TY  - JOUR
AU  - Jaber, Mohammad
AU  - Radwan, Ahmed
AU  - Loyfer, Netanel
AU  - Abdeen, Mufeed
AU  - Sebban, Shulamit
AU  - Khatib, Areej
AU  - Yassen, Hazar
AU  - Kolb, Thorsten
AU  - Zapatka, Marc
AU  - Makedonski, Kirill
AU  - Ernst, Aurélie
AU  - Kaplan, Tommy
AU  - Buganim, Yosef
TI  - Comparative parallel multi-omics analysis during the induction of pluripotent and trophectoderm states.
JO  - Nature Communications
VL  - 13
IS  - 1
SN  - 2041-1723
CY  - [London]
PB  - Nature Publishing Group UK
M1  - DKFZ-2022-01285
SP  - 3475
PY  - 2022
AB  - Following fertilization, it is only at the 32-64-cell stage when a clear segregation between cells of the inner cell mass and trophectoderm is observed, suggesting a 'T'-shaped model of specification. Here, we examine whether the acquisition of these two states in vitro, by nuclear reprogramming, share similar dynamics/trajectories. Using a comparative parallel multi-omics analysis (i.e., bulk RNA-seq, scRNA-seq, ATAC-seq, ChIP-seq, RRBS and CNVs) on cells undergoing reprogramming to pluripotency and TSC state we show that each reprogramming system exhibits specific trajectories from the onset of the process, suggesting 'V'-shaped model. We describe in detail the various trajectories toward the two states and illuminate reprogramming stage-specific markers, blockers, facilitators and TSC subpopulations. Finally, we show that while the acquisition of the TSC state involves the silencing of embryonic programs by DNA methylation, during the acquisition of pluripotency these regions are initially defined but retain inactive by the elimination of H3K27ac.
LB  - PUB:(DE-HGF)16
C6  - pmid:35715410
DO  - DOI:10.1038/s41467-022-31131-8
UR  - https://inrepo02.dkfz.de/record/180371
ER  -