Publications

2022

Strader L, Weijers D, Wagner D: Plant transcription factors – being in the right place with the right company. Curr Opin Plant Biol 2022. Abstract

Lee US, Bieluszewski T, Xiao J, Yamaguchi A, Wagner D: H2A.Z contributes to trithorax activity at the AGAMOUS locus. Mol Plant 2022. Abstract

Klasfeld S, Wagner D: Greenscreen decreases Type I Errors and increases true peak detection in genomic datasets including ChIP-seq. Abstract

2021

Bieluszewski, T., Xiao, J., Yang, Y., & Wagner, D. (2021). PRC2 activity, recruitment, and silencing: a comparative perspective. Trends in Plant Science. Abstract

Jin, J., Klasfeld, S., Zhu, Y., Fernandez Garcia, M., Xiao, J., Han, S.K., Konkol, A., Zhu, Y. & Wagner, D. (2021). LEAFY is a pioneer transcription factor and licenses cell reprogramming to floral fate. Nature Communications, 12(1), 626. Abstract

Zhu, Y., Klasfeld, S., & Wagner, D. (2021). Molecular regulation of plant developmental transitions and plant architecture via PEPB family proteins–an update on mechanism of action. Journal of Experimental Botany, eraa598. Abstract

2020

Zhu, Y., Klasfeld, S., Jeong, C.W., Jin, R., Goto, K., Yamaguchi, N., & Wagner, D. (2020). TERMINAL FLOWER 1-FD complex target genes and competition with FLOWERING LOCUS T. Nature Communications, 11(2), 5118. Abstract

Zhu, Y., & Wagner, D. (2020). Plant inflorescence architecture: the formation, activity, and fate of axillary meristems. Cold Spring Harbor perspectives in biology, 12(1), a034652. Abstract

2019

Sun, B., Zhou, Y., Cai, J., Shang, E., Yamaguchi, N., Xiao, J., Looi, L.S., Wee, W.Y., Gao, X., Wagner, D. & Ito, T. (2019). Integration of transcriptional repression and Polycomb-mediated silencing of WUSCHEL in floral meristems. The Plant Cell, tpc-00450. Abstract

Chung, Y., Zhu, Y., Wu, M., Simoni, S., Kuhn, A., Armenta-Medine, A., Jin, R., Østergaard, L., Gillmor, C.S., Wagner, D. (2019). Auxin Response Factors promote organogenesis by chromatin-mediated repression of the pluripotency gene SHOOTMERISTEMLESS. Nature Communications, 10(1), 886. Abstract

2017

Xiao, J., Jin, R., Yu, X., Shen, M., Wagner, J. D., Pai, A., Song, C., Zhuang, M., Klasfeld, S., He, C., Santos, A. M., Helliwell, C., Pruneda-Paz, J. L., Kay, S. A., Lin, X., Cui, S., Garzia, M. F., Clarenz, O., Goodrich, J., Zhang, X., Austin, R., Bonasio, R., & Wagner, D. (2017). Cis and trans determinants of epigenetic silencing by Polycomb repressive complex 2 in Arabidopsis. Nat Genet, advance online publication. Abstract

Bossi, F., Fan, J., Xiao, J., Chandra, L., Shen, M., Dorone, Y., Wagner, D., & Rhee, S. Y. 2017. Systematic discovery of novel eukaryotic transcriptional regulators using sequence homology independent prediction. BMC genomics, 18(1), 480. Abstract

Xiao, J., Jin, R., & Wagner, D. (2017). Developmental transitions: integrating environmental cues with hormonal signaling in the chromatin landscape in plants. Genome biology, 18(1), 88. Abstract

Wagner, D. 2017. Key developmental transitions during flower morphogenesis and their regulation. Current Opinion in Genetics & Development, 45, 44-50. Abstract

2016

Xiao, J, Lee US, Wagner D.  2016. Tug of war: adding and removing histone lysine methylation in Arabidopsis, Sep 7. Curr Opin Plant Biol. 34:41-53. Abstract

