D

Xing Wang Deng

Email:deng@pku.edu.cn

Fax:

Tel: 86-010-62765439

The research field:
Plant Photomorphogenesis, Agricultural Biotechnology, Plant Hybrid Vigor, Applied Plant Bioinformatics

Introduction

EDUCATION:  

1985.9-1989.4: Ph.D, Plant Biology, University of California at Berkeley, USA. 

1982.9-1985.7: M.S, Plant Physiology, Department of Biology, Peking University, Beijing,China. 

1978.9-1982.7: B.S, Biology, Department of Biology, Peking University, Beijing, China. 

PROFESSIONAL EXPERIENCE:

2014.7.1-present:           

Dean, School of Advanced Agricultural Sciences,Peking University, China;

University Endowed Professor, School of Life Sciences, Peking University, China

2013 to present:           

Member of US National Academy of Sciences

2000.7-2014.6.30:         

Cheung Kong Chair Professor, School of Life Sciences, Peking University, China

2003.5-2014.6.30:         

Daniel C. Eaton Professor, Department of Molecular, Cellular and Developmental Biology, 

Yale University, USA

2001.7-2014.6.30:         

Full Professor, Department of Molecular, Cellular and Developmental Biology, Yale University, USA

2000.10-present:

Director (Part-time), Peking-Yale Joint Centre for Plant Genetics and Agri-Biotechnology,

Peking University, China

2003-2008:

Co-director (part-time), National Institute of Biological Sciences, Beijing, China

1998.7-2001.6:              

Associate Professor with tenure, Department of Molecular, Cellular and Developmental Biology, 

Yale University, USA

1995.7-1998.6:

Associate Professor with term, Department of Molecular, Cellular and Developmental Biology, 

Yale University, USA

1992.1-1995.6:

Assistant professor, Department of Molecular, Cellular and Developmental Biology, 

Yale University, USA

1989.5-1991.12:

Postdoc research on Plant Molecular Biology, University of California at Berkeley, USA

Plant Gene Research Center, United States Department of Agriculture, USA

SOCIETY:

Member of the American Society of Plant Physiologists

Member of the American Society for the Advancement of Science

EXTRAMURAL SERVICES

Organizer, The 2011 International Symposium of Plant Photobiology, 2-6 July, Beijing, China

Organizer and Chairman of the 18th International Conference on Arabidopsis Research, June 20-23,

 2007, Beijing, China

Advisory board member of The Arabidopsis Information Research (TAIR) (2006-2008)

Chair of Multinational Arabidopsis Research Committee (2007-2008)

Co-Chair of Multinational Arabidopsis Research Committee (2006-2007)

Chair of North American Arabidopsis Research Steering Committee (2007-2008)

Member of North American Arabidopsis Research Steering Committee (2004-2008)

Scientific Advisory Board Member for Ohio State Arabidopsis Stock Center (2003- 2006)

Scientific Advisory Board Member for MPI for Plant Breeding Research (2003-2008)

Scientific Review Group Member for Samsbury Laboratory (2003)

Associate Editor for “Plant Cell” (2008-present)

Editorial Board member for “Annual Review of Plant Biology” (2010-2012)

Associate editor for “Plant Journal” (2000-2005)

Advisory board member of “Molecular Plant” (2006-present)

Associate Editor for “Journal of Integrated Plant Biology” (2004-present)

Associate editor for “Plant Molecular Biology” (1998-present)

Associate Editor for “Genes to Cell” (2000-present)

 

NOTABLE HONORS

2013: Elected member of US National Academy of Sciences 

2013: Elected fellow of American Association for Advancement of Science

2013: Beijing Outstanding Experts in Science, Technology and Management

2009:  Beijing Overseas Talents; Beijing Distinguished Specialist

2003: The Kumho Science International Award-2003 by The International Society for 

           Plant Molecular Biology (ISPMB)

1995: Presidential Faculty Fellow Award

PATENT AWARDED:

United States patent, patent No.: US6,579,716 B1, Date of patent: June 17, 2003; 

Patent title: Better emergence characteristics and improved seedling growth under low-light environments

SCIENTIFIC PUBLICATIONS

(See http://www.esi-topics.com/arab/authors/b1a.html for citation summary)

(I) Book and Monograph:

1.       Karplus,V. J., and Deng, X. W.(2007). Agricultural Biotechnology inChina: Origins and Prospects (a book with 10 chapters). Forwarded byNorman E. Borlaug. Published December 7, 2007 by Springer. 

(II) BookChapters:

13.     He,G., and Deng X. W. (2013). Chromatinand gene expression mechanisms in hybrids. Chapter 20 in Hybrid and Polyploid Genomics. John Wiley & Sons, Inc.:323-333.

12.     Li,J., Li, G., Wang, H., and Deng, X. W.(2011). Phytochrome signaling mechanisms. ArabidopsisBook9: e0148.

11.     Yanagawa, Y., Feng, S., and Deng, X. W. (2005). Light control ofplant development: a role of the ubiquitin/proteasome-mediated proteolysis.Chapter 29 in Light Sensing in Plants,pp. 253-260. Eds: Wada, M., Shimazaki, K., and Lino, M. Springer.

10.     Li, L., Wang, X., Li, X., Su, N., Stolc,V., Han, B., Li, J., Xue, Y., Wang, J., and Deng, X. W. (2004). Toward genome-wide transcriptional analysis inrice using MAS oligonucleotide tiling-path microarrays. In Rice Is Life: Scientific Perspectives For The 21st Century.Eds: Toriyama K., Heong, K. L. and Hardy, B. Proceedings of the World Rice Research Conference.

9.       Wang, H., and Deng, X. W. (2002). Phytochrome signaling mechanisms. In The Arabidopsis Book, Eds.Somerville, C. R., and Meyerowitz, E. M., AmericanSociety of Plant Biologists.

8.       Schwechheimer, C., and Deng, X. W. (2002). FPLC GelFiltration. In Arabidopsis-ALaboratory Manual pp. 226-228, Eds: Weigel, D., and Glazebrook, J. Cold Spring Harbor Laboratory Press.

7.       Schwechheimer, C., and Deng, X. W. (2002). Studyingprotein-protein interactions with the yeast two-hybid system. Chapter 9 in Molecular Plant Biology: A practicalApproach, volume II, pp. 173-198. Eds: Philip M. G. and Chris B. Oxford University Press.

6.       Habashi, J., and Deng, X. W. (2002). Nondenaturing Gel Electrophoresis of Proteins.In Arabidopsis-A Laboratory Manual.pp. 228-233, Eds: Weigel, D., and Glazebrook, J. Cold Spring Harbor Laboratory Press.

5.       Chamovitz, D.A., and Deng, X. W. (1998). Molecular approaches to biochemicalpurification: the COP9 complex paradigm. NATOASI series, vol. H104, 83-91.

4.       Kwok, S. F., and Deng, X. W. (1996). The role of he pleiotropic Arabidopsis COP/DET/FUS genes in repression of photomorphogenicdevelopment in darkness. In CurrentTopics in Plant Physiology: an american Society of Plant Physiologists Serieson [regulation of plant growth and development by light]vol. 17 pg.134-143

3.       Deng,X. W., and Gruissem, W. (1994). Chloroplast run-on transcription:determination of the transcription activity of chloroplast genes. A chapter ona published laboratory manual based on a COLDSPRING HARBOR COURSE.

2.       Melis, A., and Deng, X. W. (1987). The physiological significance of thylakoidmembrane protein phosphorylation. In Progressin Photosynthesis Research, Eds: Biggins, J. Vol. II (2):257 260. Springer.

1.       Gruissem, W., Deng, X. W., Jones, H., Stern, D, Tonkyn, J., and Zurawski, G.(1987). Transcriptional and post transcriptional regulation of chloroplast geneexpression. In Structure and Functionof Plant Genome, pp.135 148, Eds: Von Wettstein D., Chua, N. H. Plenum Press, New York.

(III) Books Translated into Chinese

2.      Published in Chinese in June 2006Mechanismsin Plant Development. Eds:Ottoline Leyser, and Stephen Day. Wiley-Blackwell,Oxford. 2002 version.

1.      Published in Chinese in February 2004Biochemistry& Molecular Biology of Plants.Eds: Bob Buchanan, Wilhelm Gruissem, and Russell Jones. American Society of Plant Physiologists, Rockville, MD, USA. 2002version.

(IV) Research Articles

274    Dong,J., Tang, D., Gao, Z., Yu, R., Li, K., He, H., Terzaghi, W., Deng, X. W. and Chen, H. (2014).Arabidopsis DE-ETIOLATED1 Represses Photomorphogenesis by Positively RegulatingPhytochrome-Interacting Factors in the Dark. Plant Cell tpc.114.130666.

273    Wang,L., Li, J., Zhou, Q., Yang, G., Ding, X. L., Li, X., Cai, C. X., Zhang, Z., Wei,H. Y., Lu, T. H., Deng, X. W. andHuang, X. H. (2014). Rare earth elements activate endocytosis in plant cells. Proc Natl Acad Sci U S A. 111:12936-12941.

272    Chen,F., Li, B., Demone, J., Charron, J.B., Shi, X., and Deng, X.W. (2014). Photoreceptor partner FHY1 has an independentrole in gene modulation and plant development under far-red light. Proc Natl Acad Sci U S A 111:11888-11893.

271    Huang,X., Ouyang, X., and Deng, X.W.(2014). Beyond repression of photomorphogenesis: role switching of COP/DET/FUSin light signaling. Curr Opin PlantBiol 21C, 96-103.

270    Ouyang,X., Huang, X., Jin, X., Chen, Z., Yang, P., Ge, H., Li, S., and Deng, X.W. (2014). Coordinatedphotomorphogenic UV-B signaling network captured by mathematical modeling. Proc Natl Acad Sci U S A 111,11539-11544.

269    Wang,Y., Fan, X., Lin, F., He, G., Terzaghi, W., Zhu, D., and Deng, X.W. (2014). Arabidopsis noncoding RNA mediates control ofphotomorphogenesis by red light. ProcNatl Acad Sci U S A 111, 10359-10364.

