{"issue":"3","month":"03","title":"Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons","publication_identifier":{"eissn":["2211-1247"]},"doi":"10.1016/j.celrep.2023.112132","_id":"12672","citation":{"apa":"Lyons, D. B., Briffa, A., He, S., Choi, J., Hollwey, E., Colicchio, J., … Zilberman, D. (2023). Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2023.112132\">https://doi.org/10.1016/j.celrep.2023.112132</a>","short":"D.B. Lyons, A. Briffa, S. He, J. Choi, E. Hollwey, J. Colicchio, I. Anderson, X. Feng, M. Howard, D. Zilberman, Cell Reports 42 (2023).","mla":"Lyons, David B., et al. “Extensive de Novo Activity Stabilizes Epigenetic Inheritance of CG Methylation in Arabidopsis Transposons.” <i>Cell Reports</i>, vol. 42, no. 3, 112132, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.celrep.2023.112132\">10.1016/j.celrep.2023.112132</a>.","chicago":"Lyons, David B., Amy Briffa, Shengbo He, Jaemyung Choi, Elizabeth Hollwey, Jack Colicchio, Ian Anderson, Xiaoqi Feng, Martin Howard, and Daniel Zilberman. “Extensive de Novo Activity Stabilizes Epigenetic Inheritance of CG Methylation in Arabidopsis Transposons.” <i>Cell Reports</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.celrep.2023.112132\">https://doi.org/10.1016/j.celrep.2023.112132</a>.","ieee":"D. B. Lyons <i>et al.</i>, “Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons,” <i>Cell Reports</i>, vol. 42, no. 3. Elsevier, 2023.","ama":"Lyons DB, Briffa A, He S, et al. Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons. <i>Cell Reports</i>. 2023;42(3). doi:<a href=\"https://doi.org/10.1016/j.celrep.2023.112132\">10.1016/j.celrep.2023.112132</a>","ista":"Lyons DB, Briffa A, He S, Choi J, Hollwey E, Colicchio J, Anderson I, Feng X, Howard M, Zilberman D. 2023. Extensive de novo activity stabilizes epigenetic inheritance of CG methylation in Arabidopsis transposons. Cell Reports. 42(3), 112132."},"type":"journal_article","oa_version":"Published Version","scopus_import":"1","oa":1,"publisher":"Elsevier","publication_status":"published","author":[{"full_name":"Lyons, David B.","first_name":"David B.","last_name":"Lyons"},{"full_name":"Briffa, Amy","first_name":"Amy","last_name":"Briffa"},{"first_name":"Shengbo","full_name":"He, Shengbo","last_name":"He"},{"last_name":"Choi","first_name":"Jaemyung","full_name":"Choi, Jaemyung"},{"first_name":"Elizabeth","full_name":"Hollwey, Elizabeth","last_name":"Hollwey","id":"b8c4f54b-e484-11eb-8fdc-a54df64ef6dd"},{"first_name":"Jack","full_name":"Colicchio, Jack","last_name":"Colicchio"},{"first_name":"Ian","full_name":"Anderson, Ian","last_name":"Anderson"},{"full_name":"Feng, Xiaoqi","orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958"},{"last_name":"Howard","first_name":"Martin","full_name":"Howard, Martin"},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","full_name":"Zilberman, Daniel","first_name":"Daniel","orcid":"0000-0002-0123-8649"}],"language":[{"iso":"eng"}],"file_date_updated":"2023-05-11T10:41:42Z","department":[{"_id":"DaZi"},{"_id":"XiFe"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","date_created":"2023-02-23T09:17:44Z","article_number":"112132","publication":"Cell Reports","date_published":"2023-03-28T00:00:00Z","article_processing_charge":"Yes","year":"2023","ddc":["580"],"file":[{"file_name":"2023_CellReports_Lyons.pdf","date_created":"2023-05-11T10:41:42Z","file_size":8401261,"date_updated":"2023-05-11T10:41:42Z","content_type":"application/pdf","relation":"main_file","success":1,"access_level":"open_access","file_id":"12941","creator":"kschuh","checksum":"6cbc44fdb18bf18834c9e2a5b9c67123"}],"external_id":{"isi":["000944921600001"]},"has_accepted_license":"1","article_type":"original","project":[{"grant_number":"725746","call_identifier":"H2020","_id":"62935a00-2b32-11ec-9570-eff30fa39068","name":"Quantitative analysis of DNA methylation maintenance with chromatin"}],"isi":1,"volume":42,"acknowledgement":"The authors would like to thank Jasper Rine for advice and mentorship to D.B.L., Lesley Philips, Timothy Wells, Sophie Able, and Christina Wistrom for support with plant growth, and Bhagyshree Jamge and Frédéric Berger for help with analysis of ddm1 × WT RNA-sequencing data. This work was supported by BBSRC Institute Strategic Program GEN (BB/P013511/1) to X.F., M.H., and D.Z., a European Research Council grant MaintainMeth (725746) to D.Z., and a postdoctoral fellowship from the Helen Hay Whitney Foundation to D.B.L.","ec_funded":1,"abstract":[{"text":"Cytosine methylation within CG dinucleotides (mCG) can be epigenetically inherited over many generations. Such inheritance is thought to be mediated by a semiconservative mechanism that produces binary present/absent methylation patterns. However, we show here that in Arabidopsis thaliana h1ddm1 mutants, intermediate heterochromatic mCG is stably inherited across many generations and is quantitatively associated with transposon expression. We develop a mathematical model that estimates the rates of semiconservative maintenance failure and de novo methylation at each transposon, demonstrating that mCG can be stably inherited at any level via a dynamic balance of these activities. We find that DRM2 – the core methyltransferase of the RNA-directed DNA methylation pathway – catalyzes most of the heterochromatic de novo mCG, with de novo rates orders of magnitude higher than previously thought, whereas chromomethylases make smaller contributions. Our results demonstrate that stable epigenetic inheritance of mCG in plant heterochromatin is enabled by extensive de novo methylation.","lang":"eng"}],"status":"public","date_updated":"2023-11-02T12:23:45Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png"},"intvolume":"        42","quality_controlled":"1","day":"28"}