Zhen Su Lab

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Wenying Xu

Senior Engineer
China Agricultural University
Beijing 100193, China 

Phone: +86-10-62731380
Email: x_wenying@yahoo.com




Work Experience

1/2012 - current: Senior Engineer in CHINA AGRICULTURAL UNIVERSITY (Beijing)

2004 - 2010: Senior Engineer in Institute of Genetics and Developmental Biology, Chinese Academy of Sciences (Beijing)

2003 - 2004: Research Scientist in SYNGENTA BIOTECHNOLOGY INC. (Research Triangle Park, NC, USA)

2001-2002:Senior Research Associate in TORREY MESA RESEARCH INSTITUTE, SYNGENTA (San Diego, CA, USA)

1996-1997: Assistant Researcher in Beijing Plant Cell Bioengineering Laboratory (Beijing) 

1990-1993: Research Assistant in NATIONAL LAB OF BIOTECHNOLOGY FOR TROPICAL CROPS (Hainan) 



MS: 2001 in Department of Plant Sciences, University of Arizona, Tucson, Arizona, USA
          Title of Thesis: Microarray-based analysis of gene expression in very large gene families: the cytochrome p450 gene superfamily of arabidopsis thaliana. (supervisor: David Galbraith)

MS: 1996 in Plant genetics and breeding, Graduate School of Chinese Academy of Agricultural Sciences, Beijing
          Title of Thesis: Study of Appraising the Soybean Lipoxygenase Mutants in Chinese Soybean Germplasm. (supervisor: Fu Cui-Zhen)

B.Sc: 1990 in Department of Applied Physics, Beijing Agricultural University, Beijing China


Publication (* Co-first author; # Corresponding author

Yue Liu, Tian Tian, Kang Zhang, Qi You, Hengyu Yan, Nannan Zhao, Xin Yi, Wenying Xu#, Zhen Su#. (2017). PCSD: A plant chromatin state database. Nucleic Acids Research.  doi:10.1093/nar/gkx919.

Qi You, Xin Yi, Kang Zhang, Chunchao Wang, Xuelian Ma, Xueyan Zhang, Wenying Xu, Fuguang Li, Zhen Su. (2017). Genome-wide comparative analysis of H3K4me3 profiles between diploid and allotetraploid cotton to refine genome annotation. Scientific Reports. doi:10.1038/s41598-017-09680-6.

Yue Liu, Wenli Zhang, Kang Zhang, Qi You, Hengyu Yan, Yuannian Jiao, Jiming Jiang, Wenying Xu, Zhen Su. (2017). Genome-wide mapping of DNase I hypersensitive sites reveals chromatin accessibility changes in Arabidopsis euchromatin and heterochromatin regions under extended darkness. Scientific Reports. doi:10.1038/s41598-017-04524-9.

Tian Tian, Yue Liu, Hengyu Yan, Qi You, Xin Yi, Zhou Du, Wenying Xu#, Zhen Su#. (2017). agriGO v2.0: a GO analysis toolkit for the agricultural community, 2017 update. Nucleic Acids Research. doi:10.1093/nar/gkx382.

Kang Zhang, Wenying Xu, Chunchao Wang, Xin Yi, Zhen Su. (2017). Differential deposition of H2A.Z in rice seedling tissue during the day-night cycle. Plant Signaling & Behavior.  doi:10.1080/15592324.2017.1286438.

Qi You, Hengyu Yan, Yue Liu, Xin Yi, Kang Zhang, Wenying Xu# and Zhen Su#. (2016). A systemic identification approach for primary transcription start site of Arabidopsis miRNAs from multidimensional omics data. Functional & Integrative Genomics. doi:10.1007/s10142-016-0541-9.

Qi You, Wenying Xu, Kang Zhang, Liwei Zhang, Xin Yi, Dongxia Yao, Chunchao Wang, Xueyan Zhang, Xinhua Zhao, Nicholas Provart, Fuguang Li, Zhen Su. (2016). ccNET: Database of co-expression networks with functional modules for diploid and polyploid Gossypium. Nucleic Acids Research. 45: D1090–D1099.