268    Xu,D., Lin, F., Jiang, Y., Huang, X., Li, J., Ling, J., Hettiarachchi, C.,Tellgren-Roth, C., Holm, M., and Deng,X.W. (2014). The RING-Finger E3 Ubiquitin Ligase COP1 SUPPRESSOR1Negatively Regulates COP1 Abundance in Maintaining COP1 Homeostasis inDark-Grown Arabidopsis Seedlings. PlantCell26, 1981-1991.

267    Chen,F., Li, B., Li, G., Charron, J.B., Dai, M., Shi, X., and Deng, X.W. (2014). Arabidopsis Phytochrome A Directly TargetsNumerous Promoters for Individualized Modulation of Genes in a Wide Range ofPathways. Plant Cell 26,1949-1966.

266    Jin,D., Li, B., Deng, X.W., and Wei, N.(2014). Plant COP9 signalosome subunit 5, CSN5. Plant Sci224, 54-61.

265    Huang,X., Yang, P., Ouyang, X., Chen, L., and Deng,X.W. (2014). Photoactivated UVR8-COP1 module determines photomorphogenicUV-B signaling output in Arabidopsis. PLoSGenet 10, e1004218.

264    Zhong,S., Shi, H., Xue, C., Wei, N., Guo, H., and Deng, X.W. (2014). Ethylene-orchestrated circuitry coordinates aseedling's response to soil cover and etiolated growth. Proc Natl Acad Sci U S A 111, 3913-3920.

263   Xu,D., Li, J., Gangappa, S.N., Hettiarachchi, C., Lin, F., Andersson, M.X., Jiang,Y., Deng, X.W., and Holm, M. (2014).Convergence of Light and ABA signaling on the ABI5 promoter. PLoS Genet 10, e1004197.

262    Xu,X., Paik, I., Zhu, L., Bu, Q., Huang, X., Deng,X.W., and Huq, E. (2014). PHYTOCHROME INTERACTING FACTOR1 Enhances the E3Ligase Activity of CONSTITUTIVE PHOTOMORPHOGENIC1 to Synergistically RepressPhotomorphogenesis in Arabidopsis. PlantCell26, 1992-2006.

261    Wang,Y., Wang, X., Deng, W., Fan, X., Liu, T.T., He, G., Chen, R., Terzaghi, W.,Zhu, D., and Deng, X.W. (2014).Genomic features and regulatory roles of intermediate-sized non-coding RNAs inArabidopsis. Mol Plant 7,514-527.

260    Seo,K.I., Lee, J.H., Nezames, C.D., Zhong, S., Song, E., Byun, M.O., and Deng, X.W. (2014). ABD1 is anArabidopsis DCAF substrate receptor for CUL4-DDB1-based E3 ligases that acts asa negative regulator of abscisic acid signaling. Plant Cell 26, 695-711.

259    Irigoyen,M.L., Iniesto, E., Rodriguez, L., Puga, M.I., Yanagawa, Y., Pick, E.,Strickland, E., Paz-Ares, J., Wei, N., De Jaeger, G., Rodriguez, P.L., Deng, X.W., and Rubio, V. (2014).Targeted degradation of abscisic acid receptors is mediated by the ubiquitinligase substrate adaptor DDA1 in Arabidopsis. Plant Cell 26, 712-728.

258    Chen,W., Chen, H., Zheng, T., Yu, R., Terzaghi, W.B., Li, Z., Deng, X.W., Xu, J., and He, H. (2014). Highly efficient genotypingof rice biparental populations by GoldenGate assays based on parentalresequencing. Theor Appl Genet127, 297-307.

257    Chen,S., He, H., and Deng, X.W. (2014).Allele-specific DNA methylation analyses associated with siRNAs in Arabidopsishybrids. Science China. Life sciences.

256    Chen,H., Xie, W., He, H., Yu, H., Chen, W., Li, J., Yu, R., Yao, Y., Zhang, W., He,Y., Tang, X., Zhou, F., Deng, X.W.,and Zhang, Q. (2014). A high-density SNP genotyping array for rice biology andmolecular breeding. Mol Plant 7,541-553.

255    Zhang, H., Deng, X.W., and Li, L. (2013). Analysis of allele-specific geneexpression using a target-oriented tiling microarray assay. Methods in molecular biology (Clifton,N.J.) 1067, 65-76.

254    Yu, Y., Wang, J., Zhang, Z., Quan, R.,Zhang, H., Deng, X.W., Ma, L., andHuang, R. (2013). Ethylene promotes hypocotyl growth and HY5 degradation byenhancing the movement of COP1 to the nucleus in the light. PLoS Genet 9, e1004025.

253    Wang, J., Yu, Y., Zhang, Z., Quan, R.,Zhang, H., Ma, L., Deng, X.W., andHuang, R. (2013). Arabidopsis CSN5B interacts with VTC1 and modulates ascorbicacid synthesis. Plant Cell 25,625-636.

252    Shi, H., Zhong, S., Mo, X., Liu, N.,Nezames, C.D., and Deng, X.W.(2013). HFR1 sequesters PIF1 to govern the transcriptional network underlyinglight-initiated seed germination in Arabidopsis. Plant Cell25, 3770-3784.

251    Liu, T.T., Zhu, D., Chen, W., Deng, W., He,H., He, G., Bai, B., Qi, Y., Chen, R., and Deng,X.W. (2013). A global identification and analysis of small nucleolar RNAsand possible intermediate-sized non-coding RNAs in Oryza sativa. Mol Plant 6, 830-846.

250    Liu, C., Guo, L.Q., Menon, S., Jin, D.,Pick, E., Wang, X., Deng, X.W., andWei, N. (2013). COP9 signalosome subunit Csn8 is involved in maintaining properduration of the G1 phase. J Biol Chem288, 20443-20452.

249    Li, J., Yang, L., Jin, D., Nezames, C.D.,Terzaghi, W., and Deng, X.W. (2013).UV-B-induced photomorphogenesis in Arabidopsis. Protein & cell 4, 485-492.

248    Li, B., Duan, H., Li, J., Deng, X.W., Yin, W., and Xia, X.(2013). Global identification of miRNAs and targets in Populus euphratica undersalt stress. Plant Mol Biol 81,525-539.

247    Huang, X., Ouyang, X., Yang, P., Lau, O.S.,Chen, L., Wei, N., and Deng, X.W.(2013). Conversion from CUL4-based COP1-SPA E3 apparatus to UVR8-COP1-SPAcomplexes underlies a distinct biochemical function of COP1 under UV-B. Proc Natl Acad Sci U S A 110,16669-16674.

246    Huang, X., and Deng, X.W. (2013). Organization of protein complexes underphotomorphogenic UV-B in Arabidopsis. PlantSignal Behav 8.

245    He, G., He, H., and Deng, X.W. (2013). Epigenetic variations in plant hybrids and theirpotential roles in heterosis. J GenetGenomics 40, 205-210.

244    He, G., Chen, B., Wang, X., Li, X., Li, J.,He, H., Yang, M., Lu, L., Qi, Y., and Deng,X.W. (2013). Conservation and divergence of transcriptomic and epigenomicvariation in maize hybrids. GenomeBiol14, R57.

243    Guo, L., Nezames, C.D., Sheng, L., Deng, X.W., and Wei, N. (2013).Cullin-RING ubiquitin ligase family in plant abiotic stress pathways(F). J Integr Plant Biol 55,21-30.

242    Franciosini, A., Lombardi, B., Iafrate, S.,Pecce, V., Mele, G., Lupacchini, L., Rinaldi, G., Kondou, Y., Gusmaroli, G.,Aki, S., Tsuge, T., Deng, X.W.,Matsui, M., Vittorioso, P., Costantino, P., and Serino, G. (2013). TheArabidopsis COP9 SIGNALOSOME INTERACTING F-BOX KELCH 1 protein forms an SCFubiquitin ligase and regulates hypocotyl elongation. Mol Plant 6, 1616-1629.

241    Dai, M., Xue, Q., McCray, T., Margavage, K.,Chen, F., Lee, J.H., Nezames, C.D., Guo, L., Terzaghi, W., Wan, J., Deng, X.W., and Wang, H. (2013). ThePP6 Phosphatase Regulates ABI5 Phosphorylation and Abscisic Acid Signaling inArabidopsis. Plant Cell 25,517-534.

240    Chen, H., He, H., Zhou, F., Yu, H., and Deng, X.W. (2013). Development ofgenomics-based genotyping platforms and their applications in rice breeding. Curr Opin Plant Biol 16,247-254.

239    Bowler, C., Botto, J., and Deng, X.W. (2013). Photomorphogenesis,B-Box transcription factors, and the legacy of Magnus Holm. Plant Cell 25, 1192-1195.

238    Zhu, D., and Deng, X.W. (2012). A non-coding RNA locus mediatesenvironment-conditioned male sterility in rice. Cell Res 22, 791-792.

237    Zhou, H., Zhao, J., Yang, Y., Chen, C., Liu,Y., Jin, X., Chen, L., Li, X., Deng,X.W., Schumaker, K.S., and Guo, Y. (2012). Ubiquitin-specific protease16modulates salt tolerance in Arabidopsis by regulating Na(+)/H(+) antiportactivity and serine hydroxymethyltransferase stability. Plant Cell 24, 5106-5122.

236    Zhong, S., Shi, H., Xue, C., Wang, L., Xi,Y., Li, J., Quail, P.H., Deng, X.W.,and Guo, H. (2012). A molecular framework of light-controlled phytohormoneaction in Arabidopsis. Curr Biol22, 1530-1535.

235    Zhao, J., Huang, X., Ouyang, X., Chen, W.,Du, A., Zhu, L., Wang, S., Deng, X.W.,and Li, S. (2012). OsELF3-1, an ortholog of Arabidopsis early flowering 3,regulates rice circadian rhythm and photoperiodic flowering. PLoS One 7, e43705.

234    Yang, D.L., Yao, J., Mei, C.S., Tong, X.H.,Zeng, L.J., Li, Q., Xiao, L.T., Sun, T.P., Li, J., Deng, X.W., Lee, C.M., Thomashow, M.F., Yang, Y., He, Z., and He,S.Y. (2012). Plant hormone jasmonate prioritizes defense over growth byinterfering with gibberellin signaling cascade. Proc Natl Acad Sci U S A 109, E1192-1200.

