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Briffa, A., Hollwey, E., Shahzad, Z., Moore, J. D., Lyons, D. B., Howard, M., &; Zilberman, D. (2023). Millennia-long epigenetic fluctuations generate intragenic DNA methylation variance in Arabidopsis populations. Cell Systems. Elsevier.https://doi.org/10.1016/j.cels.2023.10.007 
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Hollwey, E., Briffa, A., Howard, M., &; Zilberman, D. (2023). Concepts, mechanisms and implications of long-term epigenetic inheritance. Current Opinion in Genetics and Development. Elsevier.https://doi.org/10.1016/j.gde.2023.102087 
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Rodrigues, J. A., Hsieh, P.-H., Ruan, D., Nishimura, T., Sharma, M. K., Sharma, R.,https://doi.org/10.1073/pnas.2104445118__Zilberman, D. (2021). Divergence among rice cultivars reveals roles for transposition and epimutation in ongoing evolution of genomic imprinting. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.2104445118 
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Choi, J., Lyons, D. B., &; Zilberman, D. (2021). Histonehttps://doi.org/10.7554/elife.72676__prevents non-CG methylation-mediated small RNA biogenesis in Arabidopsis heterochromatin. ELife. eLife Sciences Publications.https://doi.org/10.7554/elife.72676 
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Choi, J., Lyons, D. B., Kim, M. Y., Moore, J. D., &; Zilberman, D. (2020). DNA methylation and histonehttps://doi.org/10.1016/j.molcel.2019.10.011__jointly repress transposable elements and aberrant intragenic transcripts. Molecular Cell. Elsevier.https://doi.org/10.1016/j.molcel.2019.10.011 
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Kim, M. Y., Ono, A., Scholten, S., Kinoshita, T., Zilberman, D., Okamoto, T., &; Fischer, R. L. (2019). DNA demethylation by ROa in rice vegetative cells promotes methylation in sperm. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.1821435116 
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Harris, K. D., Lloyd, J. P. B., Domb, K., Zilberman, D., &; Zemach, A. (2019). DNA methylation is maintained with high fidelity in the honey bee germline and exhibits global non-functional fluctuations during somatic development. Epigenetics and Chromatin. Springer Nature.https://doi.org/10.1186/s13072-019-0307-4 
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Frost, J. M., Kim, M. Y., Park, G. T., Hsieh, P.-H., Nakamura, M., Lin, S. J. H.,https://doi.org/10.1073/pnas.1713333115__Fischer, R. L. (2018). FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.1713333115 
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Lyons, D. B., &; Zilberman, D. (2017). DDM1 and Lsh remodelers allow methylation of DNA wrapped in nucleosomes. ELife. eLife Sciences Publications.https://doi.org/10.7554/elife.30674 
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Zilberman, D. (2017). An evolutionary case for functional gene body methylation in plants and animals. Genome Biology. Springer Nature.https://doi.org/10.1186/s13059-017-1230-2 
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Huff, J. T., Zilberman, D., &; Roy, S. W. (2016). Mechanism for DNA transposons to generate introns on genomic scales. Nature. Springer Nature .https://doi.org/10.1038/nature20110 
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Park, K., Kim, M. Y., Vickers, M., Park, J.-S., Hyun, Y., Okamoto, T.,https://doi.org/10.1073/pnas.1619047114__Scholten, S. (2016). DNA demethylation is initiated in the central cells of Arabidopsis and rice. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.1619047114 
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Hsieh, P.-H., He, S., Buttress, T., Gao, H., Couchman, M., Fischer, R. L.,https://doi.org/10.1073/pnas.1619074114__Feng, X. (2016). Arabidopsis male sexual lineage exhibits more robust maintenance of CG methylation than somatic tissues. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.1619074114 
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Rodrigues, J. A., &; Zilberman, D. (2015). Evolution and function of genomic imprinting in plants. Genes and Development. Cold Spring Harbor Laboratory Press.https://doi.org/10.1101/gad.269902.115 
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Kim, M. Y., &; Zilberman, D. (2014). DNA methylation as a system of plant genomic immunity. Trends in Plant Science. Elsevier.https://doi.org/10.1016/j.tplants.2014.01.014 
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Huff, J. T., &; Zilberman, D. (2014). Dnmt1-independent CG methylation contributes to nucleosome positioning in diverse eukaryotes. Cell. Elsevier.https://doi.org/10.1016/j.cell.2014.01.029 
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Mérai, Z., Chumak, N., García-Aguilar, M., Hsieh, T.-F., Nishimura, T., Schoft, V. K.,https://doi.org/10.1073/pnas.1418564111__Tamaru, H. (2014). The AAA-ATPase molecular chaperone Cd/ disassembles sumoylated centromeres, decondenses heterochromatin, and activates ribosomal RNA genes. Proceedings of the National Academy of Sciences. National Academy of Sciences.https://doi.org/10.1073/pnas.1418564111 
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Zemach, A., Kim, M. Y., Hsieh, P.-H., Coleman-Derr, D., Eshed-Williams, L., Thao, K.,https://doi.org/10.1016/j.cell.2013.02.033__Zilberman, D. (2013). The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access -containing heterochromatin. Cell. Elsevier.https://doi.org/10.1016/j.cell.2013.02.033 
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Rodrigues, J. A., Ruan, R., Nishimura, T., Sharma, M. K., Sharma, R., Ronald, P. C.,https://doi.org/10.1073/pnas.1306164110__Zilberman, D. (2013). 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. National Academy of Sciences.https://doi.org/10.1073/pnas.1306164110 
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