- Name: Yongbiao Xue
- Title: Principal Investigator
- Fax: 86-10-64801292
- Phone: 86-10-64801181
- Email: ybxue@genetics.ac.cn
- Homepage: http://plantbiol.genetics.ac.cn
ACADEMIC AWARDS
1983 BSc Lanzhou University,China
1986 Msc The Postgradute School, The Chinese Academy of Sciences, China
1989 PhD University of East Anglia, UK
ASSOCIATIONS AND FELLOWSHIPS
1987 University Studentship, University of East Anglia, UK
1987 Overseas Research Student Awards, University of East Anglia, UK
1995 K.C. Wang Fellowship, The Chinese Academy of Sciences, China
EMPLOYMENT HISTORY
1990 Postdoc Fellow, John Innes Center and University of Oxford (with Prof. E. S. Coen, FRS
and Prof. H. G. Dickinson), UK
1995 Research Scientist, The Sainsbury Laboratory, John Innes Center, UK
1997 Principle Investigator, Institute of Developmental Biology, The Chinese Academy of
Sciences, China
1999 Assistant Director, Institute of Developmental Biology, The Chinese Academy of
Sciences,China
2000 Professor, Faculty of Life Sciences, The Postgraduate School, The Chinese Academy of
Sciences, China
2001 Principle Investigator, Institute of Genetics and Developmental Biology, The Chinese
Academy of Sciences, China
2001 Associate Director, Institute of Genetics and Developmental Biology, The Chinese
Academy of Sciences, China
2002 Adjunct Professor, College of Life Sciences, Beijing University, China
2004-2014 Director,Institute of Genetics and Developmental Biology,The Chinese Academy of
Sciences,China
RESEARCH INTERESTS/AREAS
1. Molecular control of self-incompatibility in AntirrhinumSelf-incompatibility (SI) is a widely-distributed genetic mechanism to prevent inbreeding in flowering plants and represents a model system to study molecular basis of pollen recognition and rejection. In solanaceous-type self-incompatible species, recent studies have shown that the S-locus encodes two types of genes in a haplotype manner controlling the pistil and pollen function of SI, respectively. A class of ribonucleases known as S-RNases mediates the pistil function, and a novel F-box gene called S-locus F-box(SLF)controls the pollen function. The first member of theSLFfamily,AhSLF-S2, was identified inAntirrhinum. We have shown that it mediates the pollen function of S-RNase-based SI and its protein product forms part of an SCF (Skp1/Cullin or CDC53/F-box) complex to target S-RNases for destruction by the ubiquitin/26S proteosome-mediated proteolytic pathway during compatible pollination. However, little is known about how these two proteins interact with each other to elicit SI responses. Currently, we are taking a combination of molecular genetics, biochemistry and cell biology to address this issue inAntirrhinum. 2. Molecular studies on pollination and fertilization in rice
Pollination and fertilization are key steps leading to seed formation. But, relatively little is known about their molecular control in rice. To identify genes involved in these processes, we have constructed a cDNA microarray containing over 10K unique cDNA in rice and monitored gene expression profiles during pollination. Subsequently, over 200 candidate cDNA have been found with possible roles in pollination in rice. We are investigating their detailed functions using a variety of approaches. In addition, we are collaborating with Drs Weiren Wu and Yuanling Duan from Fujian Agricultural University of China to clone several key genes controlling rice reproductive development using a map-based method. 3. Identification of genes controlling cotton fiber formation