233    Wu, D., Hu, Q., Yan, Z., Chen, W., Yan, C.,Huang, X., Zhang, J., Yang, P., Deng, H., Wang, J., Deng, X.W., and Shi, Y. (2012). Structural basis of ultraviolet-Bperception by UVR8. Nature 484,214-219.

232    Shen, H., He, H., Li, J., Chen, W., Wang,X., Guo, L., Peng, Z., He, G., Zhong, S., Qi, Y., Terzaghi, W., and Deng, X.W. (2012). Genome-wide analysisof DNA methylation and gene expression changes in two Arabidopsis ecotypes andtheir reciprocal hybrids. Plant Cell24, 875-892.

231    Nezames, C.D., and Deng, X.W. (2012). The COP9 signalosome: its regulation of cullin-basedE3 ubiquitin ligases and role in photomorphogenesis. Plant Physiol 160, 38-46.

230    Li, J., Terzaghi, W., and Deng, X.W. (2012). Genomic basis forlight control of plant development. Protein& cell 3, 106-116.

229    Lau, O.S., and Deng, X.W. (2012). The photomorphogenic repressors COP1 and DET1:20 years later. Trends Plant Sci17, 584-593.

228    Huang, X., Ouyang, X., Yang, P., Lau, O.S.,Li, G., Li, J., Chen, H., and Deng, X.W.(2012). Arabidopsis FHY3 and HY5 positively mediate induction of COP1 transcriptionin response to photomorphogenic UV-B light. PlantCell 24, 4590-4606.

227    Fan, D., Dai, Y., Wang, X., Wang, Z., He,H., Yang, H., Cao, Y., Deng, X.W.,and Ma, L. (2012). IBM1, a JmjC domain-containing histone demethylase, isinvolved in the regulation of RNA-directed DNA methylation through theepigenetic control of RDR2 and DCL3 expression in Arabidopsis. Nucleic Acids Res 40,8905-8916.

226    Dai, M., Zhang, C., Kania, U., Chen, F.,Xue, Q., McCray, T., Li, G., Qin, G., Wakeley, M., Terzaghi, W., Wan, J., Zhao,Y., Xu, J., Friml, J., Deng, X.W.,and Wang, H. (2012). A PP6-type phosphatase holoenzyme directly regulates PINphosphorylation and auxin efflux in Arabidopsis. Plant Cell 24, 2497-2514.

225    Chen, H., Chen, W., Zhou, J., He, H., Chen,L., and Deng, X.W. (2012). Basicleucine zipper transcription factor OsbZIP16 positively regulates droughtresistance in rice. Plant Sci 193-194,8-17.

224    Chen, F., Shi, X., Chen, L., Dai, M., Zhou,Z., Shen, Y., Li, J., Li, G., Wei, N., and Deng,X.W. (2012). Phosphorylation of FAR-RED ELONGATED HYPOCOTYL1 is a keymechanism defining signaling dynamics of phytochrome A under red and far-redlight in Arabidopsis. Plant Cell24, 1907-1920.

223    Zhang, H., He, H., Wang, X., Yang, X., Li,L., and Deng, X.W. (2011).Genome-wide mapping of the HY5-mediated gene networks in Arabidopsis thatinvolve both transcriptional and post-transcriptional regulation. Plant J 65, 346-358.

222   Zang, B., Li, H., Li, W., Deng, X.W., and Wang, X. (2011).Analysis of trehalose-6-phosphate synthase (TPS) gene family suggests theformation of TPS complexes in rice. PlantMol Biol 76, 507-522.

221    Wang, F., and Deng, X.W. (2011). Plant ubiquitin-proteasome pathway and its rolein gibberellin signaling. Cell Res21, 1286-1294.

220    Ouyang, X., Li, J., Li, G., Li, B., Chen,B., Shen, H., Huang, X., Mo, X., Wan, X., Lin, R., Li, S., Wang, H., and Deng, X.W. (2011). Genome-wide bindingsite analysis of FAR-RED ELONGATED HYPOCOTYL3 reveals its novel function inArabidopsis development. Plant Cell23, 2514-2535.

219    Lozano-Duran, R., Rosas-Diaz, T., Gusmaroli,G., Luna, A.P., Taconnat, L., Deng, X.W.,and Bejarano, E.R. (2011). Geminiviruses subvert ubiquitination by alteringCSN-mediated derubylation of SCF E3 ligase complexes and inhibit jasmonatesignaling in Arabidopsis thaliana. PlantCell 23, 1014-1032.

218    Li, W., Zang, B., Liu, C., Lu, L., Wei, N.,Cao, K., Deng, X.W., and Wang, X.(2011). TSA1 interacts with CSN1/CSN and may be functionally involved inArabidopsis seedling development in darkness. J Genet Genomics 38, 539-546.

217    Li, H.W., Zang, B.S., Deng, X.W., and Wang, X.P. (2011). Overexpression of thetrehalose-6-phosphate synthase gene OsTPS1 enhances abiotic stress tolerance inrice. Planta 234,1007-1018.

216    Li, G., Siddiqui, H., Teng, Y., Lin, R.,Wan, X.Y., Li, J., Lau, O.S., Ouyang, X., Dai, M., Wan, J., Devlin, P.F., Deng, X.W., and Wang, H. (2011).Coordinated transcriptional regulation underlying the circadian clock inArabidopsis. Nat Cell Biol 13,616-622.

215    Lee, J.H., Terzaghi, W., and Deng, X.W. (2011). DWA3, an ArabidopsisDWD protein, acts as a negative regulator in ABA signal transduction. Plant Sci 180, 352-357.

214    Lau, O.S., Huang, X., Charron, J.B., Lee,J.H., Li, G., and Deng, X.W. (2011).Interaction of Arabidopsis DET1 with CCA1 and LHY in mediating transcriptionalrepression in the plant circadian clock. MolCell43, 703-712.

213   He, G., Elling, A.A., and Deng, X.W. (2011). The epigenome andplant development. Annu Rev Plant Biol62, 411-435.

212    Cui, H., Hao, Y., Kovtun, M., Stolc, V., Deng, X.W., Sakakibara, H., and Kojima,M. (2011). Genome-wide direct target analysis reveals a role for SHORT-ROOT inroot vascular patterning through cytokinin homeostasis. Plant Physiol 157, 1221-1231.

211    Chen, H., He, H., Zou, Y., Chen, W., Yu, R.,Liu, X., Yang, Y., Gao, Y.M., Xu, J.L., Fan, L.M., Li, Y., Li, Z.K., and Deng, X.W. (2011). Development andapplication of a set of breeder-friendly SNP markers for genetic analyses andmolecular breeding of rice (Oryza sativa L.). Theor Appl Genet 123, 869-879.

210    Zhou, J., Wang, X., He, K., Charron, J.B.,Elling, A.A., and Deng, X.W. (2010).Genome-wide profiling of histone H3 lysine 9 acetylation and dimethylation inArabidopsis reveals correlation between multiple histone marks and geneexpression. Plant Mol Biol 72,585-595.

209    Yang, Y., Qin, Y., Xie, C., Zhao, F., Zhao,J., Liu, D., Chen, S., Fuglsang, A.T., Palmgren, M.G., Schumaker, K.S., Deng, X.W., and Guo, Y. (2010). TheArabidopsis chaperone J3 regulates the plasma membrane H+-ATPase throughinteraction with the PKS5 kinase. PlantCell 22, 1313-1332.

208    Li, J., Li, G., Gao, S., Martinez, C., He,G., Zhou, Z., Huang, X., Lee, J.H., Zhang, H., Shen, Y., Wang, H., and Deng, X.W. (2010). Arabidopsistranscription factor ELONGATED HYPOCOTYL5 plays a role in the feedbackregulation of phytochrome A signaling. PlantCell 22, 3634-3649.

207    Lee, J.H., Yoon, H.J., Terzaghi, W.,Martinez, C., Dai, M., Li, J., Byun, M.O., and Deng, X.W. (2010). DWA1 and DWA2, two Arabidopsis DWD proteincomponents of CUL4-based E3 ligases, act together as negative regulators in ABAsignal transduction. Plant Cell22, 1716-1732.

206    Lau, O.S., and Deng, X.W. (2010). Plant hormone signaling lightens up: integratorsof light and hormones. Curr Opin PlantBiol 13, 571-577.

205    Kong, Y.M., Elling, A. A., Chen, B., and Deng, X.W. (2010). DifferentialExpression of microRNAs in Maize Inbred and Hybrid Lines During Salt andDrought Stress. Am J Plant Sci1, 69-76.

204    He, H., Zhang, H., Wang, X., Wu, N., Yang,X., Chen, R., Li, Y., Deng, X.W.,and Li, L. (2010). Development of a versatile, target-oriented tilingmicroarray assay for measuring allele-specific gene expression. Genomics 96, 308-315.

203    He, G., Zhu, X., Elling, A.A., Chen, L.,Wang, X., Guo, L., Liang, M., He, H., Zhang, H., Chen, F., Qi, Y., Chen, R.,and Deng, X.W. (2010). Globalepigenetic and transcriptional trends among two rice subspecies and theirreciprocal hybrids. Plant Cell22, 17-33.

202   Chen, H., Huang, X., Gusmaroli, G., Terzaghi,W., Lau, O.S., Yanagawa, Y., Zhang, Y., Li, J., Lee, J.H., Zhu, D., and Deng, X.W. (2010). ArabidopsisCULLIN4-damaged DNA binding protein 1 interacts with CONSTITUTIVELYPHOTOMORPHOGENIC1-SUPPRESSOR OF PHYA complexes to regulate photomorphogenesisand flowering time. Plant Cell22, 108-123.

201    Chen, F., He, G., He, H., Chen, W., Zhu, X.,Liang, M., Chen, L., and Deng, X.W.(2010). Expression analysis of miRNAs and highly-expressed small RNAs in tworice subspecies and their reciprocal hybrids. J Integr Plant Biol 52, 971-980.

200    Bai, S., Zhao, J., Zhang, Y., Huang, W., Xu,S., Chen, H., Fan, L.M., Chen, Y., and Deng,X.W. (2010). Rapid and reliable detection of 11 food-borne pathogens usingthin-film biosensor chips. ApplMicrobiol Biotechnol 86, 983-990.

199    Xie, C.G., Lin, H., Deng, X.W., and Guo, Y. (2009). Roles of SCaBP8 in salt stressresponse. Plant Signal Behav 4,956-958.