Qi You, Liwei Zhang, Xin Yi, Kang Zhang, Dongxia Yao, Xueyan Zhang, Qianhua Wang, Xinhua Zhao, Yi Ling, Wenying Xu#, Fuguang Li#, Zhen Su#. (2016). Co-expression network analyses identify functional modules associated with development and stress response in Gossypium arboreum. Scientific Reports. 6, 38436

Zhang, K., Xu, W., Wang, C., Yi, X., Zhang, W. and Su, Z. (2016). Differential deposition of H2A.Z in combination with histone modifications within related genes in rice callus and seedling. Plant J.  doi:10.1111/tpj.13381.

Tian Tian, Qi You, Liwei Zhang, Xin Yi, Hengyu Yan, Wenying Xu#, Zhen Su# (2016). SorghumFDB: Sorghum Functional Genomics Database with multidimensional network analysis. Database doi:10.1093/database/baw099.

Xin Ma, Yongcai Fu, Xinhui Zhao, Liyun Jiang, Zuofeng Zhu, Ping Gu, Wenying Xu, Zhen Su, Chuanqing Sun & Lubin Tan (2016). Genomic structure analysis of a set of Oryza nivara introgression lines and identification of yield associated QTLs using wholegenome resequencing. Scientific Reports   doi: 10.1038/srep27425.

Kang Zhang, Qian Song, Qiang Wei, Chunchao Wang, Liwei Zhang, Wenying Xu#, Zhen Su# (2016). Down-regulation of OsSPX1 caused semi-male sterility, resulting in reduction of grain yield in rice. Plant Biotechnology Journal   doi:10.1111/pbi.12527.

Kang Zhang, Qian Song, Qiang Wei, Chunchao Wang, Liwei Zhang, Wenying Xu#, Zhen Su# (2016). Down-regulation of OsSPX1 caused semi-male sterility, resulting in reduction of grain yield in rice. Plant Biotechnology Journal   doi:10.1111/pbi.12527.

Juan Yu, Yixiang Zhang, Chao Di, Qunlian Zhang, Kang Zhang, Chunchao Wang, Qi You, Hong Yan, Susie Dai, Joshua Yuan#, Wenying Xu#, and Zhen Su# (2015). JAZ7 negatively regulates dark-induced leaf senescence in Arabidopsis. Journal of Experimental Botany doi:10.1093/jxb/erv487.

Xu W, Di C, Zhou S, Liu J, Li L, Liu F, Yang X, Ling Y and Su Z (2015). Rice Transcriptome Analysis to Identify Possible Herbicide Quinclorac Detoxification Genes. Front. Genet. 6:306. doi: 10.3389/fgene.2015.00306.

Jinyan Guo, Gongyao Shi, Liwei Zhang, Wenying Xu, Yumei Wang, Zhen Su#, Jinping Hua#. (2015) Transcriptome analysis reveals that distinct metabolic pathways operate in salt-tolerant and salt-sensitive upland cotton varieties subjected to salinity stress. Plant Science. doi:10.1016/j.plantsci.2015.05.013.

Liwei Zhang, Jinyan Guo, Qi You, Xin Yi, Yi Ling, WenyingXu, Jinping Hua#, Zhen Su#. (2015) GraP: Platform for Functional Genomics Analysis of Gossypium raimondii. Database. doi:10.1093/database/bav047.

Qi You, Liwei Zhang, Xin Yi, Zhenghai Zhang, Wengying Xu#, and Zhen Su#. (2015) SIFGD: Setaria italica Functional Genomics Database. Molecular Plant. doi:10.1016/j.molp.2015.02.001.

Xin Yi, Zhenhai Zhang, Yi Ling, Wenying Xu#, Zhen Su#. (2015) PNRD: A plant non-coding RNA database. Nucleic Acids Research. 43: D982-D989.

Juan Yu, Zhenhai Zhang, Jiangang Wei, Yi Ling, Wenying Xu#, Zhen Su#. (2014) SFGD: a comprehensive platform for mining functional information from soybean transcriptome data and its use in identifying acyl-lipid metabolism pathways. BMC Genomics. 15:271.

