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Items: 1 to 20 of 30

1.
Molecular and structural basis of the chromatin remodeling activity by Arabidopsis DDM1
Akihisa Osakabe, Yoshimasa Takizawa, Naoki Horikoshi, Suguru Hatazawa, Lumi Negishi, Shoko Sato, Frédéric Berger, Tetsuji Kakutani, Hitoshi Kurumizaka
Nat Commun. 2024; 15: 5187. Published online 2024 Jul 11. doi: 10.1038/s41467-024-49465-w
PMCID:
PMC11239853
ArticlePDF–10M
2.
Chromatin remodeling of histone H3 variants by DDM1 underlies epigenetic inheritance of DNA methylation
Seung Cho Lee, Dexter W. Adams, Jonathan J. Ipsaro, Jonathan Cahn, Jason Lynn, Hyun-Soo Kim, Benjamin Berube, Viktoria Major, Joseph P. Calarco, Chantal LeBlanc, Sonali Bhattacharjee, Umamaheswari Ramu, Daniel Grimanelli, Yannick Jacob, Philipp Voigt, Leemor Joshua-Tor, Robert A. Martienssen
Cell. Author manuscript; available in PMC 2023 Nov 28.
Published in final edited form as: Cell. 2023 Sep 14; 186(19): 4100–4116.e15. Published online 2023 Aug 28. doi: 10.1016/j.cell.2023.08.001
PMCID:
PMC10529913
ArticlePDF–3.6M
3.
DDM1-mediated R-loop resolution and H2A.Z exclusion facilitates heterochromatin formation in Arabidopsis
Jincong Zhou, Xue Lei, Sarfraz Shafiq, Weifeng Zhang, Qin Li, Kuan Li, Jiafu Zhu, Zhicheng Dong, Xin-jian He, Qianwen Sun
Sci Adv. 2023 Aug; 9(32): eadg2699. Published online 2023 Aug 11. doi: 10.1126/sciadv.adg2699
PMCID:
PMC10421056
ArticlePDF–1.6M
4.
DDM1-mediated gene body DNA methylation is associated with inducible activation of defense-related genes in Arabidopsis
Seungchul Lee, Jaemyung Choi, Jihwan Park, Chang Pyo Hong, Daeseok Choi, Soeun Han, Kyuha Choi, Tae-Young Roh, Daehee Hwang, Ildoo Hwang
Genome Biol. 2023; 24: 106. Published online 2023 May 5. doi: 10.1186/s13059-023-02952-7
PMCID:
PMC10161647
ArticlePDF–3.6M
5.
Dual Recognition of H3K4me3 and DNA by the ISWI Component ARID5 Regulates the Floral Transition in Arabidopsis
Lian-Mei Tan, Rui Liu, Bo-Wen Gu, Cui-Jun Zhang, Jinyan Luo, Jing Guo, Yuhua Wang, Lixian Chen, Xuan Du, Sisi Li, Chang-Rong Shao, Yin-Na Su, Xue-Wei Cai, Rong-Nan Lin, Lin Li, She Chen, Jiamu Du, Xin-Jian He
Plant Cell. 2020 Jul; 32(7): 2178–2195. Published online 2020 Apr 30. doi: 10.1105/tpc.19.00944
PMCID:
PMC7346560
ArticlePDF–2.9M
6.
A pan-plant protein complex map reveals deep conservation and novel assemblies
Claire D. McWhite, Ophelia Papoulas, Kevin Drew, Rachael M. Cox, Viviana June, Oliver Xiaoou Dong, Taejoon Kwon, Cuihong Wan, Mari L. Salmi, Stanley J. Roux, Jr., Karen S. Browning, Z. Jeffrey Chen, Pamela C. Ronald, Edward M. Marcotte
Cell. Author manuscript; available in PMC 2021 Apr 16.
Published in final edited form as: Cell. 2020 Apr 16; 181(2): 460–474.e14. Published online 2020 Mar 18. doi: 10.1016/j.cell.2020.02.049
PMCID:
PMC7297045
ArticlePDF–4.0M
7.
A plant‐specific SWR1 chromatin‐remodeling complex couples histone H2A.Z deposition with nucleosome sliding
Yu‐Xi Luo, Xiao‐Mei Hou, Cui‐Jun Zhang, Lian‐Mei Tan, Chang‐Rong Shao, Rong‐Nan Lin, Yin‐Na Su, Xue‐Wei Cai, Lin Li, She Chen, Xin‐Jian He
EMBO J. 2020 Apr 1; 39(7): e102008. Published online 2020 Mar 2. doi: 10.15252/embj.2019102008
PMCID:
PMC7110101
ArticlePDF–1.7M
8.
Mutation in DDM1 inhibits the homology directed repair of double strand breaks
Seung Hee Choi, Tae Ho Ryu, Jeong-Il Kim, Sungbeom Lee, Seung Sik Lee, Jin-Hong Kim
PLoS One. 2019; 14(2): e0211878. Published online 2019 Feb 11. doi: 10.1371/journal.pone.0211878
PMCID:
PMC6370192
ArticlePDF–2.8M
9.
Chromatin-mediated feed-forward auxin biosynthesis in floral meristem determinacy
Nobutoshi Yamaguchi, Jiangbo Huang, Yoshitaka Tatsumi, Masato Abe, Shigeo S. Sugano, Mikiko Kojima, Yumiko Takebayashi, Takatoshi Kiba, Ryusuke Yokoyama, Kazuhiko Nishitani, Hitoshi Sakakibara, Toshiro Ito
Nat Commun. 2018; 9: 5290. Published online 2018 Dec 11. doi: 10.1038/s41467-018-07763-0
PMCID:
PMC6289996
ArticlePDF–6.8M
10.
