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MicroRNA expression signatures for gata4/5/6 knocking down in zebrafish

ABSTRACT: Previous works showed that gata4/5/6 lie at the hierarchical apex of the regulatory network of the hemangioblast formation and primitive myelopoiesis in zebrafish. To explore the roles of miRNAs in zebrafish primitive myelopoiesis, we employed deep sequencing to analyze the difference of miRNA expression profiles between gata4/5/6 knockdown embryos (gata5/6 morphants) and control embryos.

ORGANISM(S): Danio rerio

PROVIDER: GSE118850 | GEO | 2021/08/14

REPOSITORIES: GEO

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Gene expression signatures for gata4/5/6 knocking down in zebrafish

Project description:Zebrafish gata4/5/6 are known to lie on the apex of the regulatory hierarchy in primitive myelopoiesis. However, little is known about the roles of microRNAs in this process. Performing microarray analysis on the expression changes of microRNAs in the gata4/5/6 knockdown embryos, we found that miR-210-5p is a novel regulator in zebrafish primitive myelopoiesis. To uncover the target genes of miR-210-5p to mediate its role in inhibiting zebrafish primitive myelopoiesis, we performed microarray analysis to identify differentially expressed genes in gata4/5/6 knockdown embryos.

2021-07-30 | GSE117958 | GEO

Tmem88a Mediates GATA-dependent Specification of Cardiomyocyte Progenitors by Restricting Canonical WNT Signaling

2013-10-21 | GSE44026 | GEO

Tmem88a Mediates GATA-dependent Specification of Cardiomyocyte Progenitors by Restricting Canonical WNT Signaling

Project description:We sequenced mRNA from zebrafish wild-type embryos, gata5 morphants, gata6 morphants, and gata5/6 morphants at bud and 6-somite developmental stages to identify genes co-operatively regulated by gata5 and gata6 during cardiomyocyte progenitor specification. Samples were collected in duplicate, with 40 embryos per sample. Single 36-base pair reads were sequenced on the Illumina Genome Analyzer IIx

2013-10-21 | E-GEOD-44026 | biostudies-arrayexpress

Transcription profiling of Xenopus animal cap cardiogenesis model to examine immediate early targets of Gata4 and Gata5.

Project description:Gata factors are amongst the genes expressed early on in the process of cardiogenesis. We used microarrays to examine the immediate early targets of Gata4 and Gata5 in the Xenopus leavis animal cap cardiogenesis model. We hope to use these data to examine the roles of Gata4 and Gata5 in cardiogenesis and also to begin to dissect out the common and distinct targets of Gata4 and Gata5. Experiment Overall Design: Xenopus leavis embryos were injected at the one cell stage with dexamethasone-inducible Gata4 or Gata5 mRNA constructs (to examine endodermal and mesodermal targets) or with Gata4 in the presence of Dkk1 (to examine mesodermal targets.) Embryos were cultured to stage 9, whereupon animal caps were excised and cultured for 2.5 hours in media containing dexamethasone to induce the constructs and cycloheximide to block de novo protein synthesis and thus give only immediate early targets.

2008-10-18 | E-GEOD-8496 | biostudies-arrayexpress

Examining the immediate early targets of Gata4 and Gata5.

2008-07-15 | GSE8496 | GEO

Comparison of cardiomyocyte transcripts after knockdown of Gata4 in zebrafish embryos

Project description:The Gata4 transcription factor is essential for normal heart development, but the molecular basis for its function remain poorly understood. We profiled at the whole genome level transcript changes in cardiomyocytes when Gata4 is depleted from zebrafish embryos. Our objective was to elucidate the cardiomyocyte-specific molecular program functioning downstream of Gata4 in order to better understand the role of Gata4 in cardiac morphogenesis. Six samples in total are deposited. Three replicate control samples and three replicate Gata4 morphant samples were analyzed.

2014-02-06 | E-GEOD-44233 | biostudies-arrayexpress

Comparison of cardiomyocyte transcripts after knockdown of Gata4 in zebrafish embryos

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Zebrafish hdac1 mutant and morphant embryos

Project description:This SuperSeries is composed of the following subset Series: GSE26707: Zebrafish 27hpf embryos: hdac1 mutant (hi1618) vs sibling GSE26708: Zebrafish embryos: hdac1 Morphants vs Standard control morphants GSE26709: Zebrafish embryos: hdac1 Morphants vs Standard control morphants at 12, 18 and 27 hpf Refer to individual Series

2011-01-21 | E-GEOD-26710 | biostudies-arrayexpress

Danio rerio

Project description:Zebrafish embryos: hdac1 Morphants vs Standard control morphants

| PRJNA142141 | ENA

ATAC-seq of gata5GFP+/- cells in WT and Gata5/6 deficient zebrafish embryos during gastrulation

Project description:Gata5/6 are essential regulators in zebrafish heart development. To understand how Gata5/6 affects the chromatin accessibility and regulates cardiac gene expression, we FACS-isolated GFP+ and GFP- cells from Tg(gata5:GFP) transgenic embryos in both control and Gata5/6 deficient embryos (injected with Gata5/6 morpholinos) and conducted ATAC-seq. We performed the experiments at 8 hours post fertilization, intending to dissect the role of Gata5/6 in the earliest step in cardiac lineage specification. We did 2-3 biological replicates for each sample. ATAC-seq libraries were made using previously published protocol (Buenrostro et al., Nat. Methods, 2013. DOI: 10.1038/nmeth.2688) and sequenced on Illumina Hiseq2500.

2021-12-31 | E-MTAB-10427 | biostudies-arrayexpress

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