Chunchao Wang, Qiang Wei, Kang Zhang, Ling Wang, Fengxia Liu, Linna Zhao, Yuanjun Tan, Chao Di, Hong Yan, Jingjuan Yu, Chuanqing Sun, Wenqiong J Chen, Wenying Xu#, Zhen Su#. (2013) Down-regulation of OsSPX1 causes high sensitivity to cold and oxidative stresses in rice seedlings. PLoS ONE. doi:10.1371/journal.pone.0081849.

Zhou Du, Hui Li, Qiang Wei, Xin Zhao, Chunchao Wang, Qilin Zhu, Xin Yi, Wenying Xu, X. Shirley Liu, Weiwei Jin, Zhen Su. (2013) Genome-wide analysis of histone modifications: H3K4me2, H3K4me3, H3K9ac and H3K27ac, in Oryza sativa L. japonica.  Molecular Plant. doi:10.1093/mp/sst018.

Xueyan Zhang*, Dongxia Yao*, Qianhua Wang*, Wenying Xu*, Qiang Wei, Chunchao Wang, Chuanliang Liu, Chaojun Zhang, Hong Yan, Yi Ling, Zhen Su, Fuguang Li. (2013) mRNA-seq analysis of the Gossypium arboreum transcriptome reveals tissue selective signaling in response to water stress during seedling stage. PLoS ONE. doi:10.1371/journal.pone.0054762.

Fengxia Liu, Wenying Xu, Qian Song, Lubin Tan, Jiayong Liu, Zuofeng Zhu, Yongcai Fu, Zhen Su, and Chuanqing Sun. (2013) Microarray Assisted Fine-mapping of Quantitative Trait Loci for Cold Tolerance in Rice. Molecular Plant. doi:10.1093/mp/sss161.

Dongxia Yao, Qiang Wei, Wenying Xu, Ryan D Syrenne, Joshua S. Yuan, and Zhen Su. (2012) Comparative genomic analysis of NAC transcriptional factors to dissect the regulatory mechanisms for cell wall biosynthesis. BMC Bioinformatics. 13(Suppl 15):S10.

Yuanlin Duan, Zhuo Xing, Zhijuan Diao, Wenying Xu, Shengping Li, Xiaoqiu Du, Guangheng Wu, huanlei Wang, Tao Lan, Zheng Meng, Huaqing Liu, Feng Wang, Weiren Wu, Yongbiao Xue (2012) Characterization of Osmads6-5, a null allele, reveals that OsMADS6 is a critical regulator for early flower development in rice (Oryza sativa L.) Plant Mol Biol 80:429–442

Wenying Xu, Rendong Yang, Meina Li, Zhuo Xing, Wenqiang Yang, Guang Chen, Han Guo, Xiaojie Gong, Zhou Du, Zhenhai Zhang, Xingming Hu, Dong Wang, Qian Qian, Tai Wang, Zhen Su, Yongbiao Xue. (2011) Transcriptome Phase Distribution Analysis Reveals Diurnal Regulated Biological Processes and Key Pathways in Rice Flag Leaves and Seedling Leaves. PLoS ONE 6(3): e176133.

Chao Di, Wenying Xu, Zhen Su and Joshua S Yuan. (2010) Comparative genome analysis of PHB gene family reveals deep evolutionary origins and diverse gene function. BMC Bioinformatics. 11 (Suppl 6):S22.

Li Q Wei*, Wen Y Xu*, Zhu Y Deng, Zhen Su, Yongbiao Xue and Tai Wang. (2010) Genome-scale Analysis and Comparison of Gene Expression Profiles in Developing and Germinated Pollen in Oryza sativa. BMC Genomics 11:338.

Kejian Wang, Ding Tang,Lilan Hong, Wenying Xu, Jian Huang, Ming Li, Minghong Gu, Yongbiao Xue, Zhukuan Cheng. (2010) DEP and AFO Regulate Reproductive Habit in Rice. PLOS GENETICS. DOI:10.1371/journal.pgen.1000818.

Liu F*, Xu W*, Wei Q, Zhang Z, Xing Z, Tan L, Di C, Yao D, Wang C, Tan Y, Yan H, Ling Y, Sun C, Xue Y, Su Z. (2010) Gene Expression Profiles Deciphering Rice Phenotypic Variation between Nipponbare (Japonica) and 93-11 (Indica) during Oxidative Stress. PLoS ONE. 5(1): e8632.