Wagner, D.  2016. Making Flowers at the Right Time, May 9. Dev Cell. 37:208-10., Number 3. Abstract

Yamaguchi, N, Jeong CW, Nole-Wilson S, Krizek BA, Wagner D.  2016. AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis, Jan. Plant Physiol. 170:283-93., Number 1. Abstract

Weijers, D, Wagner D.  2016. Transcriptional Responses to the Auxin Hormone, Apr 29. Annu Rev Plant Biol. 67:539-74. Abstract

Provart, NJ, Alonso J, Assmann SM, Bergmann D, Brady SM, Brkljacic J, Browse J, Chapple C, Colot V, Cutler S, Dangl J, Ehrhardt D, Friesner JD, Frommer WB, Grotewold E, Meyerowitz E, Nemhauser J, Nordborg M, Pikaard C, Shanklin J, Somerville C, Stitt M, Torii KU, Waese J, Wagner D, McCourt P.  2015. 50 years of Arabidopsis research: highlights and future directions, Oct 14. New Phytol. Abstract

Peirats-Llobet, M. , Han, S-K, Jeong CW, Gonzalez-Guzman, M, Rodriguez, L, Belda-Palazon, B, Wagner, D and Rodriguez, PL. (2016) A direct link between abscisic acid sensing and the chromatin remodeling ATPase BRAHMA via core ABA signaling pathway components, Molecular Plant 9 (1):136-47. Abstract

2015

Xiao, J, Wagner D.  2015. Polycomb repression in the regulation of growth and development in Arabidopsis, Feb. Curr Opin Plant Biol. 23:15-24. Abstract

Amtmann, A., Ma, H., & Wagner, D. (2015). Chromatin and epigenetics. Plant physiology, 168(4), 1185-1188.

Wu, MF, Yamaguchi N, Xiao J, Estelle M, Bargmann BO, Sang Y, Wagner D.  2015. Auxin-regulated chromatin switch directs acquisition of flower primordium founder fate. eLife. 4:e09269. Abstract

Yamaguchi, N, Winter CM, Wellmer F, Wagner D.  2015. Identification of direct targets of plant transcription factors using the GR fusion technique. Methods Mol Biol. 1284:123-38. Abstract

2014

Yamaguchi, N, Winter CM, Wu MF, Kanno Y, Yamaguchi A, Seo M, Wagner D.  2014. Gibberellin acts positively then negatively to control onset of flower formation in Arabidopsis, May 9. Science. 344:638-41., Number 6184. Abstract

Vercruyssen, L, Verkest A, Gonzalez N, Heyndrickx KS, Eeckhout D, Han SK, Jegu T, Archacki R, Van Leene J, Andriankaja M, De Bodt S, Abeel T, Coppens F, Dhondt S, De Milde L, Vermeersch M, Maleux K, Gevaert K, Jerzmanowski A, Benhamed M, Wagner D, Vandepoele K, De Jaeger G, Inze D.  2014. ANGUSTIFOLIA3 Binds to SWI/SNF Chromatin Remodeling Complexes to Regulate Transcription during Arabidopsis Leaf Development, Jan. The Plant cell. 26:210-29., Number 1. Abstract

De Rybel, B, Adibi M, Breda AS, Wendrich JR, Smit ME, Novak O, Yamaguchi N, Yoshida S, Van Isterdael G, Palovaara J, Nijsse B, Boekschoten MV, Hooiveld G, Beeckman T, Wagner D, Ljung K, Fleck C, Weijers D.  2014. Plant development. Integration of growth and patterning during vascular tissue formation in Arabidopsis, Aug 8. Science. 345:1255215., Number 6197. Abstract

Yamaguchi, N, Wu MF, Winter C, Wagner D.  2014. LEAFY together with polar auxin transport coordinates Arabidopsis flower development.. Plants. 3:251-265., Number 2. Abstract

