DNA methylation pathways and their crosstalk with histone methylation, Nature Reviews Molecular Cell Biology, vol.16, issue.9, pp.519-532, 2015. ,
The Arabidopsis Nucleosome Remodeler DDM1 Allows DNA Methyltransferases to Access H1-Containing Heterochromatin, Cell, vol.153, issue.1, pp.193-205, 2013. ,
Faculty Opinions recommendation of The Arabidopsis nucleosome remodeler DDM1 allows DNA methyltransferases to access H1-containing heterochromatin., Cell, vol.153, issue.1, pp.193-205, 2013. ,
Non-CG methylation patterns shape the epigenetic landscape in Arabidopsis, Nature Structural & Molecular Biology, vol.21, issue.1, pp.64-72, 2013. ,
Two cell-cycle regulated SET-domain proteins interact with proliferating cell nuclear antigen (PCNA) in Arabidopsis, The Plant Journal, vol.47, issue.3, pp.395-407, 2006. ,
URL : https://hal.archives-ouvertes.fr/hal-00118565
ATXR5 and ATXR6 are H3K27 monomethyltransferases required for chromatin structure and gene silencing, Nature Structural & Molecular Biology, vol.16, issue.7, pp.763-768, 2009. ,
The Histone Variant H2A.W Defines Heterochromatin and Promotes Chromatin Condensation in Arabidopsis, Cell, vol.158, issue.1, pp.98-109, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-03006158
A ?mille-feuille? of silencing: Epigenetic control of transposable elements, Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol.1809, issue.8, pp.452-458, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-01917175
Composition and formation of heterochromatin in Arabidopsis thaliana, Chromosome Research, vol.14, issue.1, pp.71-82, 2006. ,
DNA methylation controls histone H3 lysine 9 methylation and heterochromatin assembly in Arabidopsis, The EMBO Journal, vol.21, issue.23, pp.6549-6559, 2002. ,
Large-scale heterochromatin remodeling linked to overreplication-associated DNA damage, Proceedings of the National Academy of Sciences, vol.114, issue.2, pp.406-411, 2016. ,
Identification of Multiple Proteins Coupling Transcriptional Gene Silencing to Genome Stability in Arabidopsis thaliana, PLOS Genetics, vol.12, issue.6, p.e1006092, 2016. ,
DNA Methyltransferases Are Required to Induce Heterochromatic Re-Replication in Arabidopsis, PLoS Genetics, vol.8, issue.7, p.e1002808, 2012. ,
Mutations in a Conserved Replication Protein Suppress Transcriptional Gene Silencing in a DNA- Methylation-Independent Manner in Arabidopsis, Current Biology, vol.15, issue.21, pp.1912-1918, 2005. ,
Mutation in the catalytic subunit of DNA polymeraseâα influences transcriptional gene silencing and homologous recombination in Arabidopsis, The Plant Journal, vol.61, issue.1, pp.36-45, 2010. ,
Epigenetic Regulation, Somatic Homologous Recombination, and Abscisic Acid Signaling Are Influenced by DNA Polymerase ? Mutation in Arabidopsis, The Plant Cell, vol.21, issue.2, pp.386-402, 2009. ,
Requirement for flap endonuclease 1 (FEN1) to maintain genomic stability and transcriptional gene silencing in Arabidopsis, The Plant Journal, vol.87, issue.6, pp.629-640, 2016. ,
The second subunit of DNA-polymerase delta is required for genomic stability and epigenetic regulation, Plant Physiology, vol.171, issue.2, p.pp.01976.2015, 2016. ,
BRU1, a novel link between responses to DNA damage and epigenetic gene silencing in Arabidopsis, Genes & Development, vol.18, issue.7, pp.782-793, 2004. ,
Arabidopsis RPA2: A Genetic Link among Transcriptional Gene Silencing, DNA Repair, and DNA Replication, Current Biology, vol.15, issue.21, pp.1919-1925, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-02680810
DNA Replication Factor C1 Mediates Genomic Stability and Transcriptional Gene Silencing in Arabidopsis, The Plant Cell, vol.22, issue.7, pp.2336-2352, 2010. ,
MIDGET Unravels Functions of the Arabidopsis Topoisomerase VI Complex in DNA Endoreduplication, Chromatin Condensation, and Transcriptional Silencing, The Plant Cell, vol.19, issue.10, pp.3100-3110, 2007. ,
Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome, Cell, vol.161, issue.7, pp.1697-1698, 2015. ,
Comprehensive Analysis of Silencing Mutants Reveals Complex Regulation of the Arabidopsis Methylome, Cell, vol.152, issue.1-2, pp.352-364, 2013. ,
The catalytic subunit of Arabidopsis DNA polymerase ensures stable maintenance of histone modification, Development, vol.140, issue.1, pp.156-166, 2012. ,
The catalytic subunit of Arabidopsis DNA polymerase ensures stable maintenance of histone modification, Development, vol.140, issue.1, pp.156-166, 2012. ,
Arabidopsis DNA polymerase ? recruits components of Polycomb repressor complex to mediate epigenetic gene silencing, Nucleic Acids Research, vol.44, issue.12, pp.5597-5614, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-02631374
The Arabidopsis DNA Polymerase ? Has a Role in the Deposition of Transcriptionally Active Epigenetic Marks, Development and Flowering, PLOS Genetics, vol.11, issue.2, p.e1004975, 2015. ,
Integrative epigenomic mapping defines four main chromatin states in Arabidopsis, The EMBO Journal, vol.30, issue.10, pp.1928-1938, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-00999846
Dependency of Heterochromatin Domains on Replication Factors, G3: Genes|Genomes|Genetics, vol.8, issue.2, pp.477-489, 2017. ,
Establishment of expression-state boundaries by Rif1 and Taz1 in fission yeast, Proceedings of the National Academy of Sciences, vol.114, issue.5, pp.1093-1098, 2017. ,
A DNA Polymerase ? Accessory Protein, Mcl1, Is Required for Propagation of Centromere Structures in Fission Yeast, PLoS ONE, vol.3, issue.5, p.e2221, 2008. ,
Linking replication stress with heterochromatin formation, Chromosoma, vol.125, issue.3, pp.523-533, 2015. ,
R loops: new modulators of genome dynamics and function, Nature Reviews Genetics, vol.16, issue.10, pp.583-597, 2015. ,
DNA methylation and chromatin structure affect transcriptional and post-transcriptional transgene silencing in Arabidopsis, Current Biology, vol.10, issue.24, pp.1591-1594, 2000. ,
URL : https://hal.archives-ouvertes.fr/hal-02698795
Stress-Induced Activation of Heterochromatic Transcription, PLoS Genetics, vol.6, issue.10, p.e1001175, 2010. ,
URL : https://hal.archives-ouvertes.fr/hal-01917179
A role for MED14 and UVH6 in heterochromatin transcription upon destabilization of silencing, Life Science Alliance, vol.1, issue.6, p.e201800197, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-02346832
Arabidopsis proteins with a transposon-related domain act in gene silencing, Nature Communications, vol.8, issue.1, p.15122, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01917158
EARLY IN SHORT DAYS 7(ESD7) encodes the catalytic subunit of DNA polymerase epsilon and is required for flowering repression through a mechanism involving epigenetic gene silencing, The Plant Journal, vol.61, issue.4, pp.623-636, 2010. ,
Eukaryotic DNA Replication Fork, Annual Review of Biochemistry, vol.86, issue.1, pp.417-438, 2017. ,
The Cytosolic Iron-Sulfur Cluster Assembly Protein MMS19 Regulates Transcriptional Gene Silencing, DNA Repair, and Flowering Time in Arabidopsis, PLOS ONE, vol.10, issue.6, p.e0129137, 2015. ,
Correction: Arabidopsis Flower and Embryo Developmental Genes are Repressed in Seedlings by Different Combinations of Polycomb Group Proteins in Association with Distinct Sets of Cis-regulatory Elements, PLOS Genetics, vol.13, issue.1, p.e1006574, 2017. ,
Correction: Arabidopsis Flower and Embryo Developmental Genes are Repressed in Seedlings by Different Combinations of Polycomb Group Proteins in Association with Distinct Sets of Cis-regulatory Elements, PLOS Genetics, vol.13, issue.1, p.e1006574, 2017. ,
, , vol.12, p.1005771, 2016.