Linna Zhao*, Fengxia Liu*, Wenying Xu*, Chao Di, Shaoxia Zhou, Yongbiao Xue, Jingjuan Yu,Zhen Su. (2009) Increased expression of OsSPX1 enhances cold/subfreezing tolerance in tobacco and Arabidopsis thaliana. Plant Biotechnology Journal. 7:550-561.

Li, H., Xue, D., Gao, Z., Yan, M., Xu, W., Xing, Z., Huang, D., Qian, Q., and Xue, Y. (2009). A putative lipase gene EXTRA GLUME1 regulates both empty-glume fate and spikelet development in rice. Plant J 57, 593-605

Zhang, Y., Xu, W., Li, Z., Deng, X.W., Wu, W., and Xue, Y. (2008). F-box protein DOR functions as a novel inhibitory factor for abscisic acid-induced stomatal closure under drought stress in Arabidopsis. Plant physiology 148, 2121-2133

Yang, W., Kong, Z., Omo-Ikerodah, E., Xu, W., Li, Q., Xue, Y. (2008) A calcineurin B-like interacting protein kinase OsCIPK23 functions in pollination and drought stress responses in rice (Oryza sativa L.). JGG 35:531-543

Yang, W., Lai, Y., Li, M., Xu, W., Xue, Y. (2008) A novel C2-domain phospholipid binding protein, OsPBP1, is required for pollen fertility in rice. Mol Plant 1:770-785

Liu, F., Xu, W.*, Tan, L., Xue, Y., Sun, C., Su, Z. (2008) Case study for identification of indel-caused alternative expression isoforms in rice subspecies japonica and indica by integrative genome analysis. Genomics 91: 186–194.

Liu, B., Chen, Z., Song, X., Liu, C., Zhao, X., Fang, J., Xu, W., Zhang, H., Wang,X., Chu, C., Deng, X. W., Xue, Y., Cao, X. (2007) Oryza sativa Dicer-like 4 reveals a key role for siRNA silencing in plant development. Plant Cell 19:2705-2718

Li, M., Xu, W., Yang, W., Kong, Z., Xue, Y. (2007) Genome-wide gene expression profiling reveals conserved and novel molecular functions of the stigam in rice (Oryza sativa L.). Plant Physiol. 144:1797-1812

Kong, Z., Xu, W., Li, Q., Xue, Y. (2007) Identification, expression and functional analysis of a receptor-like cytoplasmic kinase, OsRLCK1, in rice(Oryza sativa L.). J. Integrative Plant Biol. 49:898-907

Dai, X., Xu, Y., Ma, Q., Xu, W., Wang, T., Xue, Y., and Chong, K. (2007). Overexpression of an R1R2R3 MYB gene, OsMYB3R-2, increases tolerance to freezing, drought, and salt stress in transgenic Arabidopsis. Plant physiology 143, 1739-1751

Kong, Z., Li, M., Yang, W., Xu, W., and Xue, Y. (2006). A novel nuclear-localized CCCH-type zinc finger protein, OsDOS, is involved in delaying leaf senescence in rice. Plant physiology 141, 1376-1388

Xin Zhou, Fei He, Fengxia Liu, Xue Zheng, Chao Di, Shaoxia Zhou, Hongya Gu, Wenying Xu, and Zhen Su. (2006) Integration of Cold Signal Transduction Pathway Related to ABA 8,-hydroxylase in Arabidopsis. Z.Xu et al. (eds.), Biotechnology and Sustainable Agriculture and Beyond, 471-474,2007 Springer.

