A role for histone acetylation in regulating transcription elongation

Church, Michael; Fleming, Alastair B.

doi:10.1080/21541264.2017.1394423

Cited by 11 publications

(7 citation statements)

References 39 publications

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“…For Sample size is indicated in cases where it is less than 1000. (Nagai et al, 2017;Church and Fleming, 2018), which could in turn reduce the time Pol II spends on the chromatin, therefore reducing the efficiency of CTS.…”

Section: Molecular Plantmentioning

confidence: 99%

The Features and Regulation of Co-transcriptional Splicing in Arabidopsis

et al. 2020

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Precursor mRNA (pre-mRNA) splicing is essential for gene expression in most eukaryotic organisms. Previous studies from mammals, Drosophila, and yeast show that the majority of splicing events occurs co-transcriptionally. In plants, however, the features of co-transcriptional splicing (CTS) and its regulation still remain largely unknown. Here, we used chromatin-bound RNA sequencing to study CTS in Arabidopsis thaliana. We found that CTS is widespread in Arabidopsis seedlings, with a large proportion of alternative splicing events determined co-transcriptionally. CTS efficiency correlated with gene expression level, the chromatin landscape and, most surprisingly, the number of introns and exons of individual genes, but is independent of gene length. In combination with enhanced crosslinking and immunoprecipitation sequencing analysis, we further showed that the hnRNP-like proteins RZ-1B and RZ-1C promote efficient CTS globally through direct binding, frequently to exonic sequences. Notably, this general effect of RZ-1B/1C on splicing promotion is mainly observed at the chromatin level, not at the mRNA level. RZ-1C promotes CTS of multiple-exon genes in association with its binding to regions both proximal and distal to the regulated introns. We propose that RZ-1C promotes efficient CTS of genes with multiple exons through cooperative interactions with many exons, introns, and splicing factors. Our work thus reveals important features of CTS in plants and provides methodologies for the investigation of CTS and RNA-binding proteins in plants.

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Section: Molecular Plantmentioning

confidence: 99%

The Features and Regulation of Co-transcriptional Splicing in Arabidopsis

et al. 2020

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“…Besides that, other significant processes that are regulated by histone acetylation or deacetylation include transcriptional elongation and DNA repair. [46][47][48][49]…”

Section: Acetylation Of Histonesmentioning

confidence: 99%

Epigenetic regulation of inflammation in stroke

Lim

Sobey

et al. 2018

Ther Adv Neurol Disord

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Despite extensive research, treatments for clinical stroke are still limited only to the administration of tissue plasminogen activator and the recent introduction of mechanical thrombectomy, which can be used in only a limited proportion of patients due to time constraints. A plethora of inflammatory events occur during stroke, arising in part due to the body’s immune response to brain injury. Neuroinflammation contributes significantly to neuronal cell death and the development of functional impairment and death in stroke patients. Therefore, elucidating the molecular and cellular mechanisms underlying inflammatory damage following stroke injury will be essential for the development of useful therapies. Research findings increasingly point to the likelihood that epigenetic mechanisms play a role in the pathophysiology of stroke. Epigenetics involves the differential regulation of gene expression, including those involved in brain inflammation and remodelling after stroke. Hence, it is conceivable that epigenetic mechanisms may contribute to differential interindividual vulnerability and injury responses to cerebral ischaemia. In this review, we summarize recent findings on the emerging role of epigenetics in the regulation of neuroinflammation in stroke. We also discuss potential epigenetic targets that may be assessed for the development of stroke therapies.

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“…Eukaryotic DNA is wrapped in proteins called histones to form nucleosomes. Recruitment of nucleosome modifiers such as histone acetyltransferases to specific promoter regions facilitates the activation of a gene packaged within chromatin, by loosening the chromatin structure to uncover binding sites for regulators and for the transcriptional machinery (Mizzen and Allis, 1998; Church and Fleming, 2018). Proteins containing plant homeo domain (PHD) typified with a well-conserved Zn finger motif of the (Cys4)-His-(Cys3) type have been reported to be involved in chromatin-mediated transcription regulation (Aasland et al, 1995; Sanchez and Zhou, 2011; Bhushan et al, 2018).…”

Section: Introductionmentioning

confidence: 99%

CLP1, a Novel Plant Homeo Domain Protein, Participates in Regulating Cellulase Gene Expression in the Filamentous Fungus Trichoderma reesei

et al. 2019

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The stringent regulatory network of cellulase gene expression in the filamentous fungus Trichoderma reesei involves multiple transcriptional regulators. However, identification and mechanistic investigation of these regulators are still insufficient. Here, we identified a novel transcriptional regulator, CLP1, a plant homeo domain (PHD) Protein that participates in regulating T. reesei cellulase gene expression. Phylogenetic analyses demonstrated that CLP1 homologs are widely distributed in filamentous fungi including Trichoderma , Penicillium , Fusarium , Neurospora , and Aspergillus species. We demonstrated that CLP1 is a nuclear protein and lack of CLP1 significantly impaired the induced expression of cellulase genes. ChIP experiments showed CLP1 binding to the cellulase gene promoters specifically under cellulose conditions and compromised XYR1 occupancy on the same promoters in the absence of CLP1 at the early induction stage. XYR1 overexpression fully rescued the defect in cellulase production but not the defect in conidia formation in the clp1 null mutant. Further analysis showed that the PHD is required for the CLP1 appropriate subcellular localization as well as the induced cellulase gene expression and conidiation. Taken together, these data demonstrated an important role of CLP1 in the regulation of cellulase and xylanase gene expression in T. reesei .

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A role for histone acetylation in regulating transcription elongation

Cited by 11 publications

References 39 publications

The Features and Regulation of Co-transcriptional Splicing in Arabidopsis

The Features and Regulation of Co-transcriptional Splicing in Arabidopsis

Epigenetic regulation of inflammation in stroke

CLP1, a Novel Plant Homeo Domain Protein, Participates in Regulating Cellulase Gene Expression in the Filamentous Fungus Trichoderma reesei

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