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For: Gouil Q, Baulcombe DC. DNA Methylation Signatures of the Plant Chromomethyltransferases. PLoS Genet 2016;12:e1006526. [PMID: 27997534 PMCID: PMC5221884 DOI: 10.1371/journal.pgen.1006526] [Citation(s) in RCA: 122] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2016] [Revised: 01/09/2017] [Accepted: 12/07/2016] [Indexed: 12/22/2022]  Open
Number Cited by Other Article(s)
51
Catoni M, Zabet NR. Analysis of Plant DNA Methylation Profiles Using R. Methods Mol Biol 2021;2250:219-238. [PMID: 33900608 DOI: 10.1007/978-1-0716-1134-0_21] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/13/2023]
52
Ritter EJ, Niederhuth CE. Intertwined evolution of plant epigenomes and genomes. CURRENT OPINION IN PLANT BIOLOGY 2021;61:101990. [PMID: 33445143 DOI: 10.1016/j.pbi.2020.101990] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 12/08/2020] [Accepted: 12/17/2020] [Indexed: 06/12/2023]
53
DNA methylation: from model plants to vegetable crops. Biochem Soc Trans 2021;49:1479-1487. [PMID: 34060587 DOI: 10.1042/bst20210353] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2021] [Revised: 04/29/2021] [Accepted: 05/07/2021] [Indexed: 11/17/2022]
54
Fang J, Leichter SM, Jiang J, Biswal M, Lu J, Zhang ZM, Ren W, Zhai J, Cui Q, Zhong X, Song J. Substrate deformation regulates DRM2-mediated DNA methylation in plants. SCIENCE ADVANCES 2021;7:eabd9224. [PMID: 34078593 PMCID: PMC8172135 DOI: 10.1126/sciadv.abd9224] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Accepted: 04/16/2021] [Indexed: 06/12/2023]
55
In Response to Abiotic Stress, DNA Methylation Confers EpiGenetic Changes in Plants. PLANTS 2021;10:plants10061096. [PMID: 34070712 PMCID: PMC8227271 DOI: 10.3390/plants10061096] [Citation(s) in RCA: 32] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/21/2021] [Revised: 05/26/2021] [Accepted: 05/27/2021] [Indexed: 02/07/2023]
56
Chakraborty T, Kendall T, Grover JW, Mosher RA. Embryo CHH hypermethylation is mediated by RdDM and is autonomously directed in Brassica rapa. Genome Biol 2021;22:140. [PMID: 33957938 PMCID: PMC8101221 DOI: 10.1186/s13059-021-02358-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2020] [Accepted: 04/21/2021] [Indexed: 11/10/2022]  Open
57
Chen B, Xu H, Guo Y, Grünhofer P, Schreiber L, Lin J, Li R. Transcriptomic and epigenomic remodeling occurs during vascular cambium periodicity in Populus tomentosa. HORTICULTURE RESEARCH 2021;8:102. [PMID: 33931595 PMCID: PMC8087784 DOI: 10.1038/s41438-021-00535-w] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/13/2020] [Revised: 02/20/2021] [Accepted: 03/08/2021] [Indexed: 05/06/2023]
58
Perspectives for epigenetic editing in crops. Transgenic Res 2021;30:381-400. [PMID: 33891288 DOI: 10.1007/s11248-021-00252-z] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Accepted: 03/29/2021] [Indexed: 01/10/2023]
59
Mobility connects: transposable elements wire new transcriptional networks by transferring transcription factor binding motifs. Biochem Soc Trans 2021;48:1005-1017. [PMID: 32573687 PMCID: PMC7329337 DOI: 10.1042/bst20190937] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2020] [Revised: 06/01/2020] [Accepted: 06/03/2020] [Indexed: 12/28/2022]
60
Wang L, Han W, Diao S, Suo Y, Li H, Mai Y, Wang Y, Sun P, Fu J. Study of Sexual-Linked Genes (OGI and MeGI) on the Performance of Androecious Persimmons (Diospyros kaki Thunb.). PLANTS 2021;10:plants10020390. [PMID: 33670570 PMCID: PMC7922513 DOI: 10.3390/plants10020390] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Revised: 02/10/2021] [Accepted: 02/14/2021] [Indexed: 11/25/2022]
