant immunity and virulence of filamentous pathogens. Annual Review of Phytopathology. 2021 Aug 25;59:265-288. doi: 10.1146/annurev-phyto-121520-023514.
(45)Wenbing Su, Yi Jing, Shoukai Lin, Zhen Yue, Xianghui Yang, Jiabao Xu , Jincheng Wu, Zhike Zhang, Rui Xia, Jiaojiao Zhu , Ning An , Haixin Chen , Yanping Hong, Yuan Yuan , Ting Long , Ling Zhang, Yuanyuan Jiang , Zongli Liu , Hailan Zhang , Yongshun Gao, Yuexue Liu , Hailan Lin , Huicong Wang , Levi Yant , Shunquan Lin and Zhenhua Liu. Polyploidy underlies co-option and diversification of biosynthetic triterpene pathways in the apple tribe. Proceedings of the National Academy of Sciences of the United States of America. 2021 May 18;118(20):e2101767118. doi: 10.1073/pnas.2101767118.
(44)Chengjie Chen#, Jiawei Li#, Junting Feng, Bo Liu, Lei Feng, Xiaoling Yu, Guanliang Li, Jixian Zhai, Blake C Meyers, Rui Xia*. sRNAanno-a database repository of uniformly annotated small RNAs in plants. Horticulture research. 2021 Mar 1;8(1):45. doi: 10.1038/s41438-021-00480-8.
(43) Muhammad Waseem, Yuanlong Liu, Rui Xia*. Long non-coding RNAs, the dark matter: an emerging regulatory component in plants. International Journal of Molecular Sciences. 2020 Dec 23;22(1):86. doi: 10.3390/ijms22010086.
(42) Dongna Ma, Shanshan Dong, Shengcheng Zhang, Xiuqing Wei, Qingjun Xie, Qiansu Ding, Rui Xia*, Xingtan Zhang*. Chromosome-level reference genome assembly provides insights into aroma biosynthesis in passion fruit (Passiflora edulis). Molecular Ecology Resources. 2021 Apr;21(3):955-968. doi: 10.1111/1755-0998.13310.
(41) Peng Tian, Xuemei Zhang, Rui Xia, Yang Liu, Meijiao Wang, Bo Li, Tieyan Liu, Jinfeng Shi, Rod A. Wing, Blake C. Meyers*, Mingsheng Chen*. Evolution and diversification of reproductive phased small interfering RNAs in Oryza species. New Phytologist. 2021 Mar;229(5):2970-2983. doi: 10.1111/nph.17035.
(40) Jinbu Jia#, Ronghuan Ji#, Zhuowen Li, Yiming Yu, Mayumi Nakano, Yanping Long,
Li Feng, Chao Qin, Dongdong Lu, Junpeng Zhan, Rui Xia, Blake C. Meyers, Bin
Liu*, and Jixian Zhai*. Soybean DICER-LIKE2 regulates seed coat color via production of primary 22-nucleotide small interfering RNAs from long inverted repeats. The Plant Cell. 2020 Dec;32(12):3662-3673. doi: 10.1105/tpc.20.00562.
(39) Baoqing Ding*, Rui Xia, Qiaoshan Lin, Vandana Gurung, Janelle M. Sagawa, Lauren E. Stanley, Matthew Strobel, Pamela K. Diggle, Blake C. Meyers, Yao-Wu Yuan*. Developmental genetics of corolla tube formation: role of the tasiRNA-ARF pathway and a conceptual model. The Plant Cell. 2020 Nov;32(11):3452-3468. doi: 10.1105/tpc.18.00471.
(38) Yuanlong Liu, Chong Teng, Rui Xia*, Blake Meyers*. PhasiRNAs in plants: their biogenesis, genic sources, and roles in stress responses, development, and reproduction. The Plant Cell. 2020 Oct;32(10):3059-3080. doi: 10.1105/tpc.20.00335.
(37) Chengjie Chen, Hao Chen, Yi Zhang, Hannah R. Thomas, Margaret H. Frank, Yehua He, Rui Xia. TBtools: an integrative toolkit developed for interactive analyses of big biological data. Molecular Plant. 2020 Aug 3;13(8):1194-1202. doi: 10.1016/j.molp.2020.06.009.
(36) Jinbu Jia, Yanping Long, Hong Zhang, Zhuowen Li, Zhijian Liu, Yan Zhao, Dongdong Lu, Xianhao Jin, Xian Deng, Rui Xia , Xiaofeng Cao and Jixian Zhai. Post-transcriptional splicing of nascent RNA contributes to widespread intron retention in plants. Nature Plants. 2020 Jul;6(7):780-788. doi: 10.1038/s41477-020-0688-1.
