2025 Hyper Recent •CC0 1.0 Universal

This work is dedicated to the public domain. No rights reserved.

Access Preprint From Server
September 6th, 2025
Version: 1
The Chinese University of Hong Kong
cell biology
bioRxiv

RNA helicase Ddx21 safeguards fetal HSPC expansion by recruiting Kdm5a to epigenetically sustain ribosomal and hematopoietic gene transcription

Leung, A. O.-W.Open in Google Scholar•Li, C.Open in Google Scholar•Huang, X.Open in Google Scholar•Fan, Z.Open in Google Scholar•Chen, Y.Open in Google Scholar•Liu, J.Open in Google Scholar•Lin, H.-M.Open in Google Scholar•Cui, X.Open in Google Scholar•Zhang, F.Open in Google Scholar•Niu, R.Open in Google Scholaret al.

Fetal hematopoietic stem and progenitor cells (HSPCs) require active ribosome biogenesis to sustain their rapid proliferation, yet how non-structural ribosomal factors regulate this process remains unclear. Here, we identify the RNA helicase Ddx21 as a critical determinant of fetal hematopoiesis through its epigenetic role in maintaining active ribosomal transcription. Conditional knockout of Ddx21 in murine fetal hematopoietic cells resulted in severe anemia, fetal liver hypoplasia, and depletion of HSPCs, accompanied by erythroid maturation arrest. Mechanistically, Ddx21 deficiency disrupted ribosomal and hematopoietic gene expressions, impaired translational capacity, and activated p53 pathway, triggering cell cycle arrest and apoptosis. While p53 inhibition partially rescued proliferation defects, it failed to restore rRNA transcription, pointing to p53-independent mechanisms. Multi-omics profiling revealed that Ddx21 interacts with the histone demethylase Kdm5a, co-occupying active promoters marked by H3K4me3. Loss of Ddx21 diminished H3K4me3 levels at ribosomal DNA (rDNA) and hematopoietic genes such as cKit and Gata1, downregulating their transcription. Strikingly, Kdm5a inhibition restored rRNA expression and protein translation in Ddx21-deficient cells, and combined inhibition of Kdm5a and p53 cooperatively rescued HSPC function. These findings demonstrate a paradigm wherein Ddx21 couples ribosome biogenesis to epigenetic regulation by sequestering Kdm5a at active chromatin, thereby preserving transcriptional output essential for fetal hematopoietic expansion.

