Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [SLAM-seq]

ABSTRACT: A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [SLAM-seq]

PROVIDER: PRJNA929924 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23284054.fastq.gz	Fastqsanger.gz
	SRR23284055.fastq.gz	Fastqsanger.gz
	SRR23284056_1.fastq.gz	Fastqsanger.gz
	SRR23284056_2.fastq.gz	Fastqsanger.gz
	SRR23284057_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [SLAM-seq]

Project description:During early embryogenesis, embryos undergo a massive degradation of maternally inherited mRNAs and produce new zygotic transcripts. This maternal-to-zygotic transition requires a tight interplay of mRNA transcription and degradation, but distinguishing their unique contributions remains a challenge. Here, we dissect gene regulation during the zebrafish maternal-to-zygotic transition by combining single-cell RNA-sequencing with RNA metabolic labeling and nucleotide conversion within zebrafish embryos. We decompose single-cell transcriptomes into their new (zygotic) and old (maternal) mRNA components, and elicit critical information on gene regulation as it unfolds over both time and space. We show that most cell-type restricted expression arises by zygotic transcription, but distinguish a specific role for maternal transcripts in defining germ-cell and enveloping-layer identity, two earliest specified cell identities. We recover the underlying replacement between maternal and zygotic copies of embryonic genes with a relatively constant overall mRNA level, and associate a fast replacement with genes that has a restricted zygotic expression in either cell-type or time. Our study provides a valuable resource to investigate maternal and zygotic transcriptomes and reveals post-transcriptional events that control gene regulation during early embryogenesis.

2023-05-11 | GSE224113 | GEO

A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [scSLAM-seq]

2023-05-11 | GSE224918 | GEO

A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos

Project description:A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos

| PRJNA933118 | ENA

Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis [timecourse_data]

Project description:Background: Early embryonic developmental programs are guided by the coordinated interplay between maternally inherited and zygotically manufactured RNAs and proteins. Although these processes happen concomitantly and affecting gene function during this period is bound to affect both pools of mRNAs, it has been challenging to study their expression dynamics separately. Results: By employing Slam-seq, a nascent mRNA labeling transcriptomic approach, in a developmental time series we observe that over half of the early zebrafish embryo transcriptome consists of maternal-zygotic genes, emphasizing their pivotal role in early embryogenesis. We provide an hourly resolution of de novo transcriptional waves and follow nascent mRNA trajectories, finding that most de novo transcriptional events are stable throughout this period. Additionally, by blocking microRNA430 function, a key post-transcriptional regulator during zebrafish embryogenesis, we directly show that it destabilizes hundreds of de novo transcribed mRNAs from pure zygotic as well as maternal-zygotic genes. This unveils a novel miR-430 function during embryogenesis, fine-tuning zygotic gene expression, which highlights that Slam-seq can be used to disentangle transcriptional and post-transcriptional regulation of mRNA levels. Conclusion: Such valuable insights into zebrafish early embryo transcriptome dynamics emphasize the significance of post-transcriptional regulators in zygotic genome activation. These findings pave the way for future investigations into the coordinated interplay between transcriptional and post-transcriptional landscapes required for the establishment of animal cell identities and functions.

2024-02-10 | GSE247933 | GEO

Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis [lna_data]

2024-02-10 | GSE247930 | GEO

Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis [titration_data]

2024-02-10 | GSE247934 | GEO

A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [scSLAM-seq]

Project description:A single-cell map of maternal and zygotic mRNA dynamics during cell-type specification in zebrafish embryos [scSLAM-seq]

| PRJNA934545 | ENA

A low-input proteomic analysis of mouse maternal-to-zygotic transition

Project description:Maternal-to-zygotic transition (MZT) is a conserved and fundamental process during which the maternal environment of oocyte transits to the zygotic genome driven expression program, and terminally differentiated oocyte and sperm are reprogrammed to totipotency. It is initiated by maternal mRNAs and proteins during the period of zygotic genome quiescence after fertilization, followed by a gradual switch to zygotic genome activation and accompanied by clearance of maternal RNAs and proteins. A key question for embryonic development is how MZT process is regulated. Here we used a low-input proteomic analysis to measure the proteomic dynamics during early development of mouse maternal-to-zygotic transition.

2023-03-27 | PXD041023 | Pride

Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis

Project description:Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis

| PRJNA1040928 | ENA

Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis [titration_data]

Project description:Slam-seq reveals that miR-430 regulates zygotic mRNA during zebrafish embryogenesis [titration_data]

| PRJNA1040930 | ENA