(35) Minglei Zhao# , Caiqin Li#, Xingshuai Ma, Rui Xia, Jianye Chen, Xuncheng Liu, Peiyuan Ying, Manjun Peng, Jun Wang, Chun-Lin Shi* and Jianguo Li*. KNOX protein KNAT1 regulates fruitlet abscission in litchi by repressing ethylene biosynthetic genes. Journal of Experimental Botany. 2020 Jul 6;71(14):4069-4082. doi: 10.1093/jxb/eraa162.
(34) Mei Liang, Zonghong Cao, Andan Zhu, Yuanlong Liu, Mengqin Tao, Huayan Yang, Qiang Xu Jr, Shaohua Wang, Junjie Liu, Yongping Li, Chuanwu Chen, Zongzhou Xie, Chongling Deng, Junli Ye, Wenwu Guo, Qiang Xu, Rui Xia, Robert M. Larkin, Xiuxin Deng, Maurice Bosch, Vernonica E. Franklin-Tong and Lijun Chai. Evolution of self-compatibility by a mutant Sm-RNase in citrus. Nature Plants. 2020 Feb;6(2):131-142. doi: 10.1038/s41477-020-0597-3.
(33) Honghao Bi#, Qili Fei#, Riqing Li, Bo Liu, Rui Xia, Si Nian Char, Blake C. Meyers and Bing Yang*. Disruption of miRNA sequences by TALENs and CRISPR/Cas9 induces varied lengths of miRNA production. Plant Biotechnology Journal. 2020 Jul;18(7):1526-1536. doi: 10.1111/pbi.13315.
(32) Lei Feng , Rui Xia* , Yuanlong Liu*. Comprehensive characterization of miRNA and PHAS loci in the diploid strawberry (Fragaria vesca) genome. Horticultural Plant Journal. 2019; 5(6):255-267. doi: https://doi.org/10.1016/j.hpj.2019.11.004.
(31) Hong Zhu#, Chengjie Chen#, Jun Zeng, Ze Yun, Yuanlong Liu, Hongxia Qu, Yueming Jiang*, Xuewu Duan* and Rui Xia*. MicroRNA528, a hub regulator modulating ROS homeostasis via targeting of a diverse set of genes encoding copper-containing proteins in monocots. New Phytologist. 2020 Jan;225(1):385-399. doi: 10.1111/nph.16130.
(30) Chengjie Chen#, Yuanlong Liu#, Rui Xia*. Jack of many trades: the multifaceted role of miR528 in monocots. Molecular Plant. 2019 Aug 5;12(8):1044-1046. doi: 10.1016/j.molp.2019.06.007.
(29) Caiqin Li#, Minglei Zhao#, Xingshuai Ma#, Zhenxi Wen, Peiyuan Ying, Manjun Peng, Xiping Ning, Rui Xia, Hong Wu*, Jianguo Li*. The HD-Zip transcription factor LcHB2 regulates litchi fruit abscission through the activation of two cellulase genes. Journal of Experimental Botany. 2019 Oct 15;70(19):5189-5203. doi: 10.1093/jxb/erz276.
(28) Yanqing Zhang, Zaohai Zeng, Chengjie Chen, Caiqin Li, Rui Xia* and Jianguo Li*. Genome-wide characterization of the auxin response factor (ARF) gene family of litchi (Litchi chinensis Sonn.): phylogenetic analysis, miRNA regulation and expression changes during fruit abscission. PeerJ. 2019 Apr 4;7:e6677. doi: 10.7717/peerj.6677.
(27) Dongdong Li#, Wangshu Mou#, Rui Xia, Li Li, Christopher Zawora, Tiejin Ying, Linchun Mao, Zhongchi Liu* and Zisheng Luo*. Integrated analysis of high-throughput sequencing data shows abscisic acid-responsive genes and miRNAs in strawberry receptacle fruit ripening. Horticulture Research. 2019 Feb 1;6:26. doi: 10.1038/s41438-018-0100-8.
(26) Rui Xia*, Chengjie Chen, Suresh Pokhre, Wuqiang Ma, Kun Huang, Parth Patel, Fuxi Wang, Jing Xu, Zhongchi Liu, Jianguo Li & Blake C. Meyers*. 24-nt reproductive phasiRNAs are broadly present in angiosperms. Nature Communications. 2019 Feb 7;10(1):627. doi: 10.1038/s41467-019-08543-0.