Similar Papers

bioRxiv
Sun Sep 07 2025
Histone methyltransferase DOT1L differentially affects the development of dendritic cell subsets
Dendritic cells (DCs) are important orchestrators of immune responses. Their development in the bone marrow is controlled by transcription factors, but epigenetic mechanisms remain poorly understood. DOT1L is emerging as a key epigenetic regulator in immune cells. By mapping DOT1L-mediated histone H3K79 methylation in canonical DC subsets, we observed that DOT1L modified common as well as DC subse...
Bouma, R. G.
•
de Leeuw, W.-J.
•
Wang, A. Z.
•
Malik, M.
...•
den Haan, J. M.
bioRxiv
Sat Sep 06 2025
MISO Regulates Mitochondria Dynamics and mtDNA Homeostasis by Establishing Inner Membrane Subdomains
Mitochondrial dynamics and mtDNA homeostasis are essential for numerous biological processes and have recently been linked through distinct subdomains termed small MTFP1-enriched mitochondria (SMEM). However, the molecular mechanisms governing this connection remain unclear. Here, we identified MISO (Mitochondrial Inner membrane Subdomain Organizer), a novel protein that regulates mitochondrial dy...
Zhang, Y.
•
Xia, Y.
•
Wang, X.
•
Xia, Y.
...•
He, L.
bioRxiv
Sat Sep 06 2025
Mitochondrial proteostatic stress disrupts mitoribosome biogenesis and translation
Protein aggregation in various cellular compartments is a hallmark of proteostasis impairment linked to aging and numerous pathologies. Mitochondrial function depends on a balanced interplay of proteins imported from the cytosol as well as those synthesized on mitochondrial ribosomes (mitoribosomes). Here, we reveal an unexpected susceptibility of mitoribosome biogenesis to organellar proteostatic...
Holthusen, H.
•
Trinkaus, V. A.
•
Fernandez Gonzalez, C.
•
Saha, I.
...•
Hartl, F.-U.
bioRxiv
Sat Sep 06 2025
Unconventional secretion of angiogenic sonic-hedgehog-containing large extracellular vesicles is stimulated via the PI3K/Rab18-GDP pathway
Large extracellular vesicles (lEVs), with diameters >600 nm, play essential roles in special types of intercellular communications. However, information on the molecular mechanism underlying their roles and on their relevance remains scarce. Here we show that PI3K/Rab18-GDP signaling facilitates the secretion of lEVs from human mesenchymal stem cells (hMSCs) and fibroblasts. These EVs contain a la...
Wang, S.
•
Imai, R.
•
Tanaka, Y.
bioRxiv
Sat Sep 06 2025
Peripheral inflammation mediates midbrain Lrrk2 kinase activity via Rab32 expression
Parkinson disease (PD) is a neurodegenerative movement disorder that involves a complex interaction between genetic background, environmental exposures and ageing. Increased leucine-rich repeat kinase 2 (LRRK2) activity confers substantial risk for PD albeit with age-associated and incomplete penetrance that suggests other factors are required to manifest disease. We recently linked and associated...
Follett, J.
•
Deng, I. B.
•
Sharp, R. C.
•
Wall, S. C.
...•
Farrer, M. J.
bioRxiv
Sat Sep 06 2025
SIMULATING TUMOR MITOCHONDRIAL ENERGETICS THROUGH ENGINEERING-STYLE ENERGY METRICS
Cancer progression is linked to alterations in cellular energetics, where malignant cells reprogram their metabolism to sustain proliferation, resist stress and adapt to nutrient limitations. Beyond intrinsic adaptations and plastic dynamic switches between glycolysis and oxidative phosphorylation, recent work has shown that tumors actively remodel their microenvironment by acquiring functional mi...
Tozzi, A.
bioRxiv
Sat Sep 06 2025
Changes in Histone Isoform Abundance and Histone Post-Translational Modifications during Anoxia Tolerance and Recovery in WS40NE cells of Austrofundulus limnaeus
Anoxia is an often-lethal stressor to vertebrates, yet some vertebrates have adapted cellular mechanisms to survive in anoxic conditions. Embryos of the annual killifish Austrofundulus limnaeus have the greatest tolerance to anoxia of all vertebrates, yet the epigenetic mechanisms that support their anoxia tolerance are unknown. Using mass spectrometry, 1043 unique biologically relevant histone po...
Hughes, C.
•
Mojica, E. A.
•
Kültz, D.
•
Podrabsky, J.
bioRxiv
Sat Sep 06 2025
Partial Bypass of Frataxin Deficiency by ISCU M141I Restores Cytosolic and Nuclear FeS Cluster Assembly
Iron-sulfur (Fe-S) clusters are essential cofactors required for the activity of numerous proteins involved in fundamental cellular processes, including DNA replication, metabolism and mitochondrial respiration. In eukaryotes, Fe-S cluster biogenesis is initiated in mitochondria by the ISC machinery, which assembles iron and sulfur, delivered by a cysteine desulfurase, onto the scaffold protein IS...
Mosbach, V.
•
Maio, N.
•
Diedhiou, N.
•
Hennick, A.
...•
Puccio, H.
bioRxiv
Sat Sep 06 2025
In situ cryo-ET redefines HPV disassembly and transport paradigms
Human papillomavirus (HPV) causes 4.5% of all human cancers, although a complete cellular basis of infection remains unclear. The mechanisms of virus disassembly and transport are particularly enigmatic. Here, we use in situ cryo-electron tomography (cryo-ET) to provide direct visualization of high-risk HPV16 during its infection cycle. We demonstrate that, when HPV reaches the lysosome, it remain...
Sutanto, R.
•
Rana, J.
•
Tsai, B.
•
Mosalaganti, S.