JMJ14 is an H3K4 demethylase regulating flowering time in Arabidopsis

Lu, Falong; Cui, Xia; Zhang, Shuaibin; Liu, Chunyan; Cao, Xiaofeng

doi:10.1038/cr.2010.27

Cited by 163 publications

(151 citation statements)

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“…Nuclear isolation and immunostaining were performed as described (22). Detailed information is available in SI Materials and Methods.…”

Section: Methodsmentioning

confidence: 99%

“…Mutation of IBM1 results in increased levels of H3K9me2 and DNA methylation in genes but not in transposons, indicating that IBM1 distinguishes genes from transposons to protect the active transcribed genes (19,20). Moreover, mutations of JMJ14, which encodes an H3K4me3/2/1 demethylase, lead to decreased non-CG DNA methylation, compromising the maintenance of methylation but not de novo methylation activity (21)(22)(23). JMJ14 is also implicated in RNA-directed DNA methylation and the transcriptional silencing of endogenous TEs, although it is not fully clear whether such an activity directly limits transposition itself (24).…”

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confidence: 99%

“…We previously identified 20 JmjC domain containing proteins in the rice genome and predicted JMJ703 as one of 13 potentially active histone demethylases (35). JMJ703 is the homolog of the Arabidopsis H3K4 demethylase JMJ14, which is involved in flowering time regulation and gene silencing (21)(22)(23)(24). To determine whether JMJ703 is an active demethylase, we performed enzymatic activity assays in vivo and in vitro as described (22) (Fig.…”

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Control of transposon activity by a histone H3K4 demethylase in rice

Cui

Jin

Cui

et al. 2013

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

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107

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Transposable elements (TEs) are ubiquitously present in plant genomes and often account for significant fractions of the nuclear DNA. For example, roughly 40% of the rice genome consists of TEs, many of which are retrotransposons, including 14% LTR-and ∼1% non-LTR retrotransposons. Despite their wide distribution and abundance, very few TEs have been found to be transpositional, indicating that TE activities may be tightly controlled by the host genome to minimize the potentially mutagenic effects associated with active transposition. Consistent with this notion, a growing body of evidence suggests that epigenetic silencing pathways such as DNA methylation, RNA interference, and H3K9me2 function collectively to repress TE activity at the transcriptional and posttranscriptional levels. It is not yet clear, however, whether the removal of histone modifications associated with active transcription is also involved in TE silencing. Here, we show that the rice protein JMJ703 is an active H3K4-specific demethylase required for TEs silencing. Impaired JMJ703 activity led to elevated levels of H3K4me3, the misregulation of numerous endogenous genes, and the transpositional reactivation of two families of non-LTR retrotransposons. Interestingly, loss of JMJ703 did not affect TEs (such as Tos17) previously found to be silenced by other epigenetic pathways. These results indicate that the removal of active histone modifications is involved in TE silencing and that different subsets of TEs may be regulated by distinct epigenetic pathways. R etrotransposons are RNA-mediated transposable elements (TEs), which are abundant in the genomes of both plants and animals (1, 2). Retrotransposons are classified into long terminal repeat (LTR) or non-LTR types, and they are mobilized in a "copy and paste" manner (3-5). The integration of a newly transposed copy might disrupt local gene structure and affect the expression of nearby genes. In humans, misregulation of retrotransposons causes numerous diseases (3, 6, 7).Although transposition of TEs is a major driving force for genome evolution, host genomes have evolved diverse mechanisms to limit harmful mobilization (1, 7). DNA methylation and histone methylation are two reversible epigenetic modifications that control transposon activity (8-13). In plants, histone H3 that is dimethylated at residue K9 (H3K9me2) associates with methylated DNA sequences such as CpG, CHG, and CHH (where H = A, T, or C) and correlates with gene silencing, whereas H3 trimethylated at K4 (H3K4me3) is linked to active transcription (14-16). Histone methylation is highly dynamic. Lysine methylation is catalyzed by SET domain group (SDG) proteins and reversed by a family of Jumonji C (JmjC) domain-containing proteins, which use Fe (II) and α-ketoglutarate (αKG) as cofactors (17,18). In Arabidopsis, JMJ25/IBM1 (increase in BONSAI methylation) encodes an H3K9 demethylase (19,20). Mutation of IBM1 results in increased levels of H3K9me2 and DNA methylation in genes but not in transposons, indicating that IBM1 disti...

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“…Nuclear isolation and immunostaining were performed as described (22). Detailed information is available in SI Materials and Methods.…”

Section: Methodsmentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

See 1 more Smart Citation

Control of transposon activity by a histone H3K4 demethylase in rice

Cui

Jin

Cui

et al. 2013

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

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107

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“…Plant jmjC proteins are generally conserved with yeast and animal homologs, while there exist a subgroup of more divergent jmjC proteins (Sun and Zhou, 2008). Members of this subgroup (i.e., Arabidopsis JMJ14, JMJ15, and JMJ18 and rice JMJ703) have been reported to be H3K4 demethylases and to regulate diverse aspects of chromatin function and plant development (Deleris et al, 2010;Lu et al, 2010;Searle et al, 2010;Yang et al, 2012aYang et al, , 2012bChen et al, 2013;Cui et al, 2013). Conversely, the JMJD3/UTX (ubiquitously transcribed tetratricopeptide repeat, X chromosome) subgroup proteins, which exhibit H3K27 demethylase activities in mammalian cells, are not found in plants.…”

Section: Introductionmentioning

confidence: 99%

Jumonji C Domain Protein JMJ705-Mediated Removal of Histone H3 Lysine 27 Trimethylation Is Involved in Defense-Related Gene Activation in Rice

et al. 2013

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“…and they have been shown to be involved in gametophyte development, 53 cytosine methylation, 54 brassinosteroid responses, 55 RNA silencing 56,57 and flowering time. [58][59][60] Recent studies showed that the JmjC domain protein At JMJ30 (also known as JMJD5) regulates the pace of the circadian clock in both the Arabidopsis and the human circadian system. 40,41 JMJ30 is the only gene of the 21 members that shows a robust circadian rhythm at the level of transcription.…”

Section: Acknowledgementsmentioning

confidence: 99%

Chromatin remodeling and the circadian clock

Tobin

2011

Plant Signaling & Behavior

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JMJ14 is an H3K4 demethylase regulating flowering time in Arabidopsis

Cited by 163 publications

References 10 publications

Control of transposon activity by a histone H3K4 demethylase in rice

Control of transposon activity by a histone H3K4 demethylase in rice

Jumonji C Domain Protein JMJ705-Mediated Removal of Histone H3 Lysine 27 Trimethylation Is Involved in Defense-Related Gene Activation in Rice

Chromatin remodeling and the circadian clock

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