61
Palomar VM, Garciarrubio A, Garay-Arroyo A, Martínez-Martínez C, Rosas-Bringas O, Reyes JL, Covarrubias AA. The canonical RdDM pathway mediates the control of seed germination timing under salinity. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021;105:691-707. [PMID: 33131171 DOI: 10.1111/tpj.15064] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2018] [Revised: 09/11/2020] [Accepted: 10/26/2020] [Indexed: 06/11/2023]
62
Lu Y, Song Y, Liu L, Wang T. DNA methylation dynamics of sperm cell lineage development in tomato. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2021;105:565-579. [PMID: 33249677 DOI: 10.1111/tpj.15098] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/31/2020] [Revised: 11/16/2020] [Accepted: 11/23/2020] [Indexed: 06/12/2023]
63
DNA methylation mutants in Physcomitrella patens elucidate individual roles of CG and non-CG methylation in genome regulation. Proc Natl Acad Sci U S A 2020;117:33700-33710. [PMID: 33376225 DOI: 10.1073/pnas.2011361117] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]  Open
64
Borges F, Donoghue MTA, LeBlanc C, Wear EE, Tanurdžić M, Berube B, Brooks A, Thompson WF, Hanley-Bowdoin L, Martienssen RA. Loss of Small-RNA-Directed DNA Methylation in the Plant Cell Cycle Promotes Germline Reprogramming and Somaclonal Variation. Curr Biol 2020;31:591-600.e4. [PMID: 33275892 DOI: 10.1016/j.cub.2020.10.098] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2020] [Revised: 09/24/2020] [Accepted: 10/30/2020] [Indexed: 02/07/2023]
65
Bourguet P, López-González L, Gómez-Zambrano Á, Pélissier T, Hesketh A, Potok ME, Pouch-Pélissier MN, Perez M, Da Ines O, Latrasse D, White CI, Jacobsen SE, Benhamed M, Mathieu O. DNA polymerase epsilon is required for heterochromatin maintenance in Arabidopsis. Genome Biol 2020;21:283. [PMID: 33234150 PMCID: PMC7687843 DOI: 10.1186/s13059-020-02190-1] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Accepted: 10/27/2020] [Indexed: 12/12/2022]  Open
66
Rymen B, Ferrafiat L, Blevins T. Non-coding RNA polymerases that silence transposable elements and reprogram gene expression in plants. Transcription 2020;11:172-191. [PMID: 33180661 PMCID: PMC7714444 DOI: 10.1080/21541264.2020.1825906] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]  Open
67
Tang D, Gallusci P, Lang Z. Fruit development and epigenetic modifications. THE NEW PHYTOLOGIST 2020;228:839-844. [PMID: 32506476 DOI: 10.1111/nph.16724] [Citation(s) in RCA: 61] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 05/01/2020] [Indexed: 05/26/2023]
68
RNA-directed DNA Methylation. PLoS Genet 2020;16:e1009034. [PMID: 33031395 PMCID: PMC7544125 DOI: 10.1371/journal.pgen.1009034] [Citation(s) in RCA: 130] [Impact Index Per Article: 32.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]  Open
69
Shahryary Y, Symeonidi A, Hazarika RR, Denkena J, Mubeen T, Hofmeister B, van Gurp T, Colomé-Tatché M, Verhoeven KJ, Tuskan G, Schmitz RJ, Johannes F. AlphaBeta: computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants. Genome Biol 2020;21:260. [PMID: 33023650 PMCID: PMC7539454 DOI: 10.1186/s13059-020-02161-6] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2019] [Accepted: 09/02/2020] [Indexed: 01/28/2023]  Open
70