EBS is a bivalent histone reader that regulates floral phase transition in Arabidopsis, Nature Genetics, vol.50, issue.9, pp.1247-1253, 2018. ,
Function of the Plant DNA Polymerase Epsilon in Replicative Stress Sensing, a Genetic Analysis, Plant Physiology, vol.173, issue.3, pp.1735-1749, 2017. ,
Regulation of heterochromatic DNA replication by histone H3 lysine 27 methyltransferases, Nature, vol.466, issue.7309, pp.987-991, 2010. ,
Arabidopsis Serrate Coordinates Histone Methyltransferases ATXR5/6 and RNA Processing Factor RDR6 to Regulate Transposon Expression, Developmental Cell, vol.45, issue.6, pp.769-784.e6, 2018. ,
Histone H2A variants confer specific properties to nucleosomes and impact on chromatin accessibility, Nucleic Acids Research, vol.46, issue.15, pp.7675-7685, 2018. ,
DNA Methylation Signatures of the Plant Chromomethyltransferases, PLOS Genetics, vol.12, issue.12, p.e1006526, 2016. ,
FASCIATA Genes for Chromatin Assembly Factor-1 in Arabidopsis Maintain the Cellular Organization of Apical Meristems, Cell, vol.104, issue.1, pp.131-142, 2001. ,
Transgenerational phenotype aggravation in CAF-1 mutants reveals parent-of-origin specific epigenetic inheritance, New Phytologist, vol.220, issue.3, pp.908-921, 2018. ,
Functional Genomic Analysis of CAF-1 Mutants inArabidopsis thaliana, Journal of Biological Chemistry, vol.281, issue.14, pp.9560-9568, 2006. ,
Chromatin assembly factor CAF-1 is required for cellular differentiation during plant development, Development, vol.133, issue.21, pp.4163-4172, 2006. ,
MAIN-LIKE1 is a crucial factor for correct cell division and differentiation inArabidopsis thaliana, The Plant Journal, vol.78, issue.1, pp.107-120, 2014. ,
Identification of MAIN, a factor involved in genome stability in the meristems ofArabidopsis thaliana, The Plant Journal, vol.75, issue.3, pp.469-483, 2013. ,
The Cell Killing Mechanisms of Hydroxyurea, Genes, vol.7, issue.11, p.99, 2016. ,
, Morfill, William Richard, (17 Nov. 1834?11 Nov. 1909), Nov, vol.17, issue.11, p.99, 2007.
The impact of replication stress on replication dynamics and DNA damage in vertebrate cells, Nature Reviews Genetics, vol.18, issue.9, pp.535-550, 2017. ,
?H2AX and cancer, Nature Reviews Cancer, vol.8, issue.12, pp.957-967, 2008. ,
The Intra-S Checkpoint Responses to DNA Damage, Genes, vol.8, issue.2, p.74, 2017. ,
, Cowen, John David, (16 Nov. 1904?17 Feb. 1981), Director, Barclays Bank Ltd, 1965?74, Feb, vol.17, issue.2, p.74, 2007.
Histone variants ? ancient wrap artists of the epigenome, Nature Reviews Molecular Cell Biology, vol.11, issue.4, pp.264-275, 2010. ,
Genome-wide analysis of histone H3.1 and H3.3 variants in Arabidopsis thaliana, Proceedings of the National Academy of Sciences, vol.109, issue.14, pp.5370-5375, 2012. ,
Genome-wide analysis of histone H3.1 and H3.3 variants in Arabidopsis thaliana, Proceedings of the National Academy of Sciences, vol.109, issue.14, pp.5370-5375, 2012. ,
Dynamic Deposition of Histone Variant H3.3 Accompanies Developmental Remodeling of the Arabidopsis Transcriptome, PLoS Genetics, vol.8, issue.5, p.e1002658, 2012. ,
The histone H3 variant H3.3 regulates gene body DNA methylation in Arabidopsis thaliana, Genome Biology, vol.18, issue.1, 2017. ,
Genome Informatics 2016, Genome Biology, vol.18, issue.1, p.94, 2017. ,
Author response: DDM1 and Lsh remodelers allow methylation of DNA wrapped in nucleosomes, vol.6, 2017. ,
Histone H3 Dynamics Reveal Domains with Distinct Proliferation Potential in the Arabidopsis Root, The Plant Cell, vol.28, issue.6, pp.1361-1371, 2016. ,
Replication-coupled histone H3.1 deposition determines nucleosome composition and heterochromatin dynamics during Arabidopsis seedling development, New Phytologist, vol.221, issue.1, pp.385-398, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01919943
Dual Binding of Chromomethylase Domains to H3K9me2-Containing Nucleosomes Directs DNA Methylation in Plants, Cell, vol.151, issue.1, pp.167-180, 2012. ,