(25) Shaopeng Zhao, A. Chen, Chengjie Chen, Chengchen Li, Rui Xia, and Xiurong Wang*. Transcriptomic analysis reveals the possible roles of sugar metabolism and export for positive mycorrhizal growth responses in soybean. Physiologia Plantarum. 2019 Jul;166(3):712-728. doi: 10.1111/ppl.12847.
(24) Chengjie Chen#, Zaohai Zeng#, Zongrang Liu, Rui Xia*. Small RNAs, emerging regulators critical for the development of horticultural traits. Horticulture Research. 2018 Sep 17;5:63. doi: 10.1038/s41438-018-0072-8.
(23) Guanghui Guo#, Xinye Liu#, Fenglong Sun, Jie Cao, Na Huo, Bala Wuda, Mingming Xin, Zhaorong Hu, Jinkun Du, Rui Xia, Vincenzo Rossi, Huiru Peng, Zhongfu Ni, Qixin Sun*,Yingyin Yao*. Wheat miR9678 affects seed germination by generating phased siRNAs and modulating abscisic acid/gibberellin signaling. The Plant Cell. 2018 Apr;30(4):796-814. doi: 10.1105/tpc.17.00842.
(22) Wuqiang Ma, Chengjie Chen, Yuanlong Liu, Ming Zeng, Blake C. Meyers, Jianguo Li*, and Rui Xia*. Coupling of microRNA-directed phased small interfering RNA generation from long noncoding genes with alternative splicing and alternative polyadenylation in small RNA-mediated gene silencing. New Phytologist. 2018 Mar;217(4):1535-1550. doi: 10.1111/nph.14934.
(21) Yuanlong Liu#, Lili Ke#, Guizhi Wu, Yuantao Xu, Xiaomeng Wu, Rui Xia, Xiuxing Deng, Qiang Xu*. miR3954 is a trigger of phasiRNAs that affects flowering time in citrus. Plant Journal. 2017 Oct;92(2):263-275. doi: 10.1111/tpj.13650.
(20) Rui Xia*, Jing Xu, Blake C. Meyers*. The emergence, evolution, and diversification of the miR390-TAS3-ARF pathway in land plants. The Plant Cell. 2017 Jun;29(6):1232-1247. doi: 10.1105/tpc.17.00185.
(19) Manjun Peng, Peiyuan Ying, Xuncheng Liu, Caiqin Li, Rui Xia, Jianguo Li*, Minglei Zhao*. Genome-wide identification of histone modifiers and their expression patterns during fruit abscission in litchi. Frontiers in Plant Science. 2017 Apr 27;8:639. doi: 10.3389/fpls.2017.00639.
(18) Sebastian Reyes-Chin-Wo#, Zhiwen Wang#, Xinhua Yang#, Alexander Kozik, Siwaret Arikit, Chi Song, Liangfeng Xia, Lutz Froenicke, Dean O Lavelle, María-José Truco, Rui Xia, Shilin Zhu, Chunyan Xu, Huaqin Xu, Xun Xu, Kyle Cox, Ian Korf, Blake C Meyers, Richard W Michelmore*. Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce. Nature Communications. 2017 Apr 12;8:14953. doi: 10.1038/ncomms14953.
(17) Peiyuan Ying, Caiqin Li, Xuncheng Liu, Rui Xia, Minglei Zhao*, Jianguo Li*. Identification and molecular characterization of an IDA-like gene from litchi, LcIDL1, whose ectopic expression promotes floral organ abscission in Arabidopsis. Scientific Reports. 2016 Nov 15;6:37135. doi: 10.1038/srep37135.
(16) Yu Zhang, Rui Xia, Hanhui Kuang and Blake C. Meyers*. The diversification of plant NBS-LRR defense genes directs the evolution of microRNAs that target them. Molecular Biology and Evolution. 2016 Oct;33(10):2692-705. doi: 10.1093/molbev/msw154.
(15) Qili Fei, Yu Zhang, Rui Xia, BC Meyers*. Small RNAs add Zing to the Zig-Zag-Zig model of plant defenses. Molecular Plant-Microbe Interactions. 2016 Mar;29(3):165-9. doi: 10.1094/MPMI-09-15-0212-FI.
(14) Behnam Khatabi, Siwaret Arikit, Rui Xia, Stephan Winter, Doungous Oumar, Kone Mongomake, Blake C. Meyers and Vincent N. Fondong*. High-resolution identification and abundance profiling of cassava (Manihot esculenta Crantz) microRNAs. BMC Genomics. 2016 Jan 28;17:85. doi: 10.1186/s12864-016-2391-1.