Papareddy RK, Páldi K, Paulraj S, Kao P, Lutzmayer S, Nodine MD. Chromatin regulates expression of small RNAs to help maintain transposon methylome homeostasis in Arabidopsis. Genome Biol 2020;21:251. [PMID: 32943088 PMCID: PMC7499886 DOI: 10.1186/s13059-020-02163-4] [Citation(s) in RCA: 41] [Impact Index Per Article: 10.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2020] [Accepted: 09/04/2020] [Indexed: 12/11/2022]  Open
71
Harris KD, Zemach A. Contiguous and stochastic CHH methylation patterns of plant DRM2 and CMT2 revealed by single-read methylome analysis. Genome Biol 2020;21:194. [PMID: 32762764 PMCID: PMC7412668 DOI: 10.1186/s13059-020-02099-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2020] [Accepted: 07/08/2020] [Indexed: 12/12/2022]  Open
72
Wang G, Li H, Meng S, Yang J, Ye N, Zhang J. Analysis of Global Methylome and Gene Expression during Carbon Reserve Mobilization in Stems under Soil Drying. PLANT PHYSIOLOGY 2020;183:1809-1824. [PMID: 32513834 PMCID: PMC7401115 DOI: 10.1104/pp.20.00141] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2020] [Accepted: 06/01/2020] [Indexed: 05/18/2023]
73
Rawoof A, Chhapekar SS, Jaiswal V, Brahma V, Kumar N, Ramchiary N. Single-base cytosine methylation analysis in fruits of three Capsicum species. Genomics 2020;112:3342-3353. [PMID: 32561348 DOI: 10.1016/j.ygeno.2020.04.031] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Revised: 02/29/2020] [Accepted: 04/11/2020] [Indexed: 11/30/2022]
74
Small RNA Function in Plants: From Chromatin to the Next Generation. COLD SPRING HARBOR SYMPOSIA ON QUANTITATIVE BIOLOGY 2020;84:133-140. [PMID: 32518093 DOI: 10.1101/sqb.2019.84.040394] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
75
Wang Z, Butel N, Santos-González J, Borges F, Yi J, Martienssen RA, Martinez G, Köhler C. Polymerase IV Plays a Crucial Role in Pollen Development in Capsella. THE PLANT CELL 2020;32:950-966. [PMID: 31988265 PMCID: PMC7145478 DOI: 10.1105/tpc.19.00938] [Citation(s) in RCA: 36] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 01/13/2020] [Accepted: 01/21/2020] [Indexed: 05/04/2023]
76
Chow HT, Chakraborty T, Mosher RA. RNA-directed DNA Methylation and sexual reproduction: expanding beyond the seed. CURRENT OPINION IN PLANT BIOLOGY 2020;54:11-17. [PMID: 31881293 DOI: 10.1016/j.pbi.2019.11.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/31/2019] [Revised: 11/20/2019] [Accepted: 11/22/2019] [Indexed: 05/12/2023]
77
Wang Z, Baulcombe DC. Transposon age and non-CG methylation. Nat Commun 2020;11:1221. [PMID: 32144266 PMCID: PMC7060349 DOI: 10.1038/s41467-020-14995-6] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2020] [Accepted: 02/11/2020] [Indexed: 11/09/2022]  Open
78
Natural variation in DNA methylation homeostasis and the emergence of epialleles. Proc Natl Acad Sci U S A 2020;117:4874-4884. [PMID: 32071208 DOI: 10.1073/pnas.1918172117] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]  Open
79
Debladis E, Lee TF, Huang YJ, Lu JH, Mathioni SM, Carpentier MC, Llauro C, Pierron D, Mieulet D, Guiderdoni E, Chen PY, Meyers BC, Panaud O, Lasserre E. Construction and characterization of a knock-down RNA interference line of OsNRPD1 in rice (Oryza sativa ssp japonica cv Nipponbare). Philos Trans R Soc Lond B Biol Sci 2020;375:20190338. [PMID: 32075556 DOI: 10.1098/rstb.2019.0338] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]  Open
80
Grimanelli D, Ingouff M. DNA Methylation Readers in Plants. J Mol Biol 2020:S0022-2836(20)30027-9. [PMID: 31931004 DOI: 10.1016/j.jmb.2019.12.043] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Revised: 12/13/2019] [Accepted: 12/17/2019] [Indexed: 01/09/2023]
