Department of Biotechnology
inStem (Institute for Stem Cell Science and Regenerative Medicine)

Removal of promoter CpG methylation by epigenome editing reverses HBG silencing.

Publication Type

Journal Article

Date of Publication

July 27, 2025

Journal

Nature communications

Volume/Issue

16/1

ISSN

2041-1723

β-hemoglobinopathies caused by mutations in adult-expressed HBB can be treated by re-activating the adjacent paralogous genes HBG1 and HBG2 (HBG), which are normally silenced perinatally. Although HBG expression is induced by global demethylating drugs, their mechanism is poorly understood, and toxicity limits their use. We identify the DNMT1-associated maintenance methylation protein UHRF1 as a mediator of HBG repression through a CRISPR/Cas9 screen. Loss of UHRF1 in the adult-type erythroid cell line HUDEP2 causes global demethylation and HBG activation that is reversed upon localized promoter re-methylation. Conversely, targeted demethylation of the HBG promoters activates their genes in HUDEP2 or primary CD34 cell-derived erythroblasts. Mutation of MBD2, a CpG-methylation reading component of the NuRD co-repressor complex, recapitulates the effects of promoter demethylation. Our findings demonstrate that localized CpGmethylation at the HBG promoters facilitates gene silencing and identify a potential therapeutic approach for β-hemoglobinopathies via epigenomic editing.

Alternate Journal

Nat Commun

PubMed ID

40715076

PubMed Central ID

PMC12297318

Authors

Bell HW
Feng R
Shah M
Yao Y
Douglas J
Doerfler PA
Mayuranathan T
O'Dea MF
Li Y
Wang YD
Zhang J
Mackay JP
Cheng Y
Quinlan KGR
Weiss MJ
Crossley M

Keywords

Epigenome
DNA (Cytosine-5-)-Methyltransferase 1
Epigenome Editing
DNA Methylation
Humans
CRISPR-Cas Systems
Gene Editing
gamma-Globins
Cell Line
DNA-Binding Proteins
Ubiquitin-Protein Ligases
Gene Silencing
Genetic
Promoter Regions
CpG Islands
CCAAT-Enhancer-Binding Proteins