Xiao, J, Xu S, Li C, Xu Y, Xing L, Niu Y, Huan Q, Tang Y, Zhao C, Wagner D, Gao C, Chong K.  2014. O-GlcNAc-mediated interaction between VER2 and TaGRP2 elicits TaVRN1 mRNA accumulation during vernalization in winter wheat. Nat Commun. 5:4572. Abstract

Yamaguchi, N, Winter CM, Wu MF, Kwon CS, William DA, Wagner D.  2014. PROTOCOLS: Chromatin Immunoprecipitation from Arabidopsis Tissues. Arabidopsis Book. 12:e0170. Abstract

2013

Efroni, I, Han SK, Kim HJ, Wu MF, Steiner E, Birnbaum KD, Hong JC, Eshed Y, Wagner D.  2013. Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses, Feb 25. Dev Cell. 24:438-45., Number 4. Abstract

Yamaguchi, N, Wu MF, Winter CM, Berns MC, Nole-Wilson S, Yamaguchi A, Coupland G, Krizek BA, Wagner D.  2013. A molecular framework for auxin-mediated initiation of flower primordia, Feb 11. Dev Cell. 24:271-82., Number 3. Abstract

Han, SK, Wagner D.  2013. Role of chromatin in water stress responses in plants, Dec 3. Journal of experimental botany. Abstract

2012

Sang, Y, Silva-Ortega CO, Wu S, Yamaguchi N, Wu MF, Pfluger J, Gillmor CS, Gallagher KL, Wagner D.  2012. Mutations in two non-canonical Arabidopsis SWI2/SNF2 chromatin remodeling ATPases cause embryogenesis and stem cell maintenance defects, Oct 13. The Plant journal : for cell and molecular biology. Abstract

Yamaguchi, N, Yamaguchi A, Abe M, Wagner D, Komeda Y.  2012. LEAFY controls Arabidopsis pedicel length and orientation by affecting adaxial-abaxial cell fate, Mar. The Plant journal : for cell and molecular biology. 69:844-56., Number 5. Abstract

Wu, MF, Sang Y, Bezhani S, Yamaguchi N, Han SK, Li Z, Su Y, Slewinski TL, Wagner D.  2012. SWI2/SNF2 chromatin remodeling ATPases overcome polycomb repression and control floral organ identity with the LEAFY and SEPALLATA3 transcription factors, Feb 28. Proceedings of the National Academy of Sciences of the United States of America. 109:3576-81., Number 9. Abstract

Han, SK, Sang Y, Rodrigues A, Wu MF, Rodriguez PL, Wagner D.  2012. The SWI2/SNF2 chromatin remodeling ATPase BRAHMA represses abscisic acid responses in the absence of the stress stimulus in Arabidopsis, Dec. The Plant cell. 24:4892-906., Number 12. Abstract

EPIC, Planning, Committee.  2012. Reading the Second Code: Mapping Epigenomes to Understand Plant Growth, Development, and Adaptation to the Environment. Plant Cell. 24(6), 2257-2261. Abstract

Wu, MF, Wagner D.  2012. RNA in situ hybridization in Arabidopsis. Methods in molecular biology. 883:75-86. Abstract

2011

Pastore, JJ, Limpuangthip A, Yamaguchi N, Wu MF, Sang Y, Han SK, Malaspina L, Chavdaroff N, Yamaguchi A, Wagner D.  2011. LATE MERISTEM IDENTITY2 acts together with LEAFY to activate APETALA1, Aug. Development. 138:3189-98., Number 15. Abstract

Winter, CM, Austin RS, Blanvillain-Baufume S, Reback MA, Monniaux M, Wu MF, Sang Y, Yamaguchi A, Yamaguchi N, Parker JE, Parcy F, Jensen ST, Li H, Wagner D.  2011. LEAFY Target Genes Reveal Floral Regulatory Logic, cis Motifs, and a Link to Biotic Stimulus Response, Apr 19. Dev Cell. 20:430-43., Number 4. Abstract