198    Wang, X., Yu, Z., Yang, X., Deng, X.W., and Li, L. (2009).Transcriptionally active gene fragments derived from potentially fast-evolvingdonor genes in the rice genome. Bioinformatics25, 1215-1218.

197    Wang, X., Li, W., Piqueras, R., Cao, K., Deng, X.W., and Wei, N. (2009).Regulation of COP1 nuclear localization by the COP9 signalosome via directinteraction with CSN1. Plant J58, 655-667.

196    Wang, X., Elling, A.A., Li, X., Li, N.,Peng, Z., He, G., Sun, H., Qi, Y., Liu, X.S., and Deng, X.W. (2009). Genome-wide and organ-specific landscapes ofepigenetic modifications and their relationships to mRNA and small RNAtranscriptomes in maize. Plant Cell21, 1053-1069.

195    Wang, F., Zhu, D., Huang, X., Li, S., Gong,Y., Yao, Q., Fu, X., Fan, L.M., and Deng,X.W. (2009). Biochemical insights on degradation of Arabidopsis DELLAproteins gained from a cell-free assay system. Plant Cell 21, 2378-2390.

194    Shen, Y., Zhou, Z., Feng, S., Li, J.,Tan-Wilson, A., Qu, L.J., Wang, H., and Deng,X.W. (2009). Phytochrome A mediates rapid red light-induced phosphorylationof Arabidopsis FAR-RED ELONGATED HYPOCOTYL1 in a low fluence response. Plant Cell 21, 494-506.

193    Rubio, V., and Deng, X.W. (2009). The dark side of clock-controlled flowering. F1000 Biol Rep 1, 57.

192    Peng, Z.Y., Zhang, H., Liu, T., Dzikiewicz,K.M., Li, S., Wang, X., Hu, G., Zhu, Z., Wei, X., Zhu, Q.H., Sun, Z., Ge, S.,Ma, L., Li, L., and Deng, X.W.(2009). Characterization of the genome expression trends in the heading-stagepanicle of six rice lineages. Genomics93, 169-178.

191    Lau, O.S., and Deng, X.W. (2009). Effect of Arabidopsis COP10 ubiquitin E2enhancement activity across E2 families and functional conservation among itscanonical homologues. Biochem J418, 683-690.

190    Jiao, Y., Tausta, S.L., Gandotra, N., Sun,N., Liu, T., Clay, N.K., Ceserani, T., Chen, M., Ma, L., Holford, M., Zhang,H.Y., Zhao, H., Deng, X.W., andNelson, T. (2009). A transcriptome atlas of rice cell types uncovers cellular,functional and developmental hierarchies. NatGenet 41, 258-263.

189    He, K., Li, X., Zhou, J., Deng, X.W., Zhao, H., and Luo, J.(2009). NTAP: for NimbleGen tiling array ChIP-chip data analysis. Bioinformatics 25,1838-1840.

188    Elling, A.A., and Deng, X.W. (2009). Next-generation sequencing reveals complexrelationships between the epigenome and transcriptome in maize. Plant Signal Behav 4,760-762.

187    Charron, J.B., He, H., Elling, A.A., and Deng, X.W. (2009). Dynamic landscapesof four histone modifications during deetiolation in Arabidopsis. Plant Cell 21, 3732-3748.

186    Zhu, D., Maier, A., Lee, J.H., Laubinger,S., Saijo, Y., Wang, H., Qu, L.J., Hoecker, U., and Deng, X.W.(2008). Biochemical characterization of Arabidopsiscomplexes containing CONSTITUTIVELY PHOTOMORPHOGENIC1 and SUPPRESSOR OF PHYAproteins in light control of plant development. Plant Cell 20, 2307-2323.

185    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 abscisicacid-induced stomatal closure under drought stress in Arabidopsis. Plant Physiol 148,2121-2133.

184    Zhang, Y., Feng, S., Chen, F., Chen, H.,Wang, J., McCall, C., Xiong, Y., and Deng,X.W. (2008). Arabidopsis DDB1-CUL4 ASSOCIATED FACTOR1 forms a nuclear E3ubiquitin ligase with DDB1 and CUL4 that is involved in multiple plantdevelopmental processes. Plant Cell20, 1437-1455.

183    Zhang, Q., Li, J., Xue, Y., Han, B., and Deng, X.W. (2008). Rice 2020: a callfor an international coordinated effort in rice functional genomics. Mol Plant 1, 715-719.

182   Zhang, H.Y., He, H., Chen, L.B., Li, L.,Liang, M.Z., Wang, X.F., Liu, X.G., He, G.M., Chen, R.S., Ma, L.G., and Deng, X.W. (2008). A genome-widetranscription analysis reveals a close correlation of promoter INDELpolymorphism and heterotic gene expression in rice hybrids. Mol Plant 1, 720-731.

181    Yu, J.W., Rubio, V., Lee, N.Y., Bai, S.,Lee, S.Y., Kim, S.S., Liu, L., Zhang, Y., Irigoyen, M.L., Sullivan, J.A., Lee,I., Xie, Q., Paek, N.C., and Deng, X.W.(2008). COP1 and ELF3 control circadian function and photoperiodic flowering byregulating GI stability. Mol Cell32, 617-630.

180    Yin, B.L., Guo, L., Zhang, D.F., Terzaghi,W., Wang, X.F., Liu, T.T., He, H., Cheng, Z.K., and Deng, X.W.(2008). Integration of cytological features withmolecular and epigenetic properties of rice chromosome 4. Mol Plant 1, 816-829.

179    Wei, N., Serino, G., and Deng, X.W. (2008). The COP9 signalosome:more than a protease. Trends BiochemSci 33, 592-600.

178    Saijo, Y., Zhu, D., Li, J., Rubio, V., Zhou,Z., Shen, Y., Hoecker, U., Wang, H., and Deng,X.W. (2008). Arabidopsis COP1/SPA1 complex and FHY1/FHY3 associate withdistinct phosphorylated forms of phytochrome A in balancing light signaling. Mol Cell 31, 607-613.

177    Liu, Y., Wang, F., Zhang, H., He, H., Ma,L., and Deng, X.W. (2008).Functional characterization of the Arabidopsis ubiquitin-specific protease genefamily reveals specific role and redundancy of individual members indevelopment. Plant J 55,844-856.

176   Li, X., Wang, X., He, K., Ma, Y., Su, N., He,H., Stolc, V., Tongprasit, W., Jin, W., Jiang, J., Terzaghi, W., Li, S., and Deng, X.W. (2008). High-resolutionmapping of epigenetic modifications of the rice genome uncovers interplaybetween DNA methylation, histone methylation, and gene expression. Plant Cell 20, 259-276.

175    Li, L., He, H., Zhang, J., Wang, X., Bai,S., Stolc, V., Tongprasit, W., Young, N.D., Yu, O., and Deng, X.W. (2008). Transcriptional analysis of highly syntenicregions between Medicago truncatula and Glycine max using tiling microarrays. Genome Biol 9, R57.

174    Lee, J.H., Terzaghi, W., Gusmaroli, G.,Charron, J.B., Yoon, H.J., Chen, H., He, Y.J., Xiong, Y., and Deng, X.W. (2008). Characterization ofArabidopsis and rice DWD proteins and their roles as substrate receptors forCUL4-RING E3 ubiquitin ligases. PlantCell 20, 152-167.

173    Jang, S., Marchal, V., Panigrahi, K.C.,Wenkel, S., Soppe, W., Deng, X.W.,Valverde, F., and Coupland, G. (2008). Arabidopsis COP1 shapes the temporalpattern of CO accumulation conferring a photoperiodic flowering response. EMBO J 27, 1277-1288.

172    Guo, L., Zhou, J., Elling, A.A., Charron,J.B., and Deng, X.W. (2008). Histonemodifications and expression of light-regulated genes in Arabidopsis arecooperatively influenced by changing light conditions. Plant Physiol 147, 2070-2083.

171    Gong, W., He, K., Covington, M.,Dinesh-Kumar, S.P., Snyder, M., Harmer, S.L., Zhu, Y.X., and Deng, X.W. (2008). The development ofprotein microarrays and their applications in DNA-protein and protein-proteininteraction analyses of Arabidopsis transcription factors. Mol Plant 1, 27-41.

170    Feng, S., Martinez, C., Gusmaroli, G., Wang,Y., Zhou, J., Wang, F., Chen, L., Yu, L., Iglesias-Pedraz, J.M., Kircher, S.,Schafer, E., Fu, X., Fan, L.M., and Deng,X.W. (2008). Coordinated regulation of Arabidopsis thaliana development bylight and gibberellins. Nature451, 475-479.

169    Chen, H., Zhang, J., Neff, M.M., Hong, S.W.,Zhang, H., Deng, X.W., and Xiong, L.(2008). Integration of light and abscisic acid signaling during seedgermination and early seedling development. ProcNatl Acad Sci U S A 105, 4495-4500.

168    Alabadi, D., Gallego-Bartolome, J., Orlando,L., Garcia-Carcel, L., Rubio, V., Martinez, C., Frigerio, M., Iglesias-Pedraz,J.M., Espinosa, A., Deng, X.W., andBlazquez, M.A. (2008). Gibberellins modulate light signaling pathways toprevent Arabidopsis seedling de-etiolation in darkness. Plant J 53, 324-335.

167    Zhou, J., Wang, X., Jiao, Y., Qin, Y., Liu,X., He, K., Chen, C., Ma, L., Wang, J., Xiong, L., Zhang, Q., Fan, L., and Deng, X.W. (2007). Global genomeexpression analysis of rice in response to drought and high-salinity stressesin shoot, flag leaf, and panicle. PlantMol Biol 63, 591-608.

166    Su, N., He, K., Jiao, Y., Chen, C., Zhou,J., Li, L., Bai, S., Li, X., and Deng,X.W. (2007). Distinct reorganization of the genome transcription associateswith organogenesis of somatic embryo, shoots, and roots in rice. Plant Mol Biol 63,337-349.