Interactions between the Cell Cycle and Embryonic Patterning in Arabidopsis Uncovered by a Mutation in DNA Polymerase ?, The Plant Cell, vol.17, issue.12, pp.3362-3377, 2005. ,
Replication Stress Interferes with Histone Recycling and Predeposition Marking of New Histones, Molecular Cell, vol.37, issue.5, pp.736-743, 2010. ,
Cross-Regulation between Transposable Elements and Host DNA Replication, Viruses, vol.9, issue.3, p.57, 2017. ,
Role of transposable elements in heterochromatin and epigenetic control, Nature, vol.430, issue.6998, pp.471-476, 2004. ,
URL : https://hal.archives-ouvertes.fr/hal-02677166
Genome-wide High-Resolution Mapping and Functional Analysis of DNA Methylation in Arabidopsis, Cell, vol.126, issue.6, pp.1189-1201, 2006. ,
DNA methylation and histone H1 cooperatively repress transposable elements and aberrant intragenic transcripts, 2019. ,
DNA Methylation and Histone H1 Jointly Repress Transposable Elements and Aberrant Intragenic Transcripts, Molecular Cell, vol.77, issue.2, pp.310-323.e7, 2020. ,
PANTHER version 14: more genomes, a new PANTHER GO-slim and improvements in enrichment analysis tools, Nucleic Acids Research, vol.47, issue.D1, pp.D419-D426, 2018. ,
STAR: ultrafast universal RNA-seq aligner, Bioinformatics, vol.29, issue.1, pp.15-21, 2012. ,
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features, Bioinformatics, vol.30, issue.7, pp.923-930, 2013. ,
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2, Genome Biology, vol.15, issue.12, p.550, 2014. ,
Genome-Wide Association of Histone H3 Lysine Nine Methylation with CHG DNA Methylation in Arabidopsis thaliana, PLoS ONE, vol.3, issue.9, p.e3156, 2008. ,
Profiling histone modification patterns in plants using genomic tiling microarrays, Nature Methods, vol.2, issue.3, pp.213-218, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-02673024
The Arabidopsis SWI/SNF protein BAF60 mediates seedling growth control by modulating DNA accessibility, Genome Biology, vol.18, issue.1, 2017. ,
The Arabidopsis SWI/SNF protein BAF60 mediates seedling growth control by modulating DNA accessibility, Genome Biology, vol.18, issue.1, p.114, 2017. ,
Identifying ChIP-seq enrichment using MACS, Nature Protocols, vol.7, issue.9, pp.1728-1740, 2012. ,
deepTools: a flexible platform for exploring deep-sequencing data, Nucleic Acids Research, vol.42, issue.W1, pp.W187-W191, 2014. ,
BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol.26, issue.6, pp.841-842, 2010. ,
Xrcc1-dependent and Ku-dependent DNA double-strand break repair kinetics in Arabidopsis plants, The Plant Journal, vol.64, issue.2, pp.280-290, 2010. ,
URL : https://hal.archives-ouvertes.fr/inserm-00595784
DNA DAMAGE BINDING PROTEIN2 Shapes the DNA Methylation Landscape, The Plant Cell, vol.28, issue.9, pp.2043-2059, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01601904
R: A language and environment for statistical computing, R Found Stat Comput, 2019. ,
NSM3: Functions and Datasets to Accompany Hollander, Wolfe, and Chicken -Nonparametric Statistical Methods, 2018. ,
Table S1: Clinical characteristics of patients with peritoneal endometriosis (PE) in E-MTAB-694 ,
, Work in the Jacobsen lab was supported by NIH grant R35 GM130272. S.E.J. is an investigator of the Howard Hughes Medical Institute. The funders had no role in study design, data collection and analysis
, Om udfærdigelse af en lov om skovvæsenet., Authors' contributions Conceptualization: PB TP OM. Data curation: PB TP MEP OM. Formal analysis: PB TP MEP ODI OM. Funding acquisition: CW SEJ MB OM. Investigation: PB TP MNPP AH AGZ LLG MEP MP DL ODI OM. Methodology: PB TP MNPP OM. Project administration: PB OM. Resources: PB TP SEJ MB CW OM. Supervision: PB OM. Validation: PB TP MNPP MEP OM. Visualization: PB OM, 1863.
Jane Austen?s women: an introduction, Women's Writing, pp.1-3, 2020. ,