Lyons DB, Briffa A, He S, et al. Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons. Cell Reports. 2023;42(3). doi:10.1016/j.celrep.2023.112132
LibreCat: https://research-explorer.ista.ac.at/record/12672
DOI: 10.1016/j.celrep.2023.112132
WoS: 000944921600001

Briffa A, Hollwey E, Shahzad Z, et al. Millennia-long epigenetic fluctuations generate intragenic DNA methylation variance in Arabidopsis populations. Cell Systems. 2023;14(11):953-967. doi:10.1016/j.cels.2023.10.007
LibreCat: https://research-explorer.ista.ac.at/record/14551
DOI: 10.1016/j.cels.2023.10.007
PMID: 37944515

Hollwey E, Briffa A, Howard M, Zilberman D. Concepts, mechanisms and implications of long-term epigenetic inheritance. Current Opinion in Genetics and Development. 2023;81(8). doi:10.1016/j.gde.2023.102087
LibreCat: https://research-explorer.ista.ac.at/record/13965
DOI: 10.1016/j.gde.2023.102087
WoS: 001047020200001
PMID: 37441873

Rodrigues JA, Hsieh P-H, Ruan D, et al. Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting. Proceedings of the National Academy of Sciences. 2021;118(29). doi:10.1073/pnas.2104445118
LibreCat: https://research-explorer.ista.ac.at/record/9877
DOI: 10.1073/pnas.2104445118
WoS: 000685037700012
PMID: 34272287

Choi J, Lyons DB, Zilberman D. Histone10.7554/elife.72676__prevents non-CG methylation-mediated small RNA biogenesis in Arabidopsis heterochromatin. eLife. 2021;10. doi:10.7554/elife.72676
LibreCat: https://research-explorer.ista.ac.at/record/10533
DOI: 10.7554/elife.72676
WoS: 000754832000001
PMID: 34850679

Choi J, Lyons DB, Kim MY, Moore JD, Zilberman D. DNA methylation and histone10.1016/j.molcel.2019.10.011__jointly repress transposable elements and aberrant intragenic transcripts. Molecular Cell. 2020;77(2):310-323.e7. doi:10.1016/j.molcel.2019.10.011
LibreCat: https://research-explorer.ista.ac.at/record/9526
DOI: 10.1016/j.molcel.2019.10.011
PMID: 31732458

Kim MY, Ono A, Scholten S, et al. DNA demethylation by ROa in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. 2019;116(19):9652-9657. doi:10.1073/pnas.1821435116
LibreCat: https://research-explorer.ista.ac.at/record/9460
DOI: 10.1073/pnas.1821435116
PMID: 31000601

Harris KD, Lloyd JPB, Domb K, Zilberman D, Zemach A. DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. 2019;12. doi:10.1186/s13072-019-0307-4
LibreCat: https://research-explorer.ista.ac.at/record/9530
DOI: 10.1186/s13072-019-0307-4
PMID: 31601251

Frost JM, Kim MY, Park GT, et al. FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. 2018;115(20):20-29. doi:10.1073/pnas.1713333115
LibreCat: https://research-explorer.ista.ac.at/record/9471
DOI: 10.1073/pnas.1713333115
PMID: 29712855

Lyons DB, Zilberman D. DDM1 and Lsh remodelers allow methylation of DNA wrapped in nucleosomes. eLife. 2017;6. doi:10.7554/elife.30674
LibreCat: https://research-explorer.ista.ac.at/record/9445
DOI: 10.7554/elife.30674
PMID: 29140247

Zilberman D. An evolutionary case for functional gene body methylation in plants and animals. Genome Biology. 2017;18(1). doi:10.1186/s13059-017-1230-2
LibreCat: https://research-explorer.ista.ac.at/record/9506
DOI: 10.1186/s13059-017-1230-2
PMID: 28486944

Huff JT, Zilberman D, Roy SW. Mechanism for DNA transposons to generate introns on genomic scales. Nature. 2016;538(7626):533-536. doi:10.1038/nature20110
LibreCat: https://research-explorer.ista.ac.at/record/9456
DOI: 10.1038/nature20110
PMID: 27760113

Park K, Kim MY, Vickers M, et al. DNA demethylation is initiated in the central cells of Arabidopsis and rice. Proceedings of the National Academy of Sciences. 2016;113(52):15138-15143. doi:10.1073/pnas.1619047114
LibreCat: https://research-explorer.ista.ac.at/record/9477
DOI: 10.1073/pnas.1619047114
PMID: 27956642

Hsieh P-H, He S, Buttress T, et al. Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues. Proceedings of the National Academy of Sciences. 2016;113(52):15132-15137. doi:10.1073/pnas.1619074114
LibreCat: https://research-explorer.ista.ac.at/record/9473
DOI: 10.1073/pnas.1619074114
PMID: 27956643

Rodrigues JA, Zilberman D. Evolution and function of genomic imprinting in plants. Genes and Development. 2015;29(24):2517–2531. doi:10.1101/gad.269902.115
LibreCat: https://research-explorer.ista.ac.at/record/9532
DOI: 10.1101/gad.269902.115
PMID: 26680300

Kim MY, Zilberman D. DNA methylation as a system of plant genomic immunity. Trends in Plant Science. 2014;19(5):320-326. doi:10.1016/j.tplants.2014.01.014
LibreCat: https://research-explorer.ista.ac.at/record/9519
DOI: 10.1016/j.tplants.2014.01.014
PMID: 24618094 

Huff JT, Zilberman D. Dnmt1-independent CG methylation contributes to nucleosome positioning in diverse eukaryotes. Cell. 2014;156(6):1286-1297. doi:10.1016/j.cell.2014.01.029
LibreCat: https://research-explorer.ista.ac.at/record/9458
DOI: 10.1016/j.cell.2014.01.029
PMID: 24630728

Mérai Z, Chumak N, García-Aguilar M, et al. The AAA-ATPase molecular chaperone Cd/ disassembles sumoylated centromeres, decondenses heterochromatin, and activates ribosomal RNA genes. Proceedings of the National Academy of Sciences. 2014;111(45):16166-16171. doi:10.1073/pnas.1418564111
LibreCat: https://research-explorer.ista.ac.at/record/9479
DOI: 10.1073/pnas.1418564111
PMID: 25344531

Zemach A, Kim MY, Hsieh P-H, et al. The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access -containing heterochromatin. Cell. 2013;153(1):193-205. doi:10.1016/j.cell.2013.02.033
LibreCat: https://research-explorer.ista.ac.at/record/9459
DOI: 10.1016/j.cell.2013.02.033
PMID: 23540698

Rodrigues JA, Ruan R, Nishimura T, et al. Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm. Proceedings of the National Academy of Sciences. 2013;110(19):7934-7939. doi:10.1073/pnas.1306164110
LibreCat: https://research-explorer.ista.ac.at/record/9481
DOI: 10.1073/pnas.1306164110
PMID: 23613580