165    Serino, G., and Deng, X.W. (2007). Protein coimmunoprecipitation in Arabidopsis. CSH Protoc 2007, pdbprot4683.

164    Rubio, V., and Deng, X.W. (2007). Standing on the shoulders of GIGANTEA. Science 318, 206-207.

163    Qin, G., Gu, H., Ma, L., Peng, Y., Deng, X.W., Chen, Z., and Qu, L.J.(2007). Disruption of phytoene desaturase gene results in albino and dwarfphenotypes in Arabidopsis by impairing chlorophyll, carotenoid, and gibberellinbiosynthesis. Cell Res 17,471-482.

162    Pick, E., Lau, O.S., Tsuge, T., Menon, S.,Tong, Y., Dohmae, N., Plafker, S.M., Deng,X.W., and Wei, N. (2007). Mammalian DET1 regulates Cul4A activity and formsstable complexes with E2 ubiquitin-conjugating enzymes. Mol Cell Biol 27, 4708-4719.

161    Menon, S., Chi, H., Zhang, H., Deng, X.W., Flavell, R.A., and Wei, N.(2007). COP9 signalosome subunit 8 is essential for peripheral T cellhomeostasis and antigen receptor-induced entry into the cell cycle fromquiescence. Nat Immunol 8,1236-1245.

160    Li, L., Wang, X., Sasidharan, R., Stolc, V.,Deng, W., He, H., Korbel, J., Chen, X., Tongprasit, W., Ronald, P., Chen, R.,Gerstein, M., and Deng, X.W. (2007).Global identification and characterization of transcriptionally active regionsin the rice genome. PLoS One 2,e294.

159    Lee, J., He, K., Stolc, V., Lee, H.,Figueroa, P., Gao, Y., Tongprasit, W., Zhao, H., Lee, I., and Deng, X.W. (2007). Analysis oftranscription factor HY5 genomic binding sites revealed its hierarchical rolein light regulation of development. PlantCell 19, 731-749.

158    Jiao, Y., Lau, O.S., and Deng, X.W. (2007). Light-regulatedtranscriptional networks in higher plants. NatRev Genet 8, 217-230.

157    Jiao, Y., and Deng, X.W. (2007). A genome-wide transcriptional activity survey ofrice transposable element-related genes. GenomeBiol 8, R28.

156    Han, B., Xue, Y., Li, J., Deng, X.W., and Zhang, Q. (2007). Ricefunctional genomics research in China. PhilosTrans R Soc Lond B Biol Sci 362, 1009-1021.

155    Gusmaroli, G., Figueroa, P., Serino, G., andDeng, X.W. (2007). Role of the MPNsubunits in COP9 signalosome assembly and activity, and their regulatoryinteraction with Arabidopsis Cullin3-based E3 ligases. Plant Cell 19, 564-581.

154    Bai, S.L., Zhong, X., Ma, L., Zheng, W.,Fan, L.M., Wei, N., and Deng, X.W.(2007). A simple and reliable assay for detecting specific nucleotide sequencesin plants using optical thin-film biosensor chips. Plant J 49, 354-366.

153    Yi, C., Li, S., Wang, J., Wei, N., and Deng, X.W. (2006). Affinitypurification reveals the association of WD40 protein constitutivephotomorphogenic 1 with the hetero-oligomeric TCP-1 chaperonin complex inmammalian cells. Int J Biochem CellBiol 38, 1076-1083.

152    Wang, X., He, H., Li, L., Chen, R., Deng, X.W., and Li, S. (2006). NMPP: auser-customized NimbleGen microarray data processing pipeline. Bioinformatics 22,2955-2957.

151    Li, L., Wang, X., Stolc, V., Li, X., Zhang,D., Su, N., Tongprasit, W., Li, S., Cheng, Z., Wang, J., and Deng, X.W. (2006). Genome-wide transcriptionanalyses in rice using tiling microarrays. NatGenet 38, 124-129.

150    Li, J., Zhu, S., Song, X., Shen, Y., Chen,H., Yu, J., Yi, K., Liu, Y., Karplus, V.J., Wu, P., and Deng, X.W.(2006). A rice glutamate receptor-like gene is criticalfor the division and survival of individual cells in the root apical meristem. Plant Cell 18, 340-349.

149    Lee, J.H., Deng, X.W., and Kim, W.T. (2006). Possible role of light in themaintenance of EIN3/EIL1 stability in Arabidopsis seedlings. Biochem Bioph Res Co 350,484-491.

148    Han, Z., Guo, L., Wang, H., Shen, Y., Deng, X.W., and Chai, J. (2006).Structural basis for the specific recognition of methylated histone H3 lysine 4by the WD-40 protein WDR5. Mol Cell22, 137-144.

147    Guo, L., Yin, B., Zhou, J., Li, X., and Deng, X.W. (2006). Development ofrabbit monoclonal and polyclonal antibodies for detection of site-specifichistone modifications and their application in analyzing overall modificationlevels. Cell Res 16,519-527.

146    Dong, L., Wang, L., Zhang, Y., Deng, X.W., and Xue, Y. (2006). Anauxin-inducible F-box protein CEGENDUO negatively regulates auxin-mediatedlateral root formation in Arabidopsis. PlantMol Biol60, 599-615.

145    Datta, S., Hettiarachchi, G.H., Deng, X.W., and Holm, M. (2006).Arabidopsis CONSTANS-LIKE3 is a positive regulator of red light signaling androot growth. Plant Cell 18,70-84.

144    Chen, H., Shen, Y., Tang, X., Yu, L., Wang,J., Guo, L., Zhang, Y., Zhang, H., Feng, S., Strickland, E., Zheng, N., and Deng, X.W. (2006). Arabidopsis CULLIN4Forms an E3 Ubiquitin Ligase with RBX1 and the CDD Complex in Mediating LightControl of Development. Plant Cell18, 1991-2004.

143    Chen, H., Karplus, V.J., Ma, H., and Deng, X.W. (2006). Plant biologyresearch comes of age in China. PlantCell 18, 2855-2864.

142    Zhang, S., Chen, C., Li, L., Meng, L.,Singh, J., Jiang, N., Deng, X.W.,He, Z.H., and Lemaux, P.G. (2005). Evolutionary expansion, gene structure, andexpression of the rice wall-associated kinase gene family. Plant Physiol 139, 1107-1124.

141    Yi, C., Li, S., Chen, X., Wiemer, E.A.,Wang, J., Wei, N., and Deng, X.W.(2005). Major vault protein, in concert with constitutively photomorphogenic 1,negatively regulates c-Jun-mediated activator protein 1 transcription inmammalian cells. Cancer Res 65,5835-5840.

140    Yi, C., and Deng, X.W. (2005). COP1 - from plant photomorphogenesis tomammalian tumorigenesis. Trends CellBiol 15, 618-625.

139    Yang, J., Lin, R., Sullivan, J., Hoecker,U., Liu, B., Xu, L., Deng, X.W., andWang, H. (2005). Light regulates COP1-mediated degradation of HFR1, atranscription factor essential for light signaling in Arabidopsis. Plant Cell 17, 804-821.

138    Su, N., Sullivan, J.A., and Deng, X.W. (2005). Modulation of F1hybrid stature without altering parent plants through trans-activatedexpression of a mutated rice GAI homologue. PlantBiotechnol J 3, 157-164.

137    Stolc, V., Li, L., Wang, X., Li, X., Su, N.,Tongprasit, W., Han, B., Xue, Y., Li, J., Snyder, M., Gerstein, M., Wang, J.,and Deng, X.W. (2005). A pilot studyof transcription unit analysis in rice using oligonucleotide tiling-pathmicroarray. Plant Mol Biol 59,137-149.

136    Shen, Y., Feng, S., Ma, L., Lin, R., Qu,L.J., Chen, Z., Wang, H., and Deng, X.W.(2005). Arabidopsis FHY1 protein stability is regulated by light viaphytochrome A and 26S proteasome. PlantPhysiol 139, 1234-1243.

135    Sang, Y., Li, Q.H., Rubio, V., Zhang, Y.C.,Mao, J., Deng, X.W., and Yang, H.Q.(2005). N-terminal domain-mediated homodimerization is required forphotoreceptor activity of Arabidopsis CRYPTOCHROME 1. Plant Cell 17, 1569-1584.

134    Rubio, V., Shen, Y., Saijo, Y., Liu, Y.,Gusmaroli, G., Dinesh-Kumar, S.P., and Deng,X.W. (2005). An alternative tandem affinity purification strategy appliedto Arabidopsis protein complex isolation. PlantJ41, 767-778.

133    Rubio, V., and Deng, X.W. (2005). Phy tunes: phosphorylation status andphytochrome-mediated signaling. Cell120, 290-292.

132    Menon, S., Rubio, V., Wang, X., Deng, X.W., and Wei, N. (2005).Purification of the COP9 signalosome from porcine spleen, human cell lines, andArabidopsis thaliana plants. MethodsEnzymol 398, 468-481.

131    Ma, L., Sun, N., Liu, X., Jiao, Y., Zhao,H., and Deng, X.W. (2005).Organ-specific expression of Arabidopsis genome during development. Plant Physiol 138, 80-91.

130    Ma, L., Chen, C., Liu, X., Jiao, Y., Su, N.,Li, L., Wang, X., Cao, M., Sun, N., Zhang, X., Bao, J., Li, J., Pedersen, S.,Bolund, L., Zhao, H., Yuan, L., Wong, G.K., Wang, J., and Deng, X.W. (2005). A microarray analysis of the rice transcriptomeand its comparison to Arabidopsis. GenomeRes 15, 1274-1283.

129    Li, L., Wang, X., Xia, M., Stolc, V., Su,N., Peng, Z., Li, S., Wang, J., and Deng,X.W. (2005). Tiling microarray analysis of rice chromosome 10 to identifythe transcriptome and relate its expression to chromosomal architecture. Genome Biol 6, R52.

128    Li, L., and Deng, X.W. (2005). It runs in the family: regulation ofbrassinosteroid signaling by the BZR1-BES1 class of transcription factors. Trends Plant Sci 10,266-268.

127    Kraft, E., Stone, S.L., Ma, L., Su, N., Gao,Y., Lau, O.S., Deng, X.W., andCallis, J. (2005). Genome analysis and functional characterization of the E2and RING-type E3 ligase ubiquitination enzymes of Arabidopsis. Plant Physiol 139,1597-1611.

