Roles of H3K36-specific histone methyltransferases in transcription: antagonizing silencing and safeguarding transcription fidelity

Chang, H. W.; Zhu, Bing

doi:10.1007/s41048-018-0063-1

Cited by 93 publications

(85 citation statements)

References 67 publications

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“…K36me2 is imposed by NSD1-3 and ASH1/1L and broadly distributed across the genome, including genic and intergenic regions. K36me3 is imposed by a single enzyme, SETD2, over gene bodies and promotes transcription fidelity by restoring a non-permissive chromatin state following RNA Pol II passage (Huang and Zhu, 2018). Consistent with their opposite roles in transcription, K36me3 and K27me3 are mutually exclusively distributed along chromosomes (Ernst and Kellis, 2010;Streubel et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Domain Model Explains Propagation Dynamics and Stability of Histone H3K27 and H3K36 Methylation Landscapes

et al. 2020

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Section: Introductionmentioning

confidence: 99%

Domain Model Explains Propagation Dynamics and Stability of Histone H3K27 and H3K36 Methylation Landscapes

et al. 2020

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“…K36me2 is imposed by NSD1-3 and ASH1/1L and broadly distributed across the genome including genic and intergenic regions. K36me3 is imposed by a single enzyme, SETD2, over gene bodies and promotes transcription fidelity by restoring non-permissive chromatin state following RNA Pol II passage (Huang and Zhu, 2018). Consistent with their opposite roles in transcription, K36me3 and K27me3 are mutually exclusively distributed along chromosomes (Ernst and Kellis, 2010;Streubel et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

Domain model explains propagation dynamics and stability of K27 and K36 methylation landscapes

Alabert

Loos

Völker-Albert

et al. 2019

Preprint

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Chromatin states must be maintained during cell proliferation to uphold cellular identity and genome integrity. Inheritance of histone modifications is central in this process. However, the histone modification landscape is challenged by incorporation of new unmodified histones during each cell cycle and the principles governing heritability remain unclear. Here, we take a quantitative computational modeling approach to describes propagation of K27 and K36 methylation states. We measure combinatorial K27 and K36 methylation patterns by quantitative mass spectrometry on subsequent generations of histones. Using model comparison, we reject active global demethylation and invoke the existence of domains defined by distinct methylation endpoints. We find that K27me3 on pre-existing histones stimulates the rate of de novo K27me3 establishment, supporting a read-write mechanism in timely chromatin restoration. Finally, we provide a detailed, quantitative picture of the mutual antagonism between K27 and K37 methylation, and propose that it stabilizes epigenetic states across cell division.

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“…There was no significant correlation between levels of expression of either male or female SDR genes and the presence of particular chromatin marks (likelihood ratio tests, p-value = 0.460 and p-value = 0.304 for female and male SDR, respectively; Figure 4F), but the small sample size of SDR genes decreases the power of the statistical test. Note however that H3K36me3, a mark associated with transcript elongation (Huang and Zhu, 2018), was more often present at male SDR genes (in 18/23 genes) than at female SDR genes (1/22 genes)(Figure 4, Figure S4, Table S5) and we also noticed that abundances of transcripts for male SDR genes were significantly higher than for female SDR genes (Figure 4G; pairwise Wilcoxon test with Holm correction, p-value=0.0098).…”

Section: Resultsmentioning

confidence: 76%

Chromatin dynamics associated with sexual differentiation in a UV sex determination system

Gueno

Bourdereau

Cossard

et al. 2020

Preprint

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In many eukaryotes, such as dioicous mosses and many algae, sex is determined by UV sex chromosomes and is expressed during the haploid phase of the life cycle. In these species, the male and female developmental programs are initiated by the presence of the U- or V-specific regions of the sex chromosomes but, as in XY and ZW systems, phenotypic differentiation is largely driven by autosomal sex-biased gene expression. The mechanisms underlying sex-biased transcription in XY, ZW or UV sexual systems currently remain elusive. Here, we set out to understand the extent and nature of epigenomic changes associated with sexual differentiation in the brown alga Ectocarpus, which has a well described UV system. Five histone modifications, H3K4me3, H3K27Ac, H3K9Ac, H3K36me3, H4K20me3, were quantified in near-isogenic male and female lines, leading to the identification of 13 different chromatin states across the Ectocarpus genome that showed different patterns of enrichment at transcribed, silent, housekeeping or narrowly-expressed genes. Chromatin states were strongly correlated with levels of gene expression indicating a relationship between the assayed marks and gene transcription. The relative proportion of each chromatin state across the genome remained stable in males and females, but a subset of genes exhibited different chromatin states in the two sexes. In particular, males and females displayed distinct patterns of histone modifications at sex-biased genes, indicating that chromatin state transitions occur preferentially at genes involved in sex-specific pathways. Finally, our results reveal a unique chromatin landscape of the U and V sex chromosomes compared to autosomes. Taken together, our observations reveal a role for histone modifications in sex determination and sexual differentiation in a UV sexual system, and suggest that the mechanisms of epigenetic regulation of genes on the UV sex chromosomes may differ from those operating on autosomal genes.

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Roles of H3K36-specific histone methyltransferases in transcription: antagonizing silencing and safeguarding transcription fidelity

Cited by 93 publications

References 67 publications

Domain Model Explains Propagation Dynamics and Stability of Histone H3K27 and H3K36 Methylation Landscapes

Domain Model Explains Propagation Dynamics and Stability of Histone H3K27 and H3K36 Methylation Landscapes

Domain model explains propagation dynamics and stability of K27 and K36 methylation landscapes

Chromatin dynamics associated with sexual differentiation in a UV sex determination system

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