Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

The heat shock response of killifish (Fundulus heteroclitus): candidate gene and heterologous microarray approaches.

ABSTRACT: Subspecies of the Atlantic killifish, Fundulus heteroclitus, differ in their maximum thermal tolerance. To determine whether there is a link between the heat shock response (HSR) and maximum thermal tolerance, we exposed 20ºC acclimated killifish from these subspecies to a 2hr heat shock at 34ºC and examined gene expression during heat shock and recovery using real time quantitative PCR and a heterologous cDNA microarray designed for salmonid fishes. Keywords: Expression profiling by array

ORGANISM(S): Fundulus heteroclitus Osmerus mordax Oncorhynchus tshawytscha Salmo salar Oncorhynchus mykiss Coregonus clupeaformis

PROVIDER: GSE18792 | GEO | 2009/10/30

SECONDARY ACCESSION(S): PRJNA121195

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

The heat shock response of killifish (Fundulus heteroclitus): candidate gene and heterologous microarray approaches.

Project description:Subspecies of the Atlantic killifish, Fundulus heteroclitus, differ in their maximum thermal tolerance. To determine whether there is a link between the heat shock response (HSR) and maximum thermal tolerance, we exposed 20ÂºC acclimated killifish from these subspecies to a 2hr heat shock at 34ÂºC and examined gene expression during heat shock and recovery using real time quantitative PCR and a heterologous cDNA microarray designed for salmonid fishes. Keywords: Expression profiling by array Microarray analyses were performed on four individual fish per subspecies of killifish (northern and southern) prior to heat shock (control) and after 60 minutes of heat shock, hybridized (one slide per individual) against a common reference RNA pool composed of an equal amount of RNA from all samples in the analysis.

2010-06-20 | E-GEOD-18792 | biostudies-arrayexpress

Fundulus heteroclitus

Project description:The heat shock response of killifish (Fundulus heteroclitus): candidate gene and heterologous microarray approaches.

| PRJNA121195 | ENA

Fundulus heteroclitus

Project description:mRNA expression explains metabolic and thermal tolerance trait variation

| PRJNA796010 | ENA

Fundulus heteroclitus

Project description:MicroRNA profiling in Atlantic killifish (Fundulus heteroclitus)

| PRJNA290009 | ENA

MicroRNA profiling in Atlantic killifish (Fundulus heteroclitus)

Project description:The Atlantic killifish (Fundulus heteroclitus) is an ideal model species to study physiological and toxicological adaptations to stressors. Killifish inhabiting the PCB-contaminated Superfund site in New Bedford Harbor, MA (NBH) have evolved resistance to toxicity and activation of the aryl hydrocarbon receptor (AHR) signaling pathway after exposure to PCBs and other AHR agonists. Until recently, a lack of genomic information has limited efforts to understand the molecular mechanisms underlying environmental adaptation to stressors. The advent of high throughput sequencing has facilitated an unbiased assessment of coding as well as non-coding RNAs in any species of interest. Among non-coding RNAs, microRNAs (miRNAs) are important regulators of gene expression and play crucial roles in development and physiology. The objective of this study is to catalog the miRNAs in killifish and determine their expression patterns in the embryos from contaminated (NBH) and pristine (Scorton Creek, MA (SC)) sites. Embryos from NBH and SC were collected daily from 1 to 15 days post-fertilization and RNA from pooled samples from each site was sequenced using SOLiD sequencing. We obtained 7.5 and 11 million raw reads from pooled SC and NBH samples, respectively. Analysis of the sequencing data identified 216 conserved mature miRNA sequences that are expressed during development. Using the draft killifish genome, we retrieved the miRNA precursor sequences. Based on the capacity of these putative precursor sequences to form the characteristic hairpin loop (assessed using RNAfold), we identified 197 conserved miRNA sequences in the genome.

2015-07-20 | GSE70953 | GEO

Fundulus heteroclitus

Project description:expressed DNA sequences for the mummichog or Atlantic killifish

| PRJNA20109 | ENA

Fundulus heteroclitus

Project description:expressed DNA sequences for the mummichog or Atlantic killifish

| PRJNA20101 | ENA

Fundulus heteroclitus

Project description:The mummichog or Atlantic killifish inhabits tidal creeks of the Western Atlantic

| PRJNA20099 | ENA

Fundulus heteroclitus

Project description:A rapid transcriptome response is associated with desiccation resistance in aerially-exposed killifish embryos

| PRJNA120365 | ENA

Fundulus heteroclitus

Project description:Transcriptomic assessment of PCB-resistance in Atlantic killifish (Fundulus heteroclitus) embryos from a marine Superfund site

| PRJNA342319 | ENA

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