Cotton fibers are single cell-derived structures from ovule epidermis. Very little is known about their molecular control. Based on the fact that both trichomes and fibers are derived from single cells, we have identified numerous MYB genes expressed during fiber formation. In particular, one gene known asGhMYB109is specifically expressed in fiber initials and elongating fibers, suggesting that it likely controls these steps. Currently, we are disecting its function through a transgenic approach. - RECENT MAJOR PUBICATIONS
(see http://plantbiol.genetics.ac.cn/yjcg/ for a complete list)
Research Papers:1.CNCB-NGDC Members and Partners (2022). Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Research, 50(D1), D27–D38.2.Zhang, Y., Li, Z., Zhang, Y., Lin, K., Peng, Y., Ye, L., Zhuang, Y., Wang, M., Xie, Y., Guo, J., Teng, W., Tong, Y., Zhang, W., Xue, Y., Lang, Z., & Zhang, Y. (2021). Evolutionary rewiring of the wheat transcriptional regulatory network by lineage-specific transposable elements. Genome Research, 31(12), 2276–2289.3.Liu, Q., Du, Z., Zhu, S., Zhao, W., Chen, H., & Xue, Y. (2021). Metagenomic evidence for the co-existence of SARS and H1N1 in patients from 2007-2012 flu seasons in France. Biosafety and Health.4.CNCB-NGDC Members and Partners (2021). Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Research, 49(D1), D18–D28.5.Wu, C. I., Wen, H., Lu, J., Su, X. D., Hughes, A. C., Zhai, W., Chen, C., Chen, H., Li, M., Song, S., Qian, Z., Wang, Q., Chen, B., Guo, Z., Ruan, Y., Lu, X., Wei, F., Jin, L., Kang, L., Xue, Y., … Zhang, Y. P. (2021). On the origin of SARS-CoV-2-The blind watchmaker argument. Science China. Life sciences, 64(9), 1560–1563.6.Zhao, S., Sha, T., Xue, Y., Wu, C. I., & Chen, H. (2021). Will the large-scale vaccination succeed in containing the covid-19 epidemic and how soon? Quantitative Biology.7.Wang, Q., Chen, H., Shi, Y., Hughes, A. C., Liu, W. J., Jiang, J., Gao, G. F., Xue, Y., & Tong, Y. (2021). Tracing the origins of SARS-CoV-2: lessons learned from the past. Cell Research, 31(11), 1139–1141.8.Wang, M., Li, Z., Zhang, Y., Zhang, Y., Xie, Y., Ye, L., Zhuang, Y., Lin, K., Zhao, F., Guo, J., Teng, W., Zhang, W., Tong, Y., Xue, Y., & Zhang, Y. (2021). An atlas of wheat epigenetic regulatory elements reveals subgenome divergence in the regulation of development and stress responses. The Plant Cell, 33(4), 865–881.9.Zhao, H., Song, Y., Li, J., Zhang, Y., Huang, H., Li, Q., Zhang, Y., & Xue, Y. (2021). Primary restriction of S-RNase cytotoxicity by a stepwise ubiquitination and degradation pathway in Petunia hybrida. The New Phytologist, 231(3), 1249–1264.10.Song, S., Ma, L., Zou, D., Tian, D., Li, C., Zhu, J., Chen, M., Wang, A., Ma, Y., Li, M., Teng, X., Cui, Y., Duan, G., Zhang, M., Jin, T., Shi, C., Du, Z., Zhang, Y., Liu, C., Li, R., … Bao, Y. (2020). The Global Landscape of SARS-CoV-2 Genomes, Variants, and Haplotypes in 2019nCoVR. Genomics, Proteomics & Bioinformatics, 18(6), 749–759.11.Gong, Z., Zhu, J. W., Li, C. P., Jiang, S., Ma, L. N., Tang, B. X., Zou, D., Chen, M. L., Sun, Y. B., Song, S. H., Zhang, Z., Xiao, J. F., Xue, Y. B., Bao, Y. M., Du, Z. L., & Zhao, W. M. (2020). An online coronavirus analysis platform from the National Genomics Data Center. Zoological Research, 41(6), 705–708.12.Li, X., Chen, Z., Zhang, G., Lu, H., Qin, P., Qi, M., Yu, Y., Jiao, B., Zhao, X., Gao, Q., Wang, H., Wu, Y., Ma, J., Zhang, L., Wang, Y., Deng, L., Yao, S., Cheng, Z., Yu, D., Zhu, L., … Liang, C. (2020). Analysis of genetic architecture and favorable allele usage of agronomic traits in a large collection of Chinese rice accessions. Science China. Life Sciences, 63(11), 1688–1702.13.CNCB-NGDC Members and Partners (2021). Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Research, 49(D1), D18–D28.14.Zhao, W., Qu, X., Zhuang, Y., Wang, L., Bosch, M., Franklin-Tong, V. E., Xue, Y., & Huang, S. (2020). Villin controls the formation and enlargement of punctate actin foci in pollen tubes. Journal of Cell Science, 133(6), jcs237404.15.Liu, Q., Zhao, S., Shi, C. M., Song, S., Zhu, S., Su, Y., Zhao, W., Li, M., Bao, Y., Xue, Y., & Chen, H. (2020). Population Genetics of SARS-CoV-2: Disentangling Effects of Sampling Bias and Infection Clusters. Genomics, Proteomics & Bioinformatics, 18(6), 640–647.16.Zhao, W. M., Song, S. H., Chen, M. L., Zou, D., Ma, L. N., Ma, Y. K., Li, R. J., Hao, L. L., Li, C. P., Tian, D. M., Tang, B. X., Wang, Y. Q., Zhu, J. W., Chen, H. X., Zhang, Z., Xue, Y. B., & Bao, Y. M. (2020). The 2019 novel coronavirus resource. Yi chuan = Hereditas, 42(2), 212–221.17.Yarra, R., & Xue, Y. (2020). Ectopic expression of nucleolar DEAD-Box RNA helicase OsTOGR1 confers improved heat stress tolerance in transgenic Chinese cabbage. Plant Cell Reports, 39(12), 1803–1814.18.Li, Z., Wang, M., Lin, K., Xie, Y., Guo, J., Ye, L., Zhuang, Y., Teng, W., Ran, X., Tong, Y., Xue, Y., Zhang, W., & Zhang, Y. (2019). The bread wheat epigenomic map reveals distinct chromatin architectural and evolutionary features of functional genetic elements. Genome Biology, 20(1), 139.19.Li, M., Zhang, D., Gao, Q., Luo, Y., Zhang, H., Ma, B., Chen, C., Whibley, A., Zhang, Y., Cao, Y., Li, Q., Guo, H., Li, J., Song, Y., Zhang, Y., Copsey, L., Li, Y., Li, X., Qi, M., Wang, J., … Xue, Y. (2019). Genome structure and evolution of Antirrhinum majus L. Nature Plants, 5(2), 174–183.20.Pervaiz, N., Shakeel, N., Qasim, A., Zehra, R., Anwar, S., Rana, N., Xue, Y., Zhang, Z., Bao, Y., & Abbasi, A. A. (2019). Evolutionary history of the human multigene families reveals widespread gene duplications throughout the history of animals. BMC Evolutionary Biology, 19(1), 128.21.薛勇彪.(2018).面向国家重大需求打造国际一流研究所——庆祝中国科学院北京基因组研究所成立15周年. 遗传(11),925-928.22.BIG Data Center Members (2019). Database Resources of the BIG Data Center in 2019. Nucleic Acids Research, 47(D1), D8–D14.23.Zhang, Z., Zhang, B., Chen, Z., Zhang, D., Zhang, H., Wang, H., Zhang, Y., Cai, D., Liu, J., Xiao, S., Huo, Y., Liu, J., Zhang, L., Wang, M., Liu, X., Xue, Y., Zhao, L., Zhou, Y., & Chen, H. (2018). A PECTIN METHYLESTERASE gene at the maize Ga1 locus confers male function in unilateral cross-incompatibility. Nature Communications, 9(1), 3678.24.Xue Y. (2018). The Chinese garden of genetics -celebrating 40th anniversary of Genetics Society of China. Journal of Genetics and Genomics = Yi chuan xue bao, 45(1), 1.25.Tavares, H., Whibley, A., Field, D. L., Bradley, D., Couchman, M., Copsey, L., Elleouet, J., Burrus, M., Andalo, C., Li, M., Li, Q., Xue, Y., Rebocho, A. B., Barton, N. H., & Coen, E. (2018). Selection and gene flow shape genomic islands that control floral guides. Proceedings of the National Academy of Sciences of the United States of America, 115(43), 11006–11011.26.Qu, X., Zhang, R., Zhang, M., Diao, M., Xue, Y., & Huang, S. (2017). Organizational Innovation of Apical Actin Filaments Drives Rapid Pollen Tube Growth and Turning. Molecular Plant, 10(7), 930–947.27.Bradley, D., Xu, P., Mohorianu, I. I., Whibley, A., Field, D., Tavares, H., Couchman, M., Copsey, L., Carpenter, R., Li, M., Li, Q., Xue, Y., Dalmay, T., & Coen, E. (2017). Evolution of flower color pattern through selection on regulatory small RNAs. Science (New York, N.Y.), 358(6365), 925–928.28.Li, J., Zhang, Y., Song, Y., Zhang, H., Fan, J., Li, Q., Zhang, D., and Xue, Y.