MOM1 and Pol-IV/V interactions regulate the intensity and specificity of transcriptional gene silencing

Yokthongwattana, Chotika; Bucher, Etienne; Caikovski, Marian; Vaillant, Isabelle; Nicolet, Joël; Scheid, Ortrun Mittelsten; Paszkowski, Jerzy

doi:10.1038/emboj.2009.328

Cited by 66 publications

(119 citation statements)

References 61 publications

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“…S4A). Overexpressed TEs in all three genotypes profiled by RNA-seq are predominantly located in the pericentromeric heterochromatin and belong to diverse families, consistent with previous reports (18,26) (Fig. S4 B and C).…”

Section: Atmorc6 and Mom1 Act Synergistically To Silence A Common Set Ofsupporting

confidence: 77%

“…Previous studies showed that DNA methylation in mom1 mutants was similar to the wild-type level (17)(18)(19)21). This observation was recently confirmed by genome-wide bisulfite-sequencing (BS-seq) analyses (43).…”

Section: Atmorc6 and Mom1 Act Synergistically To Silence A Common Set Ofsupporting

confidence: 58%

“…The mom1 mutant shows a loss of transcriptional gene silencing at loci located predominantly in the pericentromeric regions of the chromosomes (18). Interestingly, these transcriptional gene-silencing defects occur without major changes in DNA methylation or histone marks (17)(18)(19)(20)(21). RNA Polymerase IV and V (PolIV and PolV), which are key components of the RdDM pathway, were identified as enhancers of the mom1 phenotype (18).…”

mentioning

confidence: 99%

“…Interestingly, these transcriptional gene-silencing defects occur without major changes in DNA methylation or histone marks (17)(18)(19)(20)(21). RNA Polymerase IV and V (PolIV and PolV), which are key components of the RdDM pathway, were identified as enhancers of the mom1 phenotype (18). To date, the extent to which MOM1 is implicated in RdDM as well as its molecular mechanism of action remain poorly understood.…”

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confidence: 99%

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Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers

Moissiard¹,

Bischof²,

Husmann³

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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Epigenetic gene silencing is of central importance to maintain genome integrity and is mediated by an elaborate interplay between DNA methylation, histone posttranslational modifications, and chromatin remodeling complexes. DNA methylation and repressive histone marks usually correlate with transcriptionally silent heterochromatin, however there are exceptions to this relationship. In Arabidopsis, mutation of Morpheus Molecule 1 (MOM1) causes transcriptional derepression of heterochromatin independently of changes in DNA methylation. More recently, two Arabidopsis homologues of mouse microrchidia (MORC) genes have also been implicated in gene silencing and heterochromatin condensation without altering genome-wide DNA methylation patterns. In this study, we show that Arabidopsis microrchidia (AtMORC6) physically interacts with AtMORC1 and with its close homologue, AtMORC2, in two mutually exclusive protein complexes. RNA-sequencing analyses of high-order mutants indicate that AtMORC1 and AtMORC2 act redundantly to repress a common set of loci. We also examined genetic interactions between AtMORC6 and MOM1 pathways. Although AtMORC6 and MOM1 control the silencing of a very similar set of genomic loci, we observed synergistic transcriptional regulation in the mom1/atmorc6 double mutant, suggesting that these epigenetic regulators act mainly by different silencing mechanisms.epigenetics | plant biology

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Section: Atmorc6 and Mom1 Act Synergistically To Silence A Common Set Ofsupporting

confidence: 77%

Section: Atmorc6 and Mom1 Act Synergistically To Silence A Common Set Ofsupporting

confidence: 58%

mentioning

confidence: 99%

mentioning

confidence: 99%

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Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers

Moissiard¹,

Bischof²,

Husmann³

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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“…Tiling array hybridization data were processed with the R statistical software (www.r-project.org) and BioConductor (www.bioconductor.org) applying the chip definition file (CDF), kindly provided by Naouar et al (2009), as previously described (Yokthongwattana et al, 2010).…”

Section: Analysis Of Gene Expressionmentioning

confidence: 99%

DNA sequence properties that predict susceptibility to epiallelic switching

Catoni

Griffiths

Becker

et al. 2016

Preprint

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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) transposonderived, 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.

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Non Coding RNAs in Plants

et al. 2011

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PrefaceNon coding endogenous RNAs were first discovered in the last decade of the previous century. These new discoveries changed our views of the transcriptome landscape of plant genomes and paradigms of the regulation of gene expression. With the beginning of this century, we have witnessed an explosion of studies on small regulatory RNAs that has yielded a basic understanding of the many types of small RNAs in diverse eukaryotic species and how they are functioning as RNA-protein complexes along the RNA silencing pathways.While reading this book, the reader will realize that much more remains to be learned about the non coding RNAs and their complex regulatory mechanisms, and we are sure that many more discoveries in this field will be made concerning, so far not even imagined, most interesting and complex regulation principles, based on the structure and function of ncRNAs. Non coding RNAs might introduce another level of mate selection through the epigenetic regulation of genes mediating self-incompatibility. They mediate regulation of dominant-recessive patterns of Mendelian inheritance. ncRNAs act in trans in heterozygous genomes to regulate transcriptional gene silencing through DNA methylation and provide new insights into monoallelic transcriptional control.Ever since the discoveries by Andrew Z. Fire and Craig C. Mello of the RNA interference mechanisms in 1998, the field of gene regulation by RNA interference has been developing with unforeseen speed. RNA silencing is a widespread mechanism of gene regulation in all eukaryotes. At the core of all RNA silencing pathways lie small RNAs (20-30 nt in length) associated with the Argonaute family of proteins. Non coding RNAs provide the specificity of regulation by base-pairing to the target nucleic acids, while the Argonaute proteins execute the silencing effects.In the most recent years, each of the RNA silencing pathways of plants has appeared to generate ncRNAs with dedicated functions, specialized biological activities, and specific functional scopes.RNA silencing plays a crucial role in coordinating the expression, stability, protection, and inheritance of eukaryotic genomes. It comprises several mechanisms that invariably depend on core small non coding RNAs and that achieve dedicated sequence-specific functions. RNA silencing has been recognized to carry out critical developmental, stress response and bodyguard functions, thus coordinating the expression, protection, stability, and inheritance of virtually all vi Preface eukaryotic genomes. Thus, the ncRNAs encompass a wide set of mechanisms that achieve specialized functions. It still seems very surprising that all of these regulatory functions are carried out by double-stranded RNA molecules, which are only 20-30 nucleotides in length.As we know that not even 30% of the plant genome is coding for the 40,000 different plant proteins, we have begun to realize how diversified and complex the regulatory mechanisms of the non coding RNAs must be, if they are primarily encoded in the remaining 70% of t...

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MOM1 and Pol-IV/V interactions regulate the intensity and specificity of transcriptional gene silencing

Cited by 66 publications

References 61 publications

Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers

Transcriptional gene silencing by Arabidopsis microrchidia homologues involves the formation of heteromers

DNA sequence properties that predict susceptibility to epiallelic switching

Non Coding RNAs in Plants

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