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Disrupting the adult-globin promoter alleviates promoter competition and reactivates foetal-globin gene expression

ABSTRACT: Disrupting the adult-globin promoter alleviates promoter competition and reactivates foetal-globin gene expression

PROVIDER: PRJNA798972 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17679178_1.fastq.gz	Fastqsanger.gz
	SRR17679178_2.fastq.gz	Fastqsanger.gz
	SRR17679179_1.fastq.gz	Fastqsanger.gz
	SRR17679179_2.fastq.gz	Fastqsanger.gz
	SRR17679180_1.fastq.gz	Fastqsanger.gz

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Disrupting the adult-globin promoter alleviates promoter competition and reactivates foetal-globin gene expression

Project description:The benign condition Hereditary Persistence of Foetal Haemoglobin (HPFH) is known to ameliorate symptoms when co-inherited with beta-haemoglobinopathies, such as sickle cell disease and beta-thalassaemia. The condition is sometimes associated with point mutations in the foetal globin promoters that disrupt the binding of the repressors BCL11A or ZBTB7A/LRF, which have been extensively studied. HPFH is also associated with a range of deletions within the beta-globin locus that all reside downstream of the foetal HBG2 gene. These deletional forms of HPFH are poorly understood and are the focus of this study. Numerous different mechanisms have been proposed to explain how downstream deletions can boost the expression of the foetal globin genes, including the deletion of silencer elements, of genes encoding non-coding RNA, and bringing downstream enhancer elements into proximity with the foetal globin gene promoters. Here we systematically analyse the deletions associated with both HPFH and a related condition known as beta-thalassaemia and propose a unifying mechanism. In all cases where foetal globin is up-regulated, the proximal adult beta-globin (HBB) promoter is deleted. We use CRISPR gene editing to delete or disrupt elements within the promoter and find that virtually all mutations that reduce promoter activity, result in elevated foetal globin expression. These results fit with previous models where the foetal and adult globin genes compete for the distal Locus Control Region and suggest that targeting the promoter might be explored to elevate foetal globin and reduce sickle globin expression as a treatment for beta-haemoglobinopathies.

2022-01-20 | GSE194064 | GEO

Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [ChIP-seq]

Project description:The fetal-to-adult hemoglobin switch is regulated in a developmental stage-specific manner and reactivation of fetal hemoglobin (HbF) has therapeutic potential for β-hemoglobinopathies. Although BCL11A and ZBTB7A interact with their coregulators, reportedly mediating most γ-globin transcriptional silencing in erythroid in trans, and in cis, the molecular mechanism underlying the epigenetic dysregulation of the switch remains largely unclear. Here we showed that epigenetic inactivation of an ETS2 repressor factor (ERF) reactivates γ-globin expression during stress erythropoiesis, and ERF depletion elevates γ-globin in erythroid cells and in erythroid progenies from the edited HSPCs engrafted into immunodeficient mice. ERF represses γ-globin by directly binding to two motifs regulating HBG expression, independently of the major HbF repressors BCL11A and ZBTB7A. We further uncovered that an lncRNA, RP11-196G18.23 mediates ERF promoter hypermethylation resulting in reactivation of g-globin. Herein, the epigenetic alterations were identified as novel modulators ameliorating the severity of b-thalassemia, thus providing novel therapeutic targets for β-hemoglobinopathies.

2020-12-27 | GSE160602 | GEO

Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [RNA-seq]

2020-12-27 | GSE160601 | GEO

Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia

Project description:Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia

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SOX6 interacting proteins' identification in K562 cells for the regulation of γ-globin gene expression research

Project description:Human fetal γ-globin gene is developmentally silenced around the birth, and reactivation of γ-globin gene in adulthood sheds new light on ameliorating symptoms of hemoglobin disorders, such as sickle cell disease (SCD) and β-thalassemias. However, the precise regulation process of γ-globin remains incompletely understood. Here, we found that a new protein directly interacted with SOX6 and exerted a significant repression effect on the expression of γ-globin gene in erythroid cells. Further studies have demonstrated that it bound directly to γ-globin gene promoter via octamer binding motif, which in turn suppressed the transcriptional activity of γ-globin gene promoter. Thus, these data indicate that this new protein acts as a novel transcriptional repressor in the regulation of γ-globin gene expression through direct promoter binding, implying a potential alternative therapeutic target for the treatment of SCD and β-thalassemias.

2022-02-16 | PXD024259 | Pride

Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [RNA-seq]

Project description:Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [RNA-seq]

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Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [ChIP-seq]

Project description:Epigenetic inactivation of ERF reactivates γ-globin expression in β-thalassemia [ChIP-seq]

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Multiple CTCF sites contribute to stable enhancer-promoter interactions in the β-globin locus

Project description:We propose that multiple CTCF sites on same motif orientation could cooperate with each other for stable enhancer-promoter interactions in the β-globin locus.

2022-01-03 | GSE164288 | GEO

Epigenetic modifications and chromosome conformations of the beta globin locus throughout development

Project description:Human embryonic stem cells provide an alternative to using human embryos for studying developmentally regulated gene expression. The co-expression of high levels of embryonic epsilon and fetal gamma globin by the hESC-derived erythroblasts allows the interrogation of epsilon globin regulation at the transcriptional and epigenetic level which could only be attained previously by studying cell lines or transgenic mice. In this study, we compared the histone modifications across the beta globin locus of the undifferentiated hESCs and hESC-, FL-, and mobilized PB CD34+ cells-derived erythroblasts, which have distinct globin expression patterns corresponding to their developmental stages. We demonstrated that the histone codes employed by the beta globin locus are conserved throughout development. Furthermore, in spite of the close proximity of the epsilon globin promoter, as compared to the gamma or beta globin promoter, with the LCR, a chromatin loop was also formed between the LCR and the active epsilon globin promoter, similar to the loop that forms between the gamma or beta globin promoters and the LCR, in contrary to the previously proposed tracking mechanism. Human embryonic stem cells, hESC-, FL-, and PB derived erythroblasts were studied. The enrichment of H3K4me3 and AcH3 acrossed the beta globin locus was studied using ChIP-seq.

2015-01-26 | E-GEOD-35375 | biostudies-arrayexpress

Epigenetic modifications and chromosome conformations of the beta globin locus throughout development

2015-01-26 | GSE35375 | GEO