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PMID:26119694

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Citation

Deng, S, Xu, J, Liu, J, Kim, SH, Shi, S and Chua, NH (2015) JMJ24 binds to RDR2 and is required for the basal level transcription of silenced loci in Arabidopsis. Plant J. 83:770-82

Abstract

Transposable elements (TEs) and repetitive sequences are ubiquitously present in eukaryotic genomes which are in general epigenetically silenced by DNA methylation and/or histone 3 lysine 9 methylation (H3K9me). RNA-directed DNA methylation (RdDM) is the major pathway that initiates de novo DNA methylation in Arabidopsis and sets up a self-reinforcing silencing loop between DNA methylation and H3K9me. However, a key issue is the requirement of a basal level transcript from the target loci to initiate the RNA-based silencing. How the heterochromatic silenced loci are transcribed remains largely unknown. Here, we show that JMJ24, a JmjC domain-containing protein counteracts H3K9me to promote basal level transcription of endogenous silenced loci in Arabidopsis. JMJ24 functionally resembles the fission yeast JmjC protein Epe1. The transcript promoted by JMJ24 is, at least in part, processed to small RNA to initiate the RdDM. Genome-wide transcriptome profiling indicates that transcript levels of TEs are more likely regulated by JMJ24, compared with protein-coding genes. Our data suggest that JMJ24 plays a conserved role in promoting basal level transcription of endogenous silenced loci to reinforce the silencing. We also provide evidence of a physical association between JMJ24 and RNA-dependent RNA polymerase 2 (RDR2), which represents an evolved property of the RNA silencing pathway.

Links

PubMed Online version:10.1111/tpj.12924

Keywords

Arabidopsis/genetics; Arabidopsis/metabolism; Arabidopsis Proteins/genetics; Arabidopsis Proteins/metabolism; DNA Methylation; Gene Expression Regulation, Plant; Gene Silencing; Jumonji Domain-Containing Histone Demethylases/genetics; Jumonji Domain-Containing Histone Demethylases/metabolism; Lysine/metabolism; Methylation; Mutation; Nuclear Proteins/chemistry; Nuclear Proteins/metabolism; Phylogeny; Plants, Genetically Modified; RNA Replicase/genetics; RNA Replicase/metabolism; Schizosaccharomyces pombe Proteins/chemistry; Schizosaccharomyces pombe Proteins/metabolism; Terminal Repeat Sequences; Transcription, Genetic

Significance

Annotations

Gene product Qualifier GO Term Evidence Code with/from Aspect Extension Notes Status

ARATH:F4HZD1

enables

GO:0005515: protein binding

ECO:0000353: physical interaction evidence used in manual assertion

AGI_LocusCode:AT4G11130

F

Seeded From UniProt

complete

ARATH:F4HZD1

located_in

GO:0005634: nucleus

ECO:0000314: direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

ARATH:F4HZD1

acts_upstream_of_or_within

GO:0010628: positive regulation of gene expression

ECO:0000315: mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

ARATH:F4HZD1

enables

GO:0000976: transcription cis-regulatory region binding

ECO:0000314: direct assay evidence used in manual assertion

F

Seeded From UniProt

complete

ARATH:F4HZD1

acts_upstream_of_or_within

GO:2000616: negative regulation of histone H3-K9 acetylation

ECO:0000315: mutant phenotype evidence used in manual assertion

P

Seeded From UniProt

complete

ARATH:RDR2

enables

GO:0005515: protein binding

ECO:0000353: physical interaction evidence used in manual assertion

AGI_LocusCode:AT1G09060

F

Seeded From UniProt

complete

ARATH:RDR2

located_in

GO:0005634: nucleus

ECO:0000314: direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

ARATH:RDR2

part_of

GO:0005634: nucleus

ECO:0000314: direct assay evidence used in manual assertion

C

Seeded From UniProt

complete

Notes

See also

References

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