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A temporally resolved transcriptome for developing “Keller” explants of the Xenopus laevis dorsal marginal zone

ABSTRACT: A temporally resolved transcriptome for developing “Keller” explants of the Xenopus laevis dorsal marginal zone

PROVIDER: PRJNA674389 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12975534_1.fastq.gz	Fastqsanger.gz
	SRR12975534_2.fastq.gz	Fastqsanger.gz
	SRR12975535_1.fastq.gz	Fastqsanger.gz
	SRR12975535_2.fastq.gz	Fastqsanger.gz
	SRR12975536.fastq.gz	Fastqsanger.gz

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A temporally resolved transcriptome for developing “Keller” explants of the Xenopus laevis dorsal marginal zone

Project description:Explanted tissues from vertebrate embryos reliably develop in culture and have provided essential paradigms for understanding embryogenesis, from early embryological investigations of induction, to the extensive study of Xenopus animal caps, to the current studies of mammalian gastruloids. Cultured explants of the Xenopus dorsal marginal zone (“Keller” explants) serve as a central paradigm for studies of convergent extension cell movements, yet we know little about the global patterns of gene expression in these explants. In an effort to more thoroughly develop this important model system, we provide here a time-resolved bulk transcriptome for developing Keller explants.

2020-11-04 | GSE160777 | GEO

A temporally resolved transcriptome for developing "Keller" explants of the Xenopus laevis dorsal marginal zone.

Project description:BackgroundExplanted tissues from vertebrate embryos reliably develop in culture and have provided essential paradigms for understanding embryogenesis, from early embryological investigations of induction, to the extensive study of Xenopus animal caps, to the current studies of mammalian gastruloids. Cultured explants of the Xenopus dorsal marginal zone ("Keller" explants) serve as a central paradigm for studies of convergent extension cell movements, yet we know little about the global patterns of gene expression in these explants.ResultsIn an effort to more thoroughly develop this important model system, we provide here a time-resolved bulk transcriptome for developing Keller explants.ConclusionsThe dataset reported here provides a useful resource for those using Keller explants for studies of morphogenesis and provide genome-scale insights into the temporal patterns of gene expression in an important tissue when explanted and grown in culture.

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Identification of specific xWNT5A and xWNT11specific target genes in dorsal marginal zone explants of Xenopus laevis

Project description:The non-canonical signaling branches of the WNT signaling network realize different movements during Xenopus laevis gastrulation movements. The WNT5A branch is responsible for the constriction whereas the WNT11 branch triggers the elongation of the dorsal mesoderm. Therefore we used dorsal marginal zone explants which undergo convergent extension movements as readout system to identify differences in gene expression pattern between the WNT5A and WNT11 signaling branch via microarray analysis.We identified pbk as specific WNT5A target gene and rab11fip5 as specific WNT11 target gene. Therefore the non-canonical branches of the WNT signaling network do not only regulate cell behavior but also the expression of different target genes.

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Project description:Lef-1 as nuclear transducer of the canonical Wnt signaling pathway acts as regulator of convergent extension (CE) movements. To identify Lef-1 target genes relevant for CE movements we compared the transcriptome of Lef-1 morphant dorsal marginal zone explants with control morphants.

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