Chen, Y.A., Chou, C.C., Lu, X., Slate, E.H., Peck, K., Xu, W., Voit, E.O., and Almeida, J.S. (2006). A multivariate prediction model for microarray cross-hybridization. BMC bioinformatics 7, 101

Lan, L., Li, M., Lai, Y., Xu, W., Kong, Z., Ying, K., Han, B., and Xue, Y. (2005). Microarray analysis reveals similarities and variations in genetic programs controlling pollination/fertilization and stress responses in rice (Oryza sativa L.). Plant molecular biology 59, 151-164

András Guttman, Julia Khandurina, Paul Budworth, Wenying Xu, Yu-Ming Hou and Xun Wang. (2004) Analysis of Combinatorial natural Products by HPLC and CE. LCGC Europe, Feb 1, 2004; LCGC NORTH AMERICA V22 ( 1); PharmaGenomics, June 1, 2004

Xu, W., Bak, S., Decker, A., Paquette, S.M., Feyereisen, R., and Galbraith, D.W. (2001). Microarray-based analysis of gene expression in very large gene families: the cytochrome P450 gene superfamily of Arabidopsis thaliana. Gene 272, 61-74

Galbraith, D.W., Macas, J., Pierson, E.A., Xu, W., and Nouzová, M. (2001). Printing DNA microarrays using the Biomek® Laboratory Automation Workstation. In: DNA Arrays: Methods and Protocols (J.B. Rampal, ed.). Methods in Molecular Biology 170:131-140

Xiong, L., Gong, Z., Rock, C.D., Subramanian, S., Guo, Y., Xu, W., Galbraith, D., and Zhu, J.K. (2001). Modulation of abscisic acid signal transduction and biosynthesis by an Sm-like protein in Arabidopsis. Developmental Cell 1, 771-781

FU Cuizhen, CHANG Ruzhen, Xu Wenying. (2000) Identification of lipoxygenase lacking mutants of seeds in Chinese soybean germplasm. Journal of Plant Genetic Resources. vol. 1 No 3

David Galbraith, Elizabeth Pierson, Michael Deyholos, Wenying Xu, George Watts, Rene Feyereisen, Hans Bohnert, Ken Feldmann, Virginia Walbot, Jiri Macas. (1999) Implementing microarrays for the study of plant genomics.    Nature Genetics 45 (1999)   doi: 10.1038/14307

Fu Cuizhen, Xu Wenying and Su Zhen. (1997) Study of Identification on Soybean Lipoxygenase Mutants in Chinese Soybean Germplasm Resources SCIENTIA AGRICULTURA SINICA 97:1.

Zhang Xiaodong, Li Dongmei, Xu Wenying, et al. (1997) Development of Transgenic Wheat by Biolistic Bombardment Transfering Basta Resistance Gene and Novel HMW Glutenin Subunit Genes ACTA AGRICULTURE BOREAL-SINICA 97:1.

Su Zhen, Xu Wenying, Zhang Zhonglun, et al. (1997) Study on Ultraweak Bioluminescence of Soybean Seeds Lacking one or more Lipoxygenase Isozymes SOYBEAN SCIENCE 97:3.

Xu Wenying, Fu Cuizhen and Su Zhen. (1996) The Newest Development of Soybean Lipoxygenase Research PLANT PHYSIOLOGY COMMUNICATIONS 96:4.

Fu Cuizhen and Xu Wenying. (1996) Research on β-Carotene Bleaching Tests for Detecting Activity of Chinese Soybean Lipoxygenase JOURNAL OF THE CHINESE CEREALS AND OILS ASSOCIATION 96:2.

Fu Cuizhen and Xu Wenying. (1996) Study of Appraising the Chinese Soybean Lipoxygenase Heterogeneity ACTA AGRICULTURE BOREAL-SINICA 96:1.

Fu Cuizhen and Xu Wenying. (1996) A new technique of identification for lipoxidase in soybean CROPS 96:3.

Xu Wenying, Su Zhen, Fu Cuizhen, et al. (1995) Study of Appraising Different Lipoxygenase Mutant Type by Chemiluminescence (CL) of Soybean Seedlings Cotyledons and Leaves. SOYBEAN SCIENCE 95:3.

Fu Cuizhen and Xu Wenying. (1995) Continued Utilization and Comprehensive Exploitation of Chinese High-quality Soybean Resources. CHINESE AGRICULTURAL SCIENCE BULLETIN 95:5 (this article also took part in World Soybean Research Conference II in Thailand).


Mail: #2 Yuanmingyuan Xilu, Beijing 100193, China | Tel: +86(10)62731214 | Email: genome01ATcau.edu.cn

Copyright | Zhen Su Lab | 2012 | All right reserved | Last updated: March, 2012