Wagner, D, Meyerowitz E.  2011. Switching on flowers: transient LEAFY induction reveals novel aspects of flower development in Arabidopsis. Frontiers in Plant Science. 2, Number 80. Abstract

2009

Wagner, D.  2009. Flower morphogenesis: timing is key, May. Dev Cell. 16:621-2., Number 5. Abstract

Sang, Y, Wu MF, Wagner D.  2009. The stem cell–chromatin connection, Dec. Semin Cell Dev Biol. 20:1143-8., Number 9.  Abstract

Yamaguchi, A, Wu MF, Yang L, Wu G, Poethig RS, Wagner D.  2009. The microRNA-regulated SBP-Box transcription factor SPL3 is a direct upstream activator of LEAFY, FRUITFULL, and APETALA1, Aug. Dev Cell. 17:268-78., Number 2. Abstract

Moyroud, E, Tichtinsky G, Parcy F.  2009. The LEAFY Floral Regulators in Angiosperms: Conserved Proteins with Diverse Roles. Journal of Plant Biology. 52, Number 177-185. Abstract

2008

Walley, JW, Rowe HC, Xiao Y, Chehab EW, Kliebenstein DJ, Wagner D, Dehesh K.  2008. The chromatin remodeler SPLAYED regulates specific stress signaling pathways, Dec. PLoS Pathog. 4:e1000237., Number 12. Abstract

2007

Bezhani, S, Winter C, Hershman S, Wagner JD, Kennedy JF, Kwon CS, Pfluger J, Su Y, Wagner D. 2007. Unique, Shared, and Redundant Roles for the Arabidopsis SWI/SNF Chromatin Remodeling ATPases BRAHMA and SPLAYED, Feb 9. Plant Cell. 19:403-416., Number 2. Abstract

Pfluger, J, Wagner D. 2007. Histone modifications and dynamic regulation of genome accessibility in plants, Dec. Curr Opin Plant Biol. 10:645-52., Number 6. Abstract

Kwon, CS, Wagner D. 2007. Unwinding chromatin for development and growth: a few genes at a time, Aug. Trends Genet. 23:403-12., Number 8. Abstract

2006

Su, Y, Kwon CS, Bezhani S, Huvermann B, Chen C, Peragine A, Kennedy JF, Wagner D.  2006. The N-terminal ATPase AT-hook-containing region of the Arabidopsis chromatin-remodeling protein SPLAYED is sufficient for biological activity, May. Plant J. 46:685-99., Number 4. Abstract

Saddic, LA, Huvermann B, Bezhani S, Su Y, Winter CM, Kwon CS, Collum RP, Wagner D.  2006. The LEAFY target LMI1 is a meristem identity regulator and acts together with LEAFY to regulate expression of CAULIFLOWER, Mar 22. Development. 133:1673-1682. Abstract

Kwon, CS, Hibara KI, Pfluger J, Bezhani S, Metha H, Aida M, Tasaka M, Wagner D.  2006. A role for chromatin remodeling in regulation of CUC gene expression in the Arabidopsis cotyledon boundary, Jul 19. Development. 133:3223-3230. Abstract

Wang, L-S, Wagner D, Kwon CS, Su Y, Kim J.  2006. Transcriptional target prediction using qualitative reasoning. Proceedings of the 28th Annual International Conference of the IEEE Engineering in Medicine and Biology Society. :pp.3138-3141. Abstract

2005

Kwon, CS, Chen C, Wagner D.  2005. WUSCHEL is a primary target for transcriptional regulation by SPLAYED in dynamic control of stem cell fate in Arabidopsis, Apr 15. Genes Dev. 19:992-1003., Number 8. Abstract

2004

Wagner, D, Wellmer F, Dilks K, William D, Smith MR, Kumar PP, Riechmann JL, Greenland AJ, Meyerowitz EM.  2004. Floral induction in tissue culture: a system for the analysis of LEAFY-dependent gene regulation, Jul. Plant J. 39:273-82., Number 2. Abstract