(13) Rui Xia, Jing Xu, Siwaret Arikit, Blake Meyers*. Extensive families of miRNAs and PHAS loci in norway spruce demonstrate the origins of complex phasiRNA networks in seed plants. Molecular Biology and Evolution. 2015 Nov;32(11):2905-18. doi: 10.1093/molbev/msv164.
(12) Han Zhang*, Rui Xia, Blake C. Meyers, Virginia Walbot. Evolution, functions and mysteries of plant ARGONAUTE proteins. Current Opinion in Plant Biology. 2015 Oct;27:84-90. doi: 10.1016/j.pbi.2015.06.011.
(11) Rui Xia#, Songqing Ye#, Zongrang Liu, Blake C. Meyers, Zhongchi Liu*. Novel and recently evolved microRNA clusters regulate expansive F-BOX gene networks through phased small interfering RNAs in wild diploid strawberry. Plant Physiology. 2015 Sep;169(1):594-610. doi: 10.1104/pp.15.00253.
(10) Siwaret Arikit, Rui Xia, Atul Kakrana, Kun Huang, Jixian Zhai, Zhe Yan, Oswaldo Valdés-López, Silvas Princee, Theresa A. Musket, Henry T. Nguyen, Gary Stacey, Blake C. Meyers*. An atlas of soybean small RNAs identifies phased siRNAs from hundreds of coding genes. The Plant Cell. 2014 Dec;26(12):4584-601. doi: 10.1105/tpc.114.131847.
(9) Qili Fei, Rui Xia, Blake C. Meyers*. Phased, secondary, small interfering RNAs in posttranscriptional regulatory networks. The Plant Cell. 2013 Jul;25(7):2400-15. doi: 10.1105/tpc.113.114652.
(8) Rui Xia, Blake C. Meyers, Zhongchi Liu, Eric P. Beers, Songqing Ye, Zongrang Liu*. MicroRNA superfamilies descended from miR390 and their roles in secondary small interfering RNA biogenesis in eudicots. The Plant Cell. 2013 May;25(5):1555-72. doi: 10.1105/tpc.113.110957.
(7) Rui Xia, Hong Zhu, Yongqiang An, Eric P Beers and Zongrang Liu*. Apple miRNAs and tasiRNAs with novel regulatory networks. Genome Biology. 2012 Jun 15;13(6):R47. doi: 10.1186/gb-2012-13-6-r47.
(6) Hong Zhu, Rui Xia, Bingyu Zhao, Yongqiang An, Chris D Dardick, Ann M Callahan and Zongrang Liu*. Unique expression, processing regulation, and regulatory network of peach (Prunus persica) miRNAs. BMC Plant Biology. 2012 Aug 21;12:149. doi: 10.1186/1471-2229-12-149.
(5) Rui Xia#, Caiqin Li#, Wangjin Lu, Juan Du, Zehuai Wang and Jianguo Li*. 3-Hydroxy-3-methylglutaryl coenzyme A reductase 1 (HMG1) is highly associated with the cell division during the early stage of fruit development which determines the final fruit size in Litchi chinensis. Gene. 2012 Apr 25;498(1):28-35. doi: 10.1016/j.gene.2012.01.079.
(4) Hong Zhu, Chris D Dardick*, Eric P Beers, Ann M Callanhan, Rui Xia and Rongcai Yuan. Transcriptomics of shading-induced and NAA-induced abscission in apple (Malus domestica) reveals a shared pathway involving reduced photosynthesis, alterations in carbohydrate transport and signaling and hormone crosstalk. BMC Plant Biology. 2011 Oct 17;11:138. doi: 10.1186/1471-2229-11-138.
(3) Rui Xia, Wangjin Lu, Zehuai Wang and Jianguo Li*.Cloning and characterisation of two genes for 3-hydroxy-3- methylglutaryl coenzyme A reductase and their possible roles during fruit development in Dimocarpus longan. Journal of Horticultural Science & Biotechnology, 2011;86(1): 25-30. doi:10.1080/14620316.2011.11512720.
(2)夏瑞, 陆旺金, 李建国*. 一种改良的扩增cDNA5′末端的方法[J]. 园艺学报, 2008(10):1533-1538.
(1) 夏瑞, 陆旺金, 李建国*, 杜娟. 简并引物的程序化设计与荔枝HMGR基因片段的克隆[J].果树学报, 2006(06):903-906.
（2021年9月更新）
