Chronic alcohol consumption drives inflammaging and transposon derepression in hematopoietic stem and progenitor cells

My preprint manuscript submitted to bioRxiv.

In this manuscript, I did all the works from study conceptualization, design, execution, bioinformatics analysis, figure preparation and manuscript writing. I also succefully acquired external funding independently to support epigenome analysis of HSC, which then I combined with HSC transcriptome project resulting in this manuscript.

Here is the author contribution as written in the manuscript

Contribution: R.A.A.Y conceptualization, project administration, investigation, perform most experiments, data curation, bioinformatics analysis of aging mouse scRNA-seq, dsRIP-seq, and scATAC-seq data, formal analysis of most experiment, visualization, validation, methodology, writing-original draft, writing-review and editing, funding acquisition; H.B investigation, formal analysis, bioinformatics analysis of human scRNA-seq data; V.K investigation, formal analysis; J.K, F.Y, H.C, Y.P, Y.F, Z.H, and J.C investigation; L.Z.L helps in GSEA analysis and provide scientific input; Z.S resources, funding acquisition; B.G supervision, funding acquisition; S.J supervision, funding acquisition; L.S.M.R supervision, funding acquisition; M.J conceptualization, project administration, investigation, validation, supervision, writing-review and editing, funding acquisition. All authors reviewed and edited the final manuscript.

Abstract

Chronic alcohol use causes pancytopenia and diminished immune responses against pathogens. However, it remains unclear whether chronic alcohol consumption directly induces inflammation in human hematopoietic stem progenitor cells (HSPCs), and if aging modifies the impact of chronic alcohol consumption in HSPCs. To examine how chronic alcohol use affects HSPCs, we performed single-cell RNA-seq in human and murine HSPCs and single-cell ATAC-seq in aged murine HSPCs following alcohol exposure. In xenotransplanted human HSPCs, chronic alcohol feeding resulted in a significant myeloid bias, heightened inflammation, double-stranded RNA (dsRNA) sensor upregulation, and type 1 interferon responses. In the native murine bone marrow, chronic alcohol exposure primed HSPCs to differentiate into myeloid cells and to exhibit heightened inflammation, DNA damage, and epigenetic reactivation of transposable elements (TEs) in an age-dependent manner. Alcohol-exposed aged long-term hematopoietic stem cells (LT-HSCs) displayed increased chromatin accessibility at TE-containing loci correlated with aberrant TE transcription. This transposon derepression was associated with the accumulation of dsRNAs in aged bone marrow cells, and activation of innate immune pathways, perpetuating HSC inflammaging. Furthermore, old mice showed two epigenomically distinct LT-HSC clusters, LT-HSC1 and LT-HSC2, in which the LT-HSC2 cluster expanded in response to chronic alcohol drinking and resembled inflammatory HSCs. Notably, secondary transplantation revealed unperturbed long-term self-renewal capacity in both human and murine HSCs, suggesting that HSC function may recover following alcohol cessation. Our data illuminate potential interactions between alcohol and aging that can reinforce inflammaging and epigenetic dysregulation in HSPCs.

Keypoints

• Chronic alcohol consumption triggers age-dependent myeloid bias and inflammation in HSPCs without impairing self-renewal
• Chronic alcohol consumption alters epigenome, driving heightened transposon upregulation in aged HSPCs

Keywords

Hematopoietic stem progenitor cells; chronic alcohol; inflammation, aging, transposon, epigenetic, single-cell omics

Recommended citation: Yuda, R.A.A., et al. "Chronic alcohol consumption drives inflammaging and transposon derepression in hematopoietic stem and progenitor cells." bioRxiv 2025..
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