126    Jiao, Y., Ma, L., Strickland, E., and Deng, X.W. (2005). Conservation anddivergence of light-regulated genome expression patterns during seedlingdevelopment in rice and Arabidopsis. PlantCell 17, 3239-3256.

125    Jiao, Y., Jia, P., Wang, X., Su, N., Yu, S.,Zhang, D., Ma, L., Feng, Q., Jin, Z., Li, L., Xue, Y., Cheng, Z., Zhao, H.,Han, B., and Deng, X.W. (2005). Atiling microarray expression analysis of rice chromosome 4 suggests achromosome-level regulation of transcription. Plant Cell 17, 1641-1657.

124    Figueroa, P., Gusmaroli, G., Serino, G.,Habashi, J., Ma, L., Shen, Y., Feng, S., Bostick, M., Callis, J., Hellmann, H.,and Deng, X.W. (2005). Arabidopsishas two redundant Cullin3 proteins that are essential for embryo developmentand that interact with RBX1 and BTB proteins to form multisubunit E3 ubiquitinligase complexes in vivo. Plant Cell17, 1180-1195.

123    Feng, J.X., Liu, D., Pan, Y., Gong, W., Ma,L.G., Luo, J.C., Deng, X.W., andZhu, Y.X. (2005). An annotation update via cDNA sequence analysis and comprehensiveprofiling of developmental, hormonal or environmental responsiveness of theArabidopsis AP2/EREBP transcription factor gene family. Plant Mol Biol 59, 853-868.

122    Yanagawa, Y., Sullivan, J.A., Komatsu, S.,Gusmaroli, G., Suzuki, G., Yin, J., Ishibashi, T., Saijo, Y., Rubio, V.,Kimura, S., Wang, J., and Deng, X.W.(2004). Arabidopsis COP10 forms a complex with DDB1 and DET1 in vivo andenhances the activity of ubiquitin conjugating enzymes. Genes Dev 18, 2172-2181.

121    Wang, L., Dong, L., Zhang, Y., Wu, W., Deng, X.W., and Xue, Y. (2004).Genome-wide analysis of S-Locus F-box-like genes in Arabidopsis thaliana. Plant Mol Biol 56,929-945.

120    Gusmaroli, G., Feng, S., and Deng, X.W. (2004). The ArabidopsisCSN5A and CSN5B subunits are present in distinct COP9 signalosome complexes,and mutations in their JAMM domains exhibit differential dominant negativeeffects on development. Plant Cell16, 2984-3001.

119    Gong, W., Shen, Y.P., Ma, L.G., Pan, Y., Du,Y.L., Wang, D.H., Yang, J.Y., Hu, L.D., Liu, X.F., Dong, C.X., Ma, L., Chen,Y.H., Yang, X.Y., Gao, Y., Zhu, D., Tan, X., Mu, J.Y., Zhang, D.B., Liu, Y.L.,Dinesh-Kumar, S.P., Li, Y., Wang, X.P., Gu, H.Y., Qu, L.J., Bai, S.N., Lu,Y.T., Li, J.Y., Zhao, J.D., Zuo, J., Huang, H., Deng, X.W., and Zhu, Y.X. (2004). Genome-wide ORFeome cloning andanalysis of Arabidopsis transcription factor genes. Plant Physiol 135, 773-782.

118    Gao, Y., Li, J., Strickland, E., Hua, S.,Zhao, H., Chen, Z., Qu, L., and Deng,X.W. (2004). An arabidopsis promoter microarray and its initial usage inthe identification of HY5 binding targets in vitro. Plant Mol Biol 54, 683-699.

117    Feng, S., Shen, Y., Sullivan, J.A., Rubio,V., Xiong, Y., Sun, T.P., and Deng, X.W.(2004). Arabidopsis CAND1, an unmodified CUL1-interacting protein, is involvedin multiple developmental pathways controlled by ubiquitin/proteasome-mediatedprotein Degradation. Plant Cell16, 1870-1882.

116    Boccalandro, H.E., Rossi, M.C., Saijo, Y., Deng, X.W., and Casal, J.J. (2004).Promotion of photomorphogenesis by COP1. PlantMol Biol 56, 905-915.

115    Wu, P., Ma, L., Hou, X., Wang, M., Wu, Y.,Liu, F., and Deng, X.W. (2003).Phosphate starvation triggers distinct alterations of genome expression inArabidopsis roots and leaves. PlantPhysiol 132, 1260-1271.

114    Wei, N., and Deng, X.W. (2003). The COP9 signalosome. Annu Rev Cell Dev Biol 19, 261-286.

113    Wang, X., Feng, S., Nakayama, N., Crosby,W.L., Irish, V., Deng, X.W., andWei, N. (2003). The COP9 signalosome interacts with SCF UFO and participates inArabidopsis flower development. PlantCell 15, 1071-1082.

112    Wang, H., and Deng, X.W. (2003). Dissecting the phytochrome A-dependent signalingnetwork in higher plants. Trends PlantSci 8, 172-178.

111    Sun, N., Ma, L., Pan, D., Zhao, H., and Deng, X.W. (2003). Evaluation of lightregulatory potential of Calvin cycle steps based on large-scale gene expressionprofiling data. Plant Mol Biol53, 467-478.

110    Sullivan, J.A., Shirasu, K., and Deng, X.W. (2003). The diverse roles ofubiquitin and the 26S proteasome in the life of plants. Nat Rev Genet 4, 948-958.

109    Sullivan, J.A., and Deng, X.W. (2003). From seed to seed: the role of photoreceptors inArabidopsis development. Dev Biol260, 289-297.

108    Serino, G., Su, H., Peng, Z., Tsuge, T.,Wei, N., Gu, H., and Deng, X.W.(2003). Characterization of the last subunit of the Arabidopsis COP9signalosome: implications for the overall structure and origin of the complex. Plant Cell 15, 719-731.

107    Serino, G., and Deng, X.W. (2003). The COP9 signalosome: regulating plantdevelopment through the control of proteolysis. Annu Rev Plant Biol 54, 165-182.

106    Saijo, Y., Sullivan, J.A., Wang, H., Yang,J., Shen, Y., Rubio, V., Ma, L., Hoecker, U., and Deng, X.W.(2003). The COP1-SPA1 interaction defines a criticalstep in phytochrome A-mediated regulation of HY5 activity. Genes Dev 17, 2642-2647.

105    Peng, Z., Shen, Y., Feng, S., Wang, X.,Chitteti, B.N., Vierstra, R.D., and Deng,X.W. (2003). Evidence for a physical association of the COP9 signalosome,the proteasome, and specific SCF E3 ligases in vivo. Curr Biol 13, R504-505.

104    Pan, D., Sun, N., Cheung, K.H., Guan, Z.,Ma, L., Holford, M., Deng, X.W., andZhao, H. (2003). PathMAPA: a tool for displaying gene expression and performingstatistical tests on metabolic pathways at multiple levels for Arabidopsis. BMC bioinformatics 4, 56.

103    Ma, L., Zhao, H., and Deng, X.W. (2003). Analysis of the mutational effects of theCOP/DET/FUS loci on genome expression profiles reveals their overlapping yetnot identical roles in regulating Arabidopsis seedling development. Development 130, 969-981.

102    Lykke-Andersen, K., Schaefer, L., Menon, S.,Deng, X.W., Miller, J.B., and Wei,N. (2003). Disruption of the COP9 signalosome Csn2 subunit in mice causesdeficient cell proliferation, accumulation of p53 and cyclin E, and earlyembryonic death. Mol Cell Biol23, 6790-6797.

101    Li, L., and Deng, X.W. (2003). The COP9 signalosome: an alternative lid for the26S proteasome? Trends Cell Biol13, 507-509.

100    Jiao, Y., Yang, H., Ma, L., Sun, N., Yu, H.,Liu, T., Gao, Y., Gu, H., Chen, Z., Wada, M., Gerstein, M., Zhao, H., Qu, L.J.,and Deng, X.W. (2003). A genome-wideanalysis of blue-light regulation of Arabidopsis transcription factor geneexpression during seedling development. PlantPhysiol 133, 1480-1493.

99      Feng, S., Ma, L., Wang, X., Xie, D.,Dinesh-Kumar, S.P., Wei, N., and Deng,X.W. (2003). The COP9 signalosome interacts physically with SCF COI1 andmodulates jasmonate responses. PlantCell 15, 1083-1094.

98      Yi, C., Wang, H., Wei, N., and Deng, X.W. (2002). An initialbiochemical and cell biological characterization of the mammalian homologue ofa central plant developmental switch, COP1. BMCCell Biol 3, 30.

97      Yadav, V., Kundu, S., Chattopadhyay, D.,Negi, P., Wei, N., Deng, X.W., and Chattopadhyay,S. (2002). Light regulated modulation of Z-box containing promoters byphotoreceptors and downstream regulatory components, COP1 and HY5, inArabidopsis. Plant J 31,741-753.

96      Wang, H., Ma, L., Habashi, J., Li, J.,Zhao, H., and Deng, X.W. (2002).Analysis of far-red light-regulated genome expression profiles of phytochrome Apathway mutants in Arabidopsis. PlantJ 32, 723-733.

95      Wang, H., and Deng, X.W. (2002). Arabidopsis FHY3 defines a key phytochrome Asignaling component directly interacting with its homologous partner FAR1. EMBO J 21, 1339-1349.

94      Suzuki, G., Yanagawa, Y., Kwok, S.F.,Matsui, M., and Deng, X.W. (2002).Arabidopsis COP10 is a ubiquitin-conjugating enzyme variant that acts togetherwith COP1 and the COP9 signalosome in repressing photomorphogenesis. Genes Dev 16, 554-559.

93      Schwechheimer, C., Serino, G., and Deng, X.W. (2002). Multiple ubiquitinligase-mediated processes require COP9 signalosome and AXR1 function. Plant Cell 14, 2553-2563.

92      Ma, L., Gao, Y., Qu, L., Chen, Z., Li, J.,Zhao, H., and Deng, X.W. (2002).Genomic evidence for COP1 as a repressor of light-regulated gene expression anddevelopment in Arabidopsis. Plant Cell14, 2383-2398.

91      Liu, Y., Schiff, M., Serino, G., Deng, X.W., and Dinesh-Kumar, S.P. (2002).Role of SCF ubiquitin-ligase and the COP9 signalosome in the N gene-mediatedresistance response to Tobacco mosaic virus. Plant Cell 14, 1483-1496.