William, DA, Su Y, Smith MR, Lu M, Baldwin DA, Wagner D.  2004. Genomic identification of direct target genes of LEAFY, Feb 10. Proc Natl Acad Sci U S A. 101:1775-80., Number 6. Abstract

2003

Wagner, D.  2003. Chromatin regulation of plant development, Feb. Curr Opin Plant Biol. 6:20-8., Number 1. Abstract

Wagner, D, Saddic LA, Lu M, Kim F, Su Y, William D, Kwon CS.  2003. Meristem identity in Arabidopsis thaliana. Flowering Newsletter . 36:25-35.Abstract

2002

Wagner, D, Meyerowitz EM.  2002. SPLAYED, a novel SWI/SNF ATPase homolog, controls reproductive development in Arabidopsis, Jan 22. Curr Biol. 12:85-94., Number 2 Abstract

2001

Wagner, D, Sablowski RW.  2001. Glucocorticoid Fusions for Transcription Factor. In Arabidopsis-A Laboratory Manual. (Weigel, D., Glazebrook, J., Eds.)., Cold Spring Harbor: Cold Spring Harbor Laboratory Press. Abstract

1999

Wagner, D, Sablowski RW, Meyerowitz EM.  1999. Transcriptional activation of APETALA1 by LEAFY. Science. 285:582-4., Number 5427 Abstract

1997

Wagner, D, Hoecker U, Quail PH.  1997. RED1 is necessary for phytochrome B-mediated red light-specific signal transduction in Arabidopsis, May. The Plant cell. 9:731-43., Number 5 Abstract

1996

Wagner, D, Koloszvari M, Quail PH.  1996. Two Small Spatially Distinct Regions of Phytochrome B Are Required for Efficient Signaling Rates, May. The Plant cell. 8:859-871., Number 5 Abstract

Wagner, D, Fairchild CD, Kuhn RM, Quail PH.  1996. Chromophore-bearing NH2-terminal domains of phytochromes A and B determine their photosensory specificity and differential light lability, Apr 30. Proceedings of the National Academy of Sciences of the United States of America. 93:4011-5., Number 9 Abstract

1995

Wagner, D, Quail PH.  1995. Mutational analysis of phytochrome B identifies a small COOH-terminal-domain region critical for regulatory activity, Sep 12. Proceedings of the National Academy of Sciences of the United States of America. 92:8596-600., Number 19 Abstract

Quail, PH, Boylan MT, Parks BM, Short TW, Xu Y, Wagner D.  1995. Phytochromes: photosensory perception and signal transduction, May 5. Science. 268:675-80., Number 5211 Abstract

Bagnall, DJ, King RW, Whitelam GC, Boylan MT, Wagner D, Quail PH.  1995. Flowering responses to altered expression of phytochrome in mutants and transgenic lines of Arabidopsis thaliana (L.) Heynh, Aug. Plant physiology. 108:1495-503., Number 4 Abstract

1992

Deng, XW, Matsui M, Wei N, Wagner D, Chu AM, Feldmann KA, Quail PH.  1992. COP1, an Arabidopsis regulatory gene, encodes a protein with both a zinc-binding motif and a G beta homologous domain, Nov 27. Cell. 71:791-801., Number 5 Abstract

1991

Wagner, D, Tepperman JM, Quail PH.  1991. Overexpression of Phytochrome B Induces a Short Hypocotyl Phenotype in Transgenic Arabidopsis, Dec. The Plant cell. 3:1275-1288., Number 12Abstract

1989

Bush, DS, Sticher L, van Huystee R, Wagner D, Jones RL.  1989. The calcium requirement for stability and enzymatic activity of two isoforms of barley aleurone alpha-amylase, Nov 15. The Journal of biological chemistry. 264:19392-8., Number 32 Abstract