Chromatin factor YY1 controls fetal hematopoietic stem cell migration and engraftment in mice [ATAC-seq]

Fetal liver is a major organ for generating hematopoietic stem cells (HSCs) during embryonic development. Many questions remain unanswered regarding how transition of hematopoiesis from the fetal liver to the bone marrow (BM) is regulated. We demonstrate that mammalian Polycomb Group (PcG) protein Yin Yang 1 (YY1) is required for this transition, as conditional knockout of Yy1 in the hematopoietic system during fetal development results in exhaustion of fetal HSC pools and is associated with neonatal death. Yy1 deficient fetal HSCs have diminished capacity to migrate to and engraft the adult BM, and consequently fail to reconstitute blood. The genetic networks governing cell motility and adhesion are distinctly deregulated by YY1 knockout in fetal HSPCs. Notably, YY1 regulates mobility of fetal HSPCs largely through an indirect mechanism as it does not directly bind to the promoters of dysregulated genes involved in control of cell mobility. Instead, it regulates broader transcriptional mechanisms by regulating the genes in chromatin remodeling complexes and modulating chromatin accessibility that impact HSPC migration. Our study provides a framework to further decipher how temporal epigenomic configurations determine HSC fetal-to-adult transition during development. Overall design: We performed ATAC-seq to characterize genome-wide chromatin accessibility in Yy1f/f (YY1 WT) and Yy1f/f Vav-Cre (YY1 KO) E14.5 mouse Lin- fetal liver cells. The experiment was designed to assess how YY1 control chromatin accesebility. Two independent biological replicates were prepared for each condition.