(2017) Electrostatic potentials of the S-locus F-box proteins contribute to the pollen S specificity in self-incompatibility in Petunia hybrida. Plant J 89, 45-57.29.Zhang, B., Wu,S., Zhang Y., Xu, T., Guo, F., Tang, H., Li, X., Wang, P., Qian, W., Xue Y.,(2016) A High Temperature-Dependent Mitochondrial Lipase EXTRA GLUME1 Promotes Floral Phenotypic Robustness against Temperature Fluctuation in Rice (Oryza sativa L.). 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34.Xu, C., Li, M., Wu, J., Guo, H., Li, Q., Zhang, Y., Chai, J., Li, T., Xue, Y. (2013) Identification of a canonical SCFSLF complex involved in S-RNase-based self-incompatibility of Pyrus (Rosaceae). Plant Mol. Biol. 81:245-257
35.Duan,Y. , Xing, Z., Diao, Z., Xu, W., Li, S., Du, X., Wu, G., Wang, C., Lan, T., Meng, Z., Liu, H., Wang, F., Wu, W., Xue, Y. (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
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39.Xu, W., Yang, R., Li, M., Xing, Z., Yang, W., Chen, G., Guo, H., Gong, Z., Du, Z., Zhang, Z., Hu, X., Wang, D., Qian, Q., Wang, T., Su, Z., Xue, Y. (2011) Transcriptome phase distribution analysis reveals diurnal regulated biological processes and key pathways in rice flag leaves and seedling leaves. PLoS One 6: e17613
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47.Zhang, Y., Xu, W., Li, Z., Deng, X., Wu, W., Xue, Y. (2008) F-box protein DOR functions as a novel inhibitory factor for ABA-induced stomatal closure under drought stress in Arabidopsis thaliana. Plant Physiol. 148:2121-2133
48.Xu, S., Deng, Z., Chong, K., Xue, Y., Wang, T. (2008) Dynamic proteomic analysis reveals a switch between central carbon metabolism and alcoholic fermentation in Oryza sativa filling grains. Plant Physiol. 148:908-925
49.Pu, L., Li, Q., Fan, X., Yang, W., Xue, Y. (2008) A R2R3 MYB transcription factor GhMYB109 is required for cotton fiber development. Genetics 180:811-820
50.Chen, J., Ding, J., Ouyang, Y., Du, H., Yang, J., Cheng, K., Zhao, J., Qiu, S., Zhang, X., Yao, J., Liu, K., Wang, L., Xu, C., Li, X., Xue, Y., Xia, M., Ji, Q., Lu, J., Xu. M., Zhang, Q. (2008) A tri-allelic system of S5 is a major regulator of the reproductive barrier and compatibility of indica-japonica hybrids in rice. Proc. Natl. Acad. Sci. USA 105:11436-11441
51.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
52.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
53.Zhang, D., Yang, Q., Ding, Y., Cao, X., Xue, Y., Cheng, Z. (2008) Cytological characterization of the tandem repetitive sequences and their methylation status in Antirrhinum majus genome. Genomics 92:107-114
54.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
55.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. 144:1797-181256. Yang, Q., Zhang, D., Li, Q., Cheng, Z., Xue, Y. (2007) Heterochromatic and genetic features are consistent with recombination suppression of the self-incompatibility (S)-locus in Antirrhinum. Plant J. 51:140-15157. Wang, X, Zhang, Y., Ma, Q., Zhang, Z., Xu, Z., Xue, Y., Bao, S., Chong, K. (2007) SKB1-mediated symmetric dimethylation of histone H4R3 controls flowering time in Arabidopsis. EMBO J. 26:1934-194158. Dai, S., Chen, T., Chong, K., Xue, Y., Li, S., Wang, T. (2007) Proteomic identification of differentially expressed proteins associated with pollen germination and tube growth reveals characteristics of germinated Oryza sativa pollen. Mol. Cell. Proteomics 6:207-23059. Kong, Z., Li, M., Yang, W., Xu, W., Xue, Y. (2006) A novel nuclear-localized CCCH-type zinc finger protein, OsDOS, is involved in delaying leaf senescence in rice (Oryza sativa L.). Plant Physiol. 