Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Acipenser sturio

ABSTRACT: Comparative study of gene expression during early vertebrate development between Xenopus laevis and Sturgeon

PROVIDER: PRJNA299617 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR2758820.fastq.gz	Fastqsanger.gz
	SRR2758830.fastq.gz	Fastqsanger.gz
	SRR2758821.fastq.gz	Fastqsanger.gz
	SRR2758831.fastq.gz	Fastqsanger.gz
	SRR2758822.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 31

Similar Datasets

Acipenser sturio strain:hybrid sturgeon

Project description:sturgeon Transcriptome

| PRJNA474667 | ENA

Comparative study of gene expression during early vertebrate development between Xenopus laevis and Sturgeon

Project description:Sturgeon and Xenopus is estimated to be separate by about 400 My of evolution. We have collected data on temporal expression profile in Sturgeon in order to compare the level and timing of expression for homologous pairs of genes, commonly referred to as hetero-metry and hetero-chrony. Following up our previously published research on similar comparison between two species of Xenopus separated by estimated 50 My, we are asking whether patterns of expression and signaling cascades of two key developmental periods - gastrulation and neurulation are implemented via conserved molecular basis. Uncovering and describing deviation for the conserved expression program as well as the composition of maternal deposit will provide new insights into vertebrate development both the normal course and developmental abnormalities.

2018-10-20 | GSE74249 | GEO

Acipenser sturio strain:hybrid sturgeon

Project description:Acipenser sturio strain:hybrid sturgeon Transcriptome or Gene expression

| PRJNA340040 | ENA

Comparison of RNA localization during oogenesis within Acipenser ruthenus and Xenopus laevis [Xenopus laevis]

Project description:In this study we analyzed the spatial and temporal localization of maternal transcripts during oogenesis in Xenopus laevis. The occurrence of transcript asymmetry in X. laevis has been described at a global level only in matured eggs, while the establishment of the asymmetry during oogenesis has been described only for a few transcripts. In this model it was discerned that there exist three pathways (early, intermediate, late) for the establishment of the vegetal gradient, while for the animal gradient not much is known for its production. In this study we assessed the temporal establishment of the transcript localization at a global level for Xenopus laevis. We were able to determine that there are many transcripts that show temporal variability in the establishment of their localization. We observed the previously described early, intermediate (predefined) and also late pathways but found more member transcripts within these groups. We also described, perhaps for the first time, an early, intermediate (predefined) and late pathway for the animal genes as well. Additionally, we showed that some maternal transcripts are dynamic during oogenesis with degradation and de novo production being observed. Our study showed that in additional to spatial orientation to the transcripts, there is a strong temporal factor. The discovery of these new temporal profiles should help to better understand the driving forces during embryogenesis.

2022-08-23 | GSE211415 | GEO

Acipenser sturio

Project description:Acipenser sturio overview

| PRJNA400104 | ENA

Glycome and glycoproteome of Xenopus laevis embyros

Project description:This dataset includes the files for N-glycoproteome analysis of early and late stage Xenopus laevis embyros, as well as the N-glycome during Xenopus laevis embryogenesis

2019-08-07 | MSV000084180 | MassIVE

Expression data from Xenopus endoderm at stage 15 following four hours of Ngn3-GR overexpression

Project description:Ngn3 is a master regulator of pancreatic endocrine development. It is necessary for the creation of all endocrine cells in mice. Little is known about the genes that act downstream of the transcription factor Ngn3 in pancreas endocrine development to specify each of the endocrine lineages. As a consequence, little is known about the genes involved in early development and the specification of the beta cell. We used microarrays to identify Ngn3 downstream genes that are involved in early and ectopic beta cell development in Xenopus laevis. We overexpressed Ngn3 in the Xenopus early endoderm and analyzed the genes that are upregulated four hours after. Xenopus laevis embryos were injected with Ngn3-GR mRNA at the eight-cell stage in the two dorsal vegetal blastomeres. Embryos at stage 12 were either treated with dexamethasone (+DEX) for four hours or no DEX (-DEX). The endoderm was dissected at stage 15. We looked for genes upregulated in the +DEX samples compared to the -DEX samples.

2012-03-31 | E-GEOD-29017 | biostudies-arrayexpress

Tissue expression profiling of miRNAs in Amur sturgeon (Acipenser schrenckii)

Project description:Microarray expriments were performed in 5 tissues of Amur sturgeon, included liver, spleen, brain ,muscle and heart.

2015-12-30 | GSE57102 | GEO

Transcriptome profiling reveals cleft palate-related genes in Chinese sturgeon (Acipenser sinensis)

Project description:The Chinese sturgeon (Acipenser sinensis) is anadromous fish distributed in Yangtze River and East China Sea. In this study, we reported cleft-palate Chinese sturgeons in artificial population for the first time. In order to explore the genetic basis of palate malformation in A. sinensis, Illumina RNA-seq technology was used to analyze the transcriptome data of normal and cleft-palate individuals in farmed Chinese sturgeons. Raw reads were obtained and assembled into 808,612 unigenes, with an average length of 509.33 bp and an N50 of 574 bp. Sequence similarity analyses against four public databases (Nr, Uniprot, KEGG and COGs) found 158,642 unigenes that can be annotated. GABAergic synapse and TGF-β signal pathway were the most two enriched pathways with high Richfactor in the analyses of different expressed genes. In these two signal pathways, six genes (GABRA4, GS, GNS, S6K, PITX2, and BMP8) were found as cleft-palate genes in Chinese sturgeon. These findings contribute to our understanding of the genetic basis of cleft palate in sturgeon, while simultaneously adding to our knowledge about craniofacial development.

2018-03-24 | GSE112292 | GEO

Next generation sequencing identifies differentially localized transcripts in Xenopus laevis and Xenopus tropicalis oocytes

Project description:RNA-seq technology was used to identify differentially localized transcripts from Xenopus laevis and Xenopus tropicalis stage VI oocytes. Besides the discovery of a group of novel animally enriched RNAs, this study revealed a surprisingly low conservation of vegetal RNA localization between the two frog species. mRNA profiles of Xenopus laevis and Xenopus tropicalis animal and vegetal oocyte halves were generated by RNA-seq technology. For Xenopus laevis, animal and vegetal oocyte RNA preparations from two different females were generated in duplicates. For Xenopus tropicalis, animal and vegetal oocyte RNA preparations from two different females were analyzed.

2015-12-09 | E-GEOD-58420 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data