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Single-cell and single-nucleus transcriptome analysis of pattern formation in the early embryo of the spider Parasteatoda tepidariorum

ABSTRACT: Single-cell and single-nucleus transcriptome analysis of pattern formation in the early embryo of the spider Parasteatoda tepidariorum

PROVIDER: PRJNA832705 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR18939900_1.fastq.gz	Fastqsanger.gz
	SRR18939900_2.fastq.gz	Fastqsanger.gz
	SRR18939898_1.fastq.gz	Fastqsanger.gz
	SRR18939898_2.fastq.gz	Fastqsanger.gz
	SRR18939899_1.fastq.gz	Fastqsanger.gz

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Developmental profiling of gene expression in embryos of the spider Parasteatoda tepidariorum

Project description:The common house spider Parasteatoda tepidariorum is a chelicerate model organism for studying developmental mechanisms and their evolution in arthropods. In contrast to the well-studied model insect, Drosophila melanogaster, embryos of the spider undergo patterning in a cellular environment from early stages (at least after the number of the nuclei increase to 16). Use of spider embryos provide new opportunities to understand the evolution of developmental mechanisms underlying arthropod body plans. This analysis aims to generate genome-scale, developmental profiles of gene expression in embryos of the spider P. tepidariorum, which facilitate a wide range of studies using this spider species.

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Identification of genes whose expression is affected by fuchi nashi pRNAi in early embryos of the spider Parasteatoda tepidariorum

Project description:We identified a GATA-like gene named fuchi nashi (fuchi) as a gene required for establishing a germ disc in the early embryo of the spider Parasteatoda tepidariorum. fuchi transcript is initially expressed in cells at both polar regions of the embryo and later in endodermal and extraembryonic cells. To genome-widely identify genes whose expressions are regulated by fuchi, we conducted RNA-sequencing of whole embryos at three different early stages (stages 2 and 3 and early stage 5) that were untreated (control) or treated for fuchi parental RNA interference (pRNAi).

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Project description:We identified a lineage-specific GATA-like gene named fuchi nashi (fuchi) as a gene required for establishing a germ disc in the early embryo of the common house spider Parasteatoda tepidariorum. To investigate possible involvement of the early fuchi activity in regulation of chromatin accessibility, we used an assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq). Whole embryos at stage 3 that were untreated (wild-type) or treated for fuchi or hedgehog (hh) parental RNAi (pRNAi), as well as wild-type whole embryos at stages 1 and 2, were analyzed by ATAC-seq. We found that chromatin accesibilities were specifically altered by fuchi pRNAi at many regions of the genome, whereas chromatin accessibilities were little affected by Pt-hh pRNAi, which served as negative control.

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Single-cell and single-nucleus transcriptome analysis of pattern formation in the early embryo of the spider Parasteatoda tepidariorum

Project description:In a cellular field of the early spider embryo, Hedgehog signaling operates to specify a “fuzzy” French-flag-like pattern along the primary axis. We applied single-cell and single-nucleus RNA sequencing to the early spider embryo. We confirmed that these techniques successfully detected three cell population corresponding to germ layers and some known cell types. We showed that the data had sufficient information for reconstruction of a correct global polarity of the presumptive ectoderm.

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