Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Bacterial communities associates with Pacific oysters

ABSTRACT: 16S amplicon sequences of bacteria associated with the Pacific oyster, Crassostrea gigas, at two farms in Ireland

PROVIDER: PRJEB52444 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Transcriptome sequencing of Pacific oyster Crassostrea gigas

Project description:Deep sequencing of mRNA from Pacific oyster Crassostrea gigas

2014-07-26 | GSE31011 | GEO

miRNA of Pacific oyster Crassostrea gigas for different organs and developmental stages

Project description:miRNA sequencing of Pacific oyster Crassostrea gigas for different organs and developmental stages.

2014-07-26 | GSE31009 | GEO

RNA-seq of Pacific oyster Crassostrea gigas under different developmental stages and stress treatments

Project description:Deep sequencing of samples from different development stages, different adult organs and different stress treatments of Pacific oyster Crassostrea gigas

2012-09-13 | GSE31012 | GEO

Transcriptome sequencing of Pacific oyster Crassostrea gigas

Project description:Deep sequencing of mRNA from Pacific oyster Crassostrea gigas Competent larvae of Crassostrea gigas were treated with epinephrine solution, and then sampled at different time intervals. For shell damage experiment, shell were broken and then tissues were sampled at different time intervals.

2014-07-26 | E-GEOD-31011 | biostudies-arrayexpress

Transcriptomic response of the Pacific oyster Crassostrea gigas to hypoxia

Project description:Marine intertidal organisms commonly face hypoxic stress during low tide emersion; moreover, eutrophic conditions and sediment nearness could lead to hypoxic phenomena; it is indeed important to understand the molecular processes involved in the response to hypoxia. In this study the molecular response of the Pacific oyster Crassostrea gigas to prolonged hypoxia (2 mg O2 L-1 for 20 d) was investigated under experimental conditions. A transcriptomic approach was employed using a cDNA microarray of 9058 C. gigas clones to highlight the genetic expression patterns of the Pacific oyster under hypoxic conditions. Lines of oysters resistant (R) and susceptible (S) to summer mortality were used in this study. This is the first study employing microarrays to characterize the genetic markers and metabolic pathways responding to hypoxic stress in C. gigas.

2010-09-01 | GSE23883 | GEO

miRNA of Pacific oyster Crassostrea gigas for different organs and developmental stages

Project description:miRNA sequencing of Pacific oyster Crassostrea gigas for different organs and developmental stages. Two RNA pools were created and sequenced by mixing the samples before and after the developmental stage "D shaped larvae". Then ten developmental samples and eleven samples from 7 organs were sequenced.

2014-07-26 | E-GEOD-31009 | biostudies-arrayexpress

Affymetrix SNP array data for the Pacific oyster

Project description:The Pacific oyster (Crassostrea gigas) is a kind of marine bivalve of great economic and ecological importance and is among the animals possessing the highest level of genome DNA variations. Despite large efforts made for the discovery of Pacific oyster SNPs in many research groups, challenge still remains as how to utilize SNPs in a high-throughput, transferable and economical manner. In the study, we constructed an oyster 190K SNP array with Affymetrix Axiom genotyping technology. A total of 190,420 SNPs were designed on the chip, which were selected from 54 M SNPs identified by re-sequencing of more than 400 Pacific oysters. Genotyping results from 96 wild oysters indicated that 133,984 (70.4%) SNPs were polymorphic and successfully converted on the chip. Carrying 133K polymorphic SNPs, the oyster 190K SNP array is the first high density SNP chip with the largest throughput currently in mollusc and is commercially available to the worldwide research community.

2017-03-22 | GSE94633 | GEO

Identification of HSF1- target genes involved in thermal stress in the Pacific oyster Crassostrea gigas by ChIP-seq

Project description:The Pacific oyster Crassostrea gigas, a commercially important species inhabiting the intertidal zone, can tolerate temperature fluctuations. Heat shock transcription factor 1 (HSF1) plays an important role in the process of resistance of thermal stress. However, HSF1 has not been fully characterized in the Pacific oyster. C. gigas with an expansion of heat shock protein (HSP) 70. In this study, we analyzed genes regulated by HSF1 in response to heat shock by Chromatin immunoprecipitation followed sequencing (ChIP-seq), determined the expression patterns of target genes by qRT-PCR, and validated the regulatory relationship between one HSP70 and HSF1. We found 916 peaks corresponding to specific binding sites of HSF1, and peaks were annotated to nearest genes. In Gene Ontology analysis, HSF1 target genes was related to signal transduction, energy production, and response to biotic stimulus. Four HSP70 genes, two HSP40 genes, and one small HSP gene exhibited binding to HSF1. One HSP70 with a binding site in the promoter region was validated to be regulated by HSF1 under heat shock. These results provide a basis for future studies aimed at determining the mechanisms underlying thermal tolerance and provide insights into gene regulation in the Pacific oyster.

2020-10-16 | GSE138959 | GEO