81
Approaches to Whole-Genome Methylome Analysis in Plants. Methods Mol Biol 2020;2093:15-31. [PMID: 32088886 DOI: 10.1007/978-1-0716-0179-2_2] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
82
Kenchanmane Raju SK, Ritter EJ, Niederhuth CE. Establishment, maintenance, and biological roles of non-CG methylation in plants. Essays Biochem 2019;63:743-755. [PMID: 31652316 PMCID: PMC6923318 DOI: 10.1042/ebc20190032] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2019] [Revised: 09/18/2019] [Accepted: 09/20/2019] [Indexed: 12/18/2022]
83
Yang Y, Tang K, Datsenka TU, Liu W, Lv S, Lang Z, Wang X, Gao J, Wang W, Nie W, Chu Z, Zhang H, Handa AK, Zhu JK, Zhang H. Critical function of DNA methyltransferase 1 in tomato development and regulation of the DNA methylome and transcriptome. JOURNAL OF INTEGRATIVE PLANT BIOLOGY 2019;61:1224-1242. [PMID: 30652405 DOI: 10.1111/jipb.12778] [Citation(s) in RCA: 35] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 01/14/2019] [Indexed: 05/05/2023]
84
de Mendoza A, Lister R, Bogdanovic O. Evolution of DNA Methylome Diversity in Eukaryotes. J Mol Biol 2019:S0022-2836(19)30659-X. [PMID: 31726061 DOI: 10.1016/j.jmb.2019.11.003] [Citation(s) in RCA: 52] [Impact Index Per Article: 10.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2019] [Revised: 11/03/2019] [Accepted: 11/04/2019] [Indexed: 12/23/2022]
85
Methylation content sensitive enzyme ddRAD (MCSeEd): a reference-free, whole genome profiling system to address cytosine/adenine methylation changes. Sci Rep 2019;9:14864. [PMID: 31619715 PMCID: PMC6795852 DOI: 10.1038/s41598-019-51423-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/11/2019] [Accepted: 09/26/2019] [Indexed: 12/18/2022]  Open
86
Ji L, Mathioni SM, Johnson S, Tucker D, Bewick AJ, Do Kim K, Daron J, Slotkin RK, Jackson SA, Parrott WA, Meyers BC, Schmitz RJ. Genome-Wide Reinforcement of DNA Methylation Occurs during Somatic Embryogenesis in Soybean. THE PLANT CELL 2019;31:2315-2331. [PMID: 31439802 PMCID: PMC6790092 DOI: 10.1105/tpc.19.00255] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2019] [Revised: 07/29/2019] [Accepted: 08/19/2019] [Indexed: 05/06/2023]
87
Benoit M, Drost HG, Catoni M, Gouil Q, Lopez-Gomollon S, Baulcombe D, Paszkowski J. Environmental and epigenetic regulation of Rider retrotransposons in tomato. PLoS Genet 2019;15:e1008370. [PMID: 31525177 PMCID: PMC6762207 DOI: 10.1371/journal.pgen.1008370] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2019] [Revised: 09/26/2019] [Accepted: 08/14/2019] [Indexed: 11/18/2022]  Open
88
Dynamics and function of DNA methylation in plants. Nat Rev Mol Cell Biol 2019;19:489-506. [PMID: 29784956 DOI: 10.1038/s41580-018-0016-z] [Citation(s) in RCA: 817] [Impact Index Per Article: 163.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
89
Gulyás A, Dobránszki J, Kiss E, da Silva JAT, Posta K, Hidvégi N. Changes in DNA methylation pattern of apple long-term in vitro shoot culture and acclimatized plants. JOURNAL OF PLANT PHYSIOLOGY 2019;239:18-27. [PMID: 31177027 DOI: 10.1016/j.jplph.2019.05.007] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/27/2018] [Revised: 04/17/2019] [Accepted: 05/13/2019] [Indexed: 06/09/2023]
90
Wendte JM, Zhang Y, Ji L, Shi X, Hazarika RR, Shahryary Y, Johannes F, Schmitz RJ. Epimutations are associated with CHROMOMETHYLASE 3-induced de novo DNA methylation. eLife 2019;8:e47891. [PMID: 31356150 PMCID: PMC6663294 DOI: 10.7554/elife.47891] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2019] [Accepted: 07/19/2019] [Indexed: 12/20/2022]  Open