DDM1 guards against telomere truncation in Arabidopsis
Xiaoyuan Xie, Dorothy E. Shippen
Plant Cell Rep. Author manuscript; available in PMC 2018 Apr 2.
Published in final edited form as: Plant Cell Rep. 2018 Mar; 37(3): 501–513. Published online 2018 Feb 1. doi: 10.1007/s00299-017-2245-6
PMCID:
PMC5880217
ArticlePDF–665K
11.
DDM1 and Lsh remodelers allow methylation of DNA wrapped in nucleosomes
David B Lyons, Daniel Zilberman
eLife. 2017; 6: e30674. Published online 2017 Nov 15. doi: 10.7554/eLife.30674
PMCID:
PMC5728721
ArticlePDF–1.5M
12.
Global Analysis of Membrane-associated Protein Oligomerization Using Protein Correlation Profiling
Zachary McBride, Donglai Chen, Christy Reick, Jun Xie, Daniel B. Szymanski
Mol Cell Proteomics. 2017 Nov; 16(11): 1972–1989. Published online 2017 Sep 8. doi: 10.1074/mcp.RA117.000276
PMCID:
PMC5672003
ArticlePDF–3.5M
13.
CrY2H-seq: a massively-multiplexed assay for deep coverage interactome mapping
Shelly A. Wanamaker, Renee M. Garza, Andrew MacWilliams, Joseph R. Nery, Anna Bartlett, Rosa Castanon, Adeline Goubil, Joseph Feeney, Ronan O’Malley, Shao-shan Carol Huang, Zhuzhu Z. Zhang, Mary Galli, Joseph R. Ecker
Nat Methods. Author manuscript; available in PMC 2017 Dec 26.
Published in final edited form as: Nat Methods. 2017 Aug; 14(8): 819–825. Published online 2017 Jun 26. doi: 10.1038/nmeth.4343
Correction in:
Nat Methods. 2023 Jan 23
PMCID:
PMC5564216
ArticlePDF–1.3M
14.
Role of DNA methylation in hybrid vigor in Arabidopsis thaliana
Takahiro Kawanabe, Sonoko Ishikura, Naomi Miyaji, Taku Sasaki, Li Min Wu, Etsuko Itabashi, Satoko Takada, Motoki Shimizu, Takeshi Takasaki-Yasuda, Kenji Osabe, W. James Peacock, Elizabeth S. Dennis, Ryo Fujimoto
Proc Natl Acad Sci U S A. 2016 Oct 25; 113(43): E6704–E6711. Published online 2016 Oct 7. doi: 10.1073/pnas.1613372113
PMCID:
PMC5087013
ArticlePDF–1.5M
15.
Arabidopsis FORGETTER1 mediates stress-induced chromatin memory through nucleosome remodeling
Krzysztof Brzezinka, Simone Altmann, Hjördis Czesnick, Philippe Nicolas, Michal Gorka, Eileen Benke, Tina Kabelitz, Felix Jähne, Alexander Graf, Christian Kappel, Isabel Bäurle
eLife. 2016; 5: e17061. Published online 2016 Sep 28. doi: 10.7554/eLife.17061
PMCID:
PMC5040591
ArticlePDF–9.4M
16.
A Mutation in Plant-Specific SWI2/SNF2-Like Chromatin-Remodeling Proteins, DRD1 and DDM1, Delays Leaf Senescence in Arabidopsis thaliana
Eun Ju Cho, Seung Hee Choi, Ji Hong Kim, Ji Eun Kim, Min Hee Lee, Byung Yeoup Chung, Hye Ryun Woo, Jin-Hong Kim
PLoS One. 2016; 11(1): e0146826. Published online 2016 Jan 11. doi: 10.1371/journal.pone.0146826
PMCID:
PMC4709239
ArticlePDF–7.1M
17.
Genome-Wide Negative Feedback Drives Transgenerational DNA Methylation Dynamics in Arabidopsis
Tasuku Ito, Yoshiaki Tarutani, Taiko Kim To, Mohamed Kassam, Evelyne Duvernois-Berthet, Sandra Cortijo, Kazuya Takashima, Hidetoshi Saze, Atsushi Toyoda, Asao Fujiyama, Vincent Colot, Tetsuji Kakutani
PLoS Genet. 2015 Apr; 11(4): e1005154. Published online 2015 Apr 22. doi: 10.1371/journal.pgen.1005154
PMCID:
PMC4406451
ArticlePDF–2.5M
18.
Identification of genes preventing transgenerational transmission of stress-induced epigenetic states
Mayumi Iwasaki, Jerzy Paszkowski
Proc Natl Acad Sci U S A. 2014 Jun 10; 111(23): 8547–8552. Published online 2014 May 27. doi: 10.1073/pnas.1402275111
PMCID:
PMC4060648
ArticlePDF–1.3M
19.
The nucleosome remodeler DDM1 allows DNA methyltransferases to access H1-containing heterochromatin
Assaf Zemach, M. Yvonne Kim, Ping-Hung Hsieh, Devin Coleman-Derr, Leor Eshed-Williams, Ka Thao, Stacey L. Harmer, Daniel Zilberman
Cell. Author manuscript; available in PMC 2014 May 27.
Published in final edited form as: Cell. 2013 Mar 28; 153(1): 193–205. doi: 10.1016/j.cell.2013.02.033
PMCID:
PMC4035305
ArticlePDF–3.2M
20.
Deficiency in DNA methylation increases meiotic crossover rates in euchromatic but not in heterochromatic regions in Arabidopsis
Cathy Melamed-Bessudo, Avraham A. Levy
Proc Natl Acad Sci U S A. 2012 Apr 17; 109(16): E981–E988. Published online 2012 Mar 28. doi: 10.1073/pnas.1120742109
PMCID:
PMC3341010
ArticlePDF–848K

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