90      Holm, M., Ma, L.G., Qu, L.J., and Deng, X.W. (2002). Two interacting bZIPproteins are direct targets of COP1-mediated control of light-dependent geneexpression in Arabidopsis. Genes Dev16, 1247-1259.

89      Hardtke, C.S., Okamoto, H., Stoop-Myer,C., and Deng, X.W. (2002).Biochemical evidence for ubiquitin ligase activity of the Arabidopsis COP1interacting protein 8 (CIP8). Plant J30, 385-394.

88      Fry, R.C., Habashi, J., Okamoto, H., and Deng, X.W. (2002). Characterization ofa strong dominant phytochrome A mutation unique to phytochrome A signalpropagation. Plant Physiol 130,457-465.

87      Yamamoto, Y.Y., Deng, X.W., and Matsui, M. (2001). Cip4, a new COP1 target, is anucleus-localized positive regulator of Arabidopsis photomorphogenesis. Plant Cell 13, 399-411.

86      Wang, H., Ma, L.G., Li, J.M., Zhao, H.Y.,and Deng, X.W. (2001). Directinteraction of Arabidopsis cryptochromes with COP1 in light controldevelopment. Science 294,154-158.

85      Schwechheimer, C., Serino, G., Callis, J.,Crosby, W.L., Lyapina, S., Deshaies, R.J., Gray, W.M., Estelle, M., and Deng, X.W. (2001). Interactions of theCOP9 signalosome with the E3 ubiquitin ligase SCFTIRI in mediating auxinresponse. Science 292,1379-1382.

84      Schwechheimer, C., and Deng, X.W. (2001). COP9 signalosomerevisited: a novel mediator of protein degradation. Trends Cell Biol 11, 420-426.

83      Peng, Z., Staub, J.M., Serino, G., Kwok,S.F., Kurepa, J., Bruce, B.D., Vierstra, R.D., Wei, N., and Deng, X.W. (2001). The cellular levelof PR500, a protein complex related to the 19S regulatory particle of theproteasome, is regulated in response to stresses in plants. Mol Biol Cell 12, 383-392.

82      Peng, Z., Serino, G., and Deng, X.W. (2001). Molecularcharacterization of subunit 6 of the COP9 signalosome and its role inmultifaceted developmental processes in Arabidopsis. Plant Cell 13, 2393-2407.

81      Peng, Z., Serino, G., and Deng, X.W. (2001). A role ofArabidopsis COP9 signalosome in multifaceted developmental processes revealedby the characterization of its subunit 3. Development128, 4277-4288.

80      Okamoto, H., Qu, L., and Deng, X.W. (2001). Does EID1 aid thefine-tuning of phytochrome A signal transduction in Arabidopsis? Plant Cell 13, 1983-1986.

79      Okamoto, H., Matsui, M., and Deng, X.W. (2001). Overexpression ofthe heterotrimeric G-protein alpha-subunit enhances phytochrome-mediatedinhibition of hypocotyl elongation in Arabidopsis. Plant Cell13, 1639-1652.

78      Ma, L., Li, J., Qu, L., Hager, J., Chen,Z., Zhao, H., and Deng, X.W. (2001).Light control of Arabidopsis development entails coordinated regulation ofgenome expression and cellular pathways. PlantCell 13, 2589-2607.

77      Jiang, C.J., Shoji, K., Matsuki, R., Baba,A., Inagaki, N., Ban, H., Iwasaki, T., Imamoto, N., Yoneda, Y., Deng, X.W., and Yamamoto, N. (2001).Molecular cloning of a novel importin alpha homologue from rice, by whichconstitutive photomorphogenic 1 (COP1) nuclear localization signal(NLS)-protein is preferentially nuclear imported. J Biol Chem 276, 9322-9329.

76      Holm, M., Hardtke, C.S., Gaudet, R., and Deng, X.W. (2001). Identification of astructural motif that confers specific interaction with the WD40 repeat domainof Arabidopsis COP1. EMBO J 20,118-127.

75      Yamamoto, Y.Y., Puente, P., and Deng, X.W. (2000). An Arabidopsiscotyledon-specific albino locus: a possible role in 16S rRNA maturation. Plant Cell Physiol 41,68-76.

74      Schwechheimer, C., and Deng, X.W. (2000). The COP/DET/FUSproteins-regulators of eukaryotic growth and development. Semin Cell Dev Biol 11, 495-503.

73      Osterlund, M.T., Wei, N., and Deng, X.W. (2000). The roles ofphotoreceptor systems and the COP1-targeted destabilization of HY5 in lightcontrol of Arabidopsis seedling development. Plant Physiol 124, 1520-1524.

72      Osterlund, M.T., Hardtke, C.S., Wei, N.,and Deng, X.W. (2000). Targeteddestabilization of HY5 during light-regulated development of Arabidopsis. Nature 405, 462-466.

71      Leyser, O., and Deng, X.W. (2000). Cell signalling and gene regulation: Newdirections in plant signalling: Editorial Overview. Curr Opin Plant Biol 3, 351-352.

70      Kang, D., Wang, X., Cao, K., Sun, C., Deng, X.W., and Wei, N. (2000). A gain-of-functionphenotype conferred by over-expression of functional subunits of the COP9signalosome in Arabidopsis. Plant J23, 597-608.

69      Hsieh, H.L., Okamoto, H., Wang, M., Ang,L.H., Matsui, M., Goodman, H., and Deng,X.W. (2000). FIN219, an auxin-regulated gene, defines a link betweenphytochrome A and the downstream regulator COP1 in light control of Arabidopsisdevelopment. Genes Dev 14,1958-1970.

68      Hardtke, C.S., Gohda, K., Osterlund, M.T.,Oyama, T., Okada, K., and Deng, X.W.(2000). HY5 stability and activity in arabidopsis is regulated byphosphorylation in its COP1 binding domain. EMBOJ 19, 4997-5006.

67      Hardtke, C.S., and Deng, X.W. (2000). The cell biology of the COP/DET/FUS proteins.Regulating proteolysis in photomorphogenesis and beyond? Plant Physiol 124, 1548-1557.

66      Deng,X.W., Dubiel, W., Wei, N., Hofmann, K., Mundt, K., Colicelli, J., Kato, J.,Naumann, M., Segal, D., Seeger, M., Carr, A., Glickman, M., and Chamovitz, D.A.(2000). Unified nomenclature for the COP9 signalosome and its subunits: anessential regulator of development. TrendsGenet 16, 202-203.

65      Abel, S., Blazquez, M., Dangl, J., Deng, X.W., Graham, I., Harada, J.,Jones, J., and Nilsson, O. (2000). Arabidopsis Research 2000. Plant Cell 12, 2302-2308.

64      Yamamoto, N., and Deng, X.W. (1999). Protein nucleocytoplasmic transport and itslight regulation in plants. GenesCells 4, 489-500.

63      Wei, N., and Deng, X.W. (1999). Making sense of the COP9 signalosome. Aregulatory protein complex conserved from Arabidopsis to human. Trends Genet 15, 98-103.

62      Wang, H., Kang, D., Deng, X.W., and Wei, N. (1999). Evidence for functionalconservation of a mammalian homologue of the light-responsive plant proteinCOP1. Curr Biol 9,711-714.

61      Torii, K.U., Stoop-Myer, C.D., Okamoto, H.,Coleman, J.E., Matsui, M., and Deng,X.W. (1999). The RING finger motif of photomorphogenic repressor COP1specifically interacts with the RING-H2 motif of a novel Arabidopsis protein. J Biol Chem 274,27674-27681.

60      Stoop-Myer, C., Torii, K.U., McNellis,T.W., Coleman, J.E., and Deng, X.W.(1999). Short communication: the N-terminal fragment of Arabidopsisphotomorphogenic repressor COP1 maintains partial function and acts in aconcentration-dependent manner. PlantJ 20, 713-717.

59      Serino, G., Tsuge, T., Kwok, S., Matsui,M., Wei, N., and Deng, X.W. (1999).Arabidopsis cop8 and fus4 mutations define the same gene that encodes subunit 4of the COP9 signalosome. Plant Cell11, 1967-1980.

58      Osterlund, M.T., Ang, L.H., and Deng, X.W. (1999). The role of COP1 inrepression of Arabidopsis photomorphogenic development. Trends Cell Biol 9, 113-118.

57      Kwok, S.F., Staub, J.M., and Deng, X.W. (1999). Characterization oftwo subunits of Arabidopsis 19S proteasome regulatory complex and its possibleinteraction with the COP9 complex. JMol Biol 285, 85-95.

56      Holm, M., and Deng, X.W. (1999). Structural organization and interactions ofCOP1, a light-regulated developmental switch. Plant Mol Biol 41, 151-158.

55      Deng,X.W., and Quail, P.H. (1999). Signalling in light-controlled development. Semin Cell Dev Biol10,121-129.

54      Yamamoto, Y.Y., Matsui, M., and Deng, X.W. (1998). Positive feedback inplant signaling pathways. Trends PlantSci 3, 374-375.

53      Yamamoto, Y.Y., Matsui, M., Ang, L.H., andDeng, X.W. (1998). Role of a COP1interactive protein in mediating light-regulated gene expression inarabidopsis. Plant Cell 10,1083-1094.

52      Yamamoto, Y.Y., and Deng, X.W. (1998). A New Vector Set for GAL4-DependentTransactivation Assay in Plants. PlantBiotechnol 15, 217-220.

51      Wei, N., Tsuge, T., Serino, G., Dohmae,N., Takio, K., Matsui, M., and Deng,X.W. (1998). The COP9 complex is conserved between plants and mammals andis related to the 26S proteasome regulatory complex. Curr Biol 8, 919-922.

50      Wei, N., and Deng, X.W. (1998). Characterization and purification of themammalian COP9 complex, a conserved nuclear regulator initially identified as arepressor of photomorphogenesis in higher plants. Photochem Photobiol 68, 237-241.

49      von Arnim, A.G., Deng, X.W., and Stacey, M.G. (1998). Cloning vectors for theexpression of green fluorescent protein fusion proteins in transgenic plants. Gene 221, 35-43.

