DNA sequence properties that predict susceptibility to epiallelic switching

The EMBO Journal
Marco CatoniJerzy Paszkowski


Transgenerationally heritable epialleles are defined by the stable propagation of alternative transcriptional states through mitotic and meiotic cell cycles. Given that the propagation of DNA methylation at CpG sites, mediated in Arabidopsis by MET1, plays a central role in epigenetic inheritance, we examined genomewide DNA methylation in partial and complete loss-of-function met1 mutants. We interpreted the data in relation to transgenerational epiallelic stability, which allowed us to classify chromosomal targets of epigenetic regulation into (i) single copy and methylated exclusively at CpGs, readily forming epialleles, and (ii) transposon-derived, methylated at all cytosines, which may or may not form epialleles. We provide evidence that DNA sequence features such as density of CpGs and genomic repetitiveness of the loci predispose their susceptibility to epiallelic switching. The importance and predictive power of these genetic features were confirmed by analyses of common epialleles in natural Arabidopsis accessions, epigenetic recombinant inbred lines (epiRILs) and also verified in rice.


Jul 4, 2017·Nature Reviews. Genetics·Nathan M Springer, Robert J Schmitz
Dec 20, 2017·Nature Genetics·James WalkerXiaoqi Feng
Sep 15, 2018·The New Phytologist·Frank Johannes, Robert J Schmitz
Nov 27, 2018·Nucleic Acids Research·Marco CatoniJerzy Paszkowski
Oct 29, 2017·Physiologia Plantarum·Maria Luz AnnacondiaGerman Martinez
Feb 14, 2020·Genome Génome / Conseil National De Recherches Canada·Mark A A Minow, Joseph Colasanti
Sep 17, 2019·PLoS Genetics·Matthias BenoitJerzy Paszkowski
Mar 24, 2018·Plant Biotechnology Journal·Sunil K Kenchanmane RajuSally Mackenzie
Jun 28, 2019·Plant Direct·Sunil Kumar Kenchanmane RajuSally Mackenzie
May 23, 2018·Nature Reviews. Molecular Cell Biology·Huiming ZhangJian-Kang Zhu
Dec 2, 2020·Nature Plants·Taiko Kim ToTetsuji Kakutani


Jan 31, 2009·Science·Felipe Karam TeixeiraVincent Colot
Nov 17, 2009·The EMBO Journal·Chotika YokthongwattanaJerzy Paszkowski
Feb 10, 2010·Nature Reviews. Genetics·Julie A Law, Steven E Jacobsen
Sep 28, 2010·Current Opinion in Plant Biology·Hidetoshi Saze, Tetsuji Kakutani
Jan 12, 2011·Nature Biotechnology·James T RobinsonJill P Mesirov
Apr 16, 2011·Bioinformatics·Felix Krueger, Simon R Andrews
Nov 8, 2011·Nature·Claude BeckerDetlef Weigel
Jan 26, 2012·PloS One·Thomas DerrienPaolo Ribeca
Feb 15, 2012·Proceedings of the National Academy of Sciences of the United States of America·Ian K GreavesElizabeth S Dennis
Oct 5, 2012·Genome Biology·Kasper D HansenRafael A Irizarry
Jan 16, 2013·Proceedings of the National Academy of Sciences of the United States of America·Shohei Takuno, Brandon S Gaut
Mar 8, 2013·Nature·Robert J SchmitzJoseph R Ecker
Apr 25, 2013·Proceedings of the National Academy of Sciences of the United States of America·Jessica A RodriguesDaniel Zilberman
Jul 6, 2013·Science·Ryan ListerJoseph R Ecker
Jul 16, 2013·Nature Genetics·Arturo Marí-OrdóñezOlivier Voinnet
Mar 25, 2014·Molecular Cell·Todd BlevinsCraig S Pikaard
Apr 4, 2014·Bioinformatics·Anthony M BolgerBjoern Usadel
Jul 9, 2014·Proceedings of the National Academy of Sciences of the United States of America·Lanjuan HuBao Liu
Jan 7, 2015·Proceedings of the National Academy of Sciences of the United States of America·Donna M Bond, David C Baulcombe
Jan 17, 2015·Nature·Dirk Schübeler
Mar 24, 2016·Proceedings of the National Academy of Sciences of the United States of America·Mélanie RigalOlivier Mathieu

Related Concepts

Meiotic Cell Cycle
DNA Methylation [PE]
Rice (Dietary)
Transcription, Genetic
Inbred Strain
Genomic Stability

Trending Feeds


Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Sexual Dimorphism in Neurodegeneration

There exist sex differences in neurodevelopmental and neurodegenerative disorders. For instance, multiple sclerosis is more common in women, whereas Parkinson’s disease is more common in men. Here is the latest research on sexual dimorphism in neurodegeneration

HLA Genetic Variation

HLA genetic variation has been found to confer risk for a wide variety of diseases. Identifying these associations and understanding their molecular mechanisms is ongoing and holds promise for the development of therapeutics. Find the latest research on HLA genetic variation here.

Super-resolution Microscopy

Super-resolution microscopy is the term commonly given to fluorescence microscopy techniques with resolutions that are not limited by the diffraction of light. Here are the latest discoveries pertaining to super-resolution microscopy.

Genetic Screens in iPSC-derived Brain Cells

Genetic screening is a critical tool that can be employed to define and understand gene function and interaction. This feed focuses on genetic screens conducted using induced pluripotent stem cell (iPSC)-derived brain cells.

Brain Lower Grade Glioma

Low grade gliomas in the brain form from oligodendrocytes and astrocytes and are the slowest-growing glioma in adults. Discover the latest research on these brain tumors here.

CD4/CD8 Signaling

Cluster of differentiation 4 and 8 (CD8 and CD8) are glycoproteins founds on the surface of immune cells. Here is the latest research on their role in cell signaling pathways.

Alignment-free Sequence Analysis Tools

Alignment-free sequence analyses have been applied to problems ranging from whole-genome phylogeny to the classification of protein families, identification of horizontally transferred genes, and detection of recombined sequences. Here is the latest research.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.