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CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Mus musculus Homo sapiens Xenopus tropicalis

PROVIDER: GSE232071 | GEO | 2025/09/03

REPOSITORIES: GEO

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CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (CANTAC-seq)

Project description:The transition from maternal to zygotic gene expression during zygotic genome activation (ZGA) is tightly associated with chromatin accessibility modulated by maternal transcription factors. However, due to technical limitations, it remains elusive how the chromatin regulatory landscape is established in Xenopus tropicalis ZGA, and let alone DNA binding transcription regulators involved in this process. Here, by developing concanavalin A beads-based nucleus capture followed by Tn5-mediated accessible chromatin assay with sequencing (CANTAC-seq), we generated a first genome-wide map of accessible chromatin in X. tropicalis embryos from early blastula to neurula stage. We found that open chromatin landscape is progressively established at cis-regulatory elements during ZGA. Based on the motif analysis and perturbation experiments, we demostrated E2f1, a well-known transcriptional activator, maintains a repressive chromatin environment preceding minor ZGA. Moreover, we identified another maternal factor Otx1 counteracts the inhibitory function of E2f1. Mechanistically, E2f1 and Otx1 co-regulate a set of genes required for zygotic gene transcription and germ layer differentiation before the midblastula transition (MBT) through a seesaw model. Taken together, our data reveals the dynamic chromatin regulatory landscape that accompanies early development and elaborates on the function of a coupled transcriptional repressor-activator regulating zygotic gene transcription in a classical model organism.

2025-09-03 | GSE232068 | GEO

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (RNA-Seq)

2025-09-03 | GSE232070 | GEO

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (ChIP-Seq)

2025-09-03 | GSE232069 | GEO

Additional Over-expression RNA-seq Data for CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

2025-09-03 | GSE290899 | GEO

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (CANTAC-seq)

Project description:CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (CANTAC-seq)

| PRJNA970735 | ENA

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

Project description:CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

| PRJNA970739 | ENA

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (ChIP-Seq)

Project description:CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (ChIP-Seq)

| PRJNA970736 | ENA

CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (RNA-Seq)

Project description:CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model (RNA-Seq)

| PRJNA970741 | ENA

Additional Over-expression RNA-seq Data for CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

Project description:Additional Over-expression RNA-seq Data for CANTAC-seq analysis reveals the maternal factors E2f1 and Otx1 co-modulate minor zygotic gene transcription by a seesaw model

| PRJNA1230727 | ENA

Maternal and zygotic Zfp57 modulate NOTCH signaling in cardiac development.

Project description:Zfp57 is a maternal-zygotic effect gene that maintains genomic imprinting. Here we report that Zfp57 mutants exhibited a variety of cardiac defects including atrial septal defect (ASD), ventricular septal defect (VSD), thin myocardium, and reduced trabeculation. Zfp57 maternal-zygotic mutant embryos displayed more severe phenotypes with higher penetrance than the zygotic ones. Cardiac progenitor cells exhibited proliferation and differentiation defects in Zfp57 mutants. ZFP57 is a master regulator of genomic imprinting, so the DNA methylation imprint was lost in embryonic heart without ZFP57. Interestingly, the presence of imprinted DLK1, a target of ZFP57, correlated with NOTCH1 activation in cardiac cells. These results suggest that ZFP57 may modulate NOTCH signaling during cardiac development. Indeed, loss of ZFP57 caused loss of NOTCH1 activation in embryonic heart with more severe loss observed in the maternal-zygotic mutant. Maternal and zygotic functions of Zfp57 appear to play redundant roles in NOTCH1 activation and cardiomyocyte differentiation. This serves as an example of a maternal effect that can influence mammalian organ development. It also links genomic imprinting to NOTCH signaling and particular developmental functions.

| S-EPMC4413352 | biostudies-literature

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