91
Wendte JM, Zhang Y, Ji L, Shi X, Hazarika RR, Shahryary Y, Johannes F, Schmitz RJ. Epimutations are associated with CHROMOMETHYLASE 3-induced de novo DNA methylation. eLife 2019. [PMID: 31356150 DOI: 10.7554/elife.47891.037] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/11/2023]  Open
92
Aguilar-Cruz A, Grimanelli D, Haseloff J, Arteaga-Vázquez MA. DNA methylation in Marchantia polymorpha. THE NEW PHYTOLOGIST 2019;223:575-581. [PMID: 30920664 DOI: 10.1111/nph.15818] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2018] [Accepted: 03/13/2019] [Indexed: 06/09/2023]
93
RdDM-independent de novo and heterochromatin DNA methylation by plant CMT and DNMT3 orthologs. Nat Commun 2019;10:1613. [PMID: 30962443 PMCID: PMC6453930 DOI: 10.1038/s41467-019-09496-0] [Citation(s) in RCA: 34] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2018] [Accepted: 03/13/2019] [Indexed: 12/31/2022]  Open
94
Wang L, Shi Y, Chang X, Jing S, Zhang Q, You C, Yuan H, Wang H. DNA methylome analysis provides evidence that the expansion of the tea genome is linked to TE bursts. PLANT BIOTECHNOLOGY JOURNAL 2019;17:826-835. [PMID: 30256509 PMCID: PMC6419580 DOI: 10.1111/pbi.13018] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Revised: 09/14/2018] [Accepted: 09/23/2018] [Indexed: 05/12/2023]
95
Global increase in DNA methylation during orange fruit development and ripening. Proc Natl Acad Sci U S A 2019;116:1430-1436. [PMID: 30635417 DOI: 10.1073/pnas.1815441116] [Citation(s) in RCA: 136] [Impact Index Per Article: 27.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
96
Roy Choudhury S. Genome-wide alterations of epigenomic landscape in plants by engineered nanomaterial toxicants. COMPREHENSIVE ANALYTICAL CHEMISTRY 2019. [DOI: 10.1016/bs.coac.2019.04.008] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
97
Mechanistic insights into plant SUVH family H3K9 methyltransferases and their binding to context-biased non-CG DNA methylation. Proc Natl Acad Sci U S A 2018;115:E8793-E8802. [PMID: 30150382 DOI: 10.1073/pnas.1809841115] [Citation(s) in RCA: 67] [Impact Index Per Article: 11.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]  Open
98
Wang Z, Hardcastle TJ, Canto Pastor A, Yip WH, Tang S, Baulcombe DC. A novel DCL2-dependent miRNA pathway in tomato affects susceptibility to RNA viruses. Genes Dev 2018;32:1155-1160. [PMID: 30150254 PMCID: PMC6120711 DOI: 10.1101/gad.313601.118] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2018] [Accepted: 06/27/2018] [Indexed: 12/19/2022]
99
Fu FF, Dawe RK, Gent JI. Loss of RNA-Directed DNA Methylation in Maize Chromomethylase and DDM1-Type Nucleosome Remodeler Mutants. THE PLANT CELL 2018;30:1617-1627. [PMID: 29884624 PMCID: PMC6096594 DOI: 10.1105/tpc.18.00053] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/23/2018] [Revised: 05/16/2018] [Accepted: 06/07/2018] [Indexed: 05/02/2023]
100
Corem S, Doron-Faigenboim A, Jouffroy O, Maumus F, Arazi T, Bouché N. Redistribution of CHH Methylation and Small Interfering RNAs across the Genome of Tomato ddm1 Mutants. THE PLANT CELL 2018;30:1628-1644. [PMID: 29875274 PMCID: PMC6096599 DOI: 10.1105/tpc.18.00167] [Citation(s) in RCA: 50] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2018] [Revised: 05/01/2018] [Accepted: 05/31/2018] [Indexed: 05/18/2023]
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