48      Torii, K.U., McNellis, T.W., and Deng, X.W. (1998). Functionaldissection of Arabidopsis COP1 reveals specific roles of its three structuralmodules in light control of seedling development. EMBO J 17, 5577-5587.

47      Osterlund, M.T., and Deng, X.W. (1998). Multiple photoreceptors mediate thelight-induced reduction of GUS-COP1 from Arabidopsis hypocotyl nuclei. Plant J 16, 201-208.

46      Kwok, S.F., Solano, R., Tsuge, T.,Chamovitz, D.A., Ecker, J.R., Matsui, M., and Deng, X.W. (1998). Arabidopsis homologs of a c-Jun coactivator arepresent both in monomeric form and in the COP9 complex, and their abundance isdifferentially affected by the pleiotropic cop/det/fus mutations. Plant Cell 10, 1779-1790.

45      Karniol, B., Yahalom, A., Kwok, S., Tsuge,T., Matsui, M., Deng, X.W., andChamovitz, D.A. (1998). The Arabidopsis homologue of an eIF3 complex subunitassociates with the COP9 complex. FEBSLett 439, 173-179.

44      Deng,X.W. (1998). Light control of Arabidopsis developmental pattern. Symp Soc Exp Biol 51,93-96.

43      Chattopadhyay, S., Puente, P., Deng, X.W., and Wei, N. (1998).Combinatorial interaction of light-responsive elements plays a critical role indetermining the response characteristics of light-regulated promoters inArabidopsis. Plant J 15,69-77.

42      Chattopadhyay, S., Ang, L.H., Puente, P., Deng, X.W., and Wei, N. (1998).Arabidopsis bZIP protein HY5 directly interacts with light-responsive promotersin mediating light control of gene expression. Plant Cell 10, 673-683.

41      Ang, L.H., Chattopadhyay, S., Wei, N.,Oyama, T., Okada, K., Batschauer, A., and Deng,X.W. (1998). Molecular interaction between COP1 and HY5 defines aregulatory switch for light control of Arabidopsis development. Mol Cell 1, 213-222.

40      von Arnim, A.G., Osterlund, M.T., Kwok,S.F., and Deng, X.W. (1997). Geneticand developmental control of nuclear accumulation of COP1, a repressor ofphotomorphogenesis in Arabidopsis. PlantPhysiol 114, 779-788.

39      Torii, K.U., and Deng, X.W. (1997). The role of COP1 in light control of Arabidopsisseedling development. Plant CellEnviron 20, 728-733.

38      Deng,X.W., and Mei, Z. (1997). The higher plant thylakoid pigment-proteincomplexes migration and the reduction of light energy distribution between twophotosystems. Scientia Sinica (seriesB) 4, 377-386.

37      Chamovitz, D.A., and Deng, X.W. (1997). The COP9 complex: a link betweenphotomorphogenesis and general developmental regulation? Plant Cell Environ 20, 734-739.

36      Wei, N., and Deng, X.W. (1996). The role of the COP/DET/FUS genes in lightcontrol of arabidopsis seedling development. Plant Physiol 112, 871-878.

35      von Arnim, A., and Deng, X.W. (1996). A role for transcriptional repression duringlight control of plant development. Bioessays18, 905-910.

34      Von Arnim, A., and Deng, X.W. (1996). Light control of seedling development. Annu Rev Plant Physiol Plant Mol Biol47, 215-243.

33      Staub, J.M., Wei, N., and Deng, X.W. (1996). Evidence for FUS6 asa component of the nuclear-localized COP9 complex in Arabidopsis. Plant Cell 8, 2047-2056.

32      Staub, J.M., and Deng, X.W. (1996). Light signal transduction in plants. Photochem Photobiol 64,897-905.

31      Puente, P., Wei, N., and Deng, X.W. (1996). Combinatorialinterplay of promoter elements constitutes the minimal determinants for lightand developmental control of gene expression in Arabidopsis. EMBO J 15, 3732-3743.

30      McNellis, T.W., Torii, K.U., and Deng, X.W. (1996). Expression of anN-terminal fragment of COP1 confers a dominant-negative effect onlight-regulated seedling development in Arabidopsis. Plant Cell8, 1491-1503.

29      Kwok, S.F., Piekos, B., Misera, S., and Deng, X.W. (1996). A complement of tenessential and pleiotropic arabidopsis COP/DET/FUS genes is necessary forrepression of photomorphogenesis in darkness. Plant Physiol 110, 731-742.

28      Deng,X.W., and Melis, A. (1996). Phosphorylation of the light-harvesting complexII in higher plant chloroplasts: effect on photosystem II and photosystem Iabsorption cross section. PhotochemPhotobiol13, 41-52.

27      Chamovitz, D.A., Wei, N., Osterlund, M.T.,von Arnim, A.G., Staub, J.M., Matsui, M., and Deng, X.W.(1996). The COP9 complex, a novel multisubunit nuclearregulator involved in light control of a plant developmental switch. Cell 86, 115-121.

26      Chamovitz, D.A., Deng, X.W., and Lam, E. (1996). Light signaling in plants. Crit Rev Plant Sci 15,455-478.

25      Torii, K.U., and Deng, X.W. (1995). Regulation of plant form: Identification of amolecule controlling cell expansion. Bioessays17, 383-386.

24      McNellis, T.W., and Deng, X.W. (1995). Light control of seedling morphogenetic pattern.Plant Cell7,1749-1761.

23      Matsui, M., Stoop, C.D., von Arnim, A.G.,Wei, N., and Deng, X.W. (1995).Arabidopsis COP1 protein specifically interacts in vitro with acytoskeleton-associated protein, CIP1. ProcNatl Acad Sci U S A 92, 4239-4243.

22      Chamovitz, D.A., and Deng, X.W. (1995). The novel components of the Arabidopsis lightsignaling pathway may define a group of general developmental regulators sharedby both animal and plant kingdoms. Cell82, 353-354.

21      Wei, N., Kwok, S.F., von Arnim, A.G., Lee,A., McNellis, T.W., Piekos, B., and Deng,X.W. (1994). Arabidopsis COP8, COP10, and COP11 genes are involved inrepression of photomorphogenic development in darkness. Plant Cell 6, 629-643.

20      Wei, N., Chamovitz, D.A., and Deng, X.W. (1994). Arabidopsis COP9 isa component of a novel signaling complex mediating light control of development.Cell 78, 117-124.

19      von Arnim, A.G., and Deng, X.W. (1994). Light inactivation of Arabidopsisphotomorphogenic repressor COP1 involves a cell-specific regulation of itsnucleocytoplasmic partitioning. Cell79, 1035-1045.

18      McNellis, T.W., von Arnim, A.G., and Deng, X.W. (1994). Overexpression ofArabidopsis COP1 results in partial suppression of light-mediated development:evidence for a light-inactivable repressor of photomorphogenesis. Plant Cell 6, 1391-1400.

17      McNellis, T.W., von Arnim, A.G., Araki,T., Komeda, Y., Misera, S., and Deng,X.W. (1994). Genetic and molecular analysis of an allelic series of cop1mutants suggests functional roles for the multiple protein domains. Plant Cell 6, 487-500.

16      Deng,X.W. (1994). Fresh view of light signal transduction in plants. Cell 76, 423-426.

15      Ang, L.H., and Deng, X.W. (1994). Regulatory hierarchy of photomorphogenic loci:allele-specific and light-dependent interaction between the HY5 and COP1 loci. Plant Cell 6, 613-628.

14      von Arnim, A.G., and Deng, X.W. (1993). Ring finger motif of Arabidopsis thaliana COP1defines a new class of zinc-binding domain. JBiol Chem 268, 19626-19631.

13      Hou, Y., Von Arnim, A.G., and Deng, X.W. (1993). A New Class ofArabidopsis Constitutive Photomorphogenic Genes Involved in RegulatingCotyledon Development. Plant Cell5, 329-339.

12      Wei, N., and Deng, X.W. (1992). COP9: a new genetic locus involved inlight-regulated development and gene expression in arabidopsis. Plant Cell 4, 1507-1518.

11      Tonkyn, J.C., Deng, X.W., and Gruissem, W. (1992). Regulation of Plastid GeneExpression during Photooxidative Stress. PlantPhysiol 99, 1406-1415.

10      Deng,X.W., and Quail, P.H. (1992). Genetic and phenotypic characterization ofcop1 mutants of Arabidopsis thaliana. PlantJ 2, 83-95.

9        Deng,X.W., Matsui, M., Wei, N., Wagner, D., Chu, A.M., Feldmann, K.A., andQuail, P.H. (1992). COP1, an Arabidopsis regulatory gene, encodes a proteinwith both a zinc-binding motif and a G beta homologous domain. Cell 71, 791-801.

8        Deng,X.W., Caspar, T., and Quail, P.H. (1991). cop1: a regulatory locus involvedin light-controlled development and gene expression in Arabidopsis. Genes Dev 5, 1172-1182.

7        Bruce, W.B., Deng, X.W., and Quail, P.H. (1991). A negatively acting DNAsequence element mediates phytochrome-directed repression of phyA genetranscription. EMBO J 10,3015-3024.

6        Deng,X.W., Wing, R.A., and Gruissem, W. (1989). The chloroplast genome exists inmultimeric forms. Proc Natl Acad Sci US A 86, 4156-4160.

5        Deng,X.W., Tonkyn, J.C., Peter, G.F., Thornber, J.P., and Gruissem, W. (1989).Post-transcriptional control of plastid mRNA accumulation during adaptation ofchloroplasts to different light quality environments. Plant Cell 1, 645-654.

4        Gruissem, W., Barkan, A., Deng, X.W., and Stern, D. (1988).Transcriptional and post-transcriptional control of plastid mRNA levels inhigher plants. Trends Genet 4,258-263.

3        Deng,X.W., and Gruissem, W. (1988). Constitutive transcription and regulation ofgene expression in non-photosynthetic plastids of higher plants. EMBO J 7, 3301-3308.

2        Deng,X.W., Stern, D.B., Tonkyn, J.C., and Gruissem, W. (1987). Plastid run-ontranscription. Application to determine the transcriptional regulation ofspinach plastid genes. J Biol Chem262, 9641-9648.

1        Deng,X.W., and Gruissem, W. (1987). Control of plastid gene expression duringdevelopment: the limited role of transcriptional regulation. Cell 49, 379-387.