141:1376-138860. Huang, J., Zhao, L., Yang, Q., Xue, Y. (2006) AhSSK1, a novel SKP1-like protein that interacts with the S-Locus F-box protein. Plant J. 46:780-79361. Dai, S., Li, L., Chen, T., Chong, K., Xue, Y., Wang, T. (2006) Proteomic analyses of Oryza sativa mature pollen reveal novel proteins associated potentially with pollen germination and tube growth. Proteomics 6:2504-252962. Dong, L., Wang, L., Zhang, Y., Zhang, Y., Deng, X., Xue, Y. (2006) An auxin-inducible F-box protein CEGENDUO negatively regulates auxin-mediated lateral root formation in Arabidopsis. Plant Mol Biol. 60:599-61663.Lan, L., Li, M., Lai, Y., Xu, W., Kong, Z., Ying, K., Han, B., Xue, Y. (2005) Microarray analysis reveals similarities and variations in genetic programs involved in pollination/fertilization and stress responses in rice (Oryza sativa L.). Plant Mol Biol 59:151-16464.Wang, Z., Liang, Y., Li, C., Xu, Y., Lan, L., Chen, C., Xu, Z., Xue, Y., Chong, K. (2005) Identification of anther development-related genes by gene expression profiling with a 10-K cDNA microarray in rice (Oryza sativa L.). Plant Mol Biol 58:721-73765.Causier, B., Castillo, R., Zhou, J., Ingram, R., Xue, Y., Schwarz-Sommer, Z., Davies, B. (2005) Evolution in action:following function in duplicated floral homeotic genes. Curr. Biol. 15:1508-151266.Wang, L., Dong, L., Zhang, Y. E., Zhang, Y., Wu, W., Deng, X.W., Xue, Y. (2005) Genome-wide analysis of S-locus F-box –like genes in Arabidopsis thaliana. Plant Mol Biol 56:929-94567.Qiao, H., Wang, F., Zhao, L., Zhou, J., Lai, Z., Zhang, Y., Robbins, T., Y., Xue, Y. (2004) The F-box protein AhSLF-S2 controls the pollen function of S-RNase-based self-incompatibility. Plant Cell 16:2307-232268.Lan, L., Chen, W., Lai, Y., Suo, J., Kong, Z., Li, C., Lu, Y., Zhang, Y., Zhao, X., Zhang, X., Han, B., Cheng, J., Xue, Y. (2004) Monitoring of gene expression profiles and isolation of candidate genes involved in pollination and fertilization in rice (Oryza sativa L.) using a 10K cDNA microarray. Plant Mol Biol 54:471-48769.Qiao, H., Wang, H., Zhao, L., Zhou, J., Huang, J., Zhang, Y., Xue, Y. (2004) The F-box protein AhSLF-S2 physically interacts with S-RNases that are inhibited by the ubiquitin/26S proteasome pathway of protein degradation during compatible pollination in Antirrhinum.Plant Cell 16:582-295Reviews and Book Chapters:1.Chen, G., Zhang, B., Zhao, Z., Sui, Z., Zhang, H., Xue, Y. (2010) “A life or death decision” for pollen tubes in S-RNase-based self-incompatibility. J. Exp. Bot. 61:2027-2037
2.Zhang, Y., Zhao, Z., Xue, Y. (2009) Roles of proteolysis in plant self-incompatibility. Ann. Rev. Plant Biol. 60:21-42
3.Zhang, Q., Li, J., Xue, Y., Han, B., Deng, X. (2008) Rice 2020: A call for an international coordinated effort in rice functional genomics. Mol Plant 1:715-719
4.Li, C., Zhao, J., Jiang, H., Geng, Y., Dai, Y., Fan, H., Zhang, D., Chen, J., Lu, F., Shi, J., Sun, S., Chen, J., Yang, X., Lu, C., Chen, C., Cheng, Z., Ling, H., Wang, Y., Xue, Y., Li, C. (2008) A snapshot of the Chinese SOL Project. JGG 35: 387-390
5.Zhang, Y., Xue, Y. (2008) Molecular biology of S-RNase-based self-incompatibility. Pages 193-215 in Franklin-Tong, V. E. (ed.) Self-Incompatibility in Flowering Plants: Evolution, Diversity and Mechanisms, Springer-Verlag6. Wang, Y., Xue, Y. and Li, J. (2005) Towards molecular breeding and improvement of rice in China. Trends Plant Sci. 10:610-614
Faculty
