Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Gill transcriptome assembly from 5 Unionida freshwater mussels: Margaritifera margaritifera, Unio crassus, Unio pictorum, Unio mancus and Unio delphinus

PROVIDER: PRJNA839062 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR19261764_1.fastq.gz	Fastqsanger.gz
	SRR19261764_2.fastq.gz	Fastqsanger.gz
	SRR19261765_1.fastq.gz	Fastqsanger.gz
	SRR19261765_2.fastq.gz	Fastqsanger.gz
	SRR19261766_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 10

Similar Datasets

“PALAEOSHELLOMICS” REVEALS THE USE OF FRESHWATER MOTHER-OF-PEARL IN PREHISTORIC ORNAMENTS.

Project description:Palaeoproteomics analysis of mollusc shells (Modiolus modiolus, Ostrea edulis, Unio pictorum, Margaritifera margaritifera, Unio crassus, Pseudunio auricularius) and shell ornaments (double-buttons) from Neolithic European sites (Havnø, Hornstaad-Hörnle IA, Peştera Ungurească).

2019-05-08 | PXD011985 | Pride

Transcriptomic responses of the endangered freshwater mussel Margaritifera margaritifera to trace metal contamination in the Dronne River, France

Project description:The freshwater pearl mussel Margaritifera margaritifera is one of the most threatened freshwater bivalves worldwide. In this study, we aimed (i) to study the processes by which water quality might affect freshwater mussels in situ and (ii) to provide insights into the ecotoxicological significance of water pollution to natural populations in order to provide necessary information to enhance conservation strategies. M. margaritifera specimens were sampled in two close sites located upstream or downstream from an illegal dumping site. The renal transcriptome of these animals was assembled and gene transcription determined by RNA-seq. Correlations between transcription levels of each single transcript and the bioaccumulation of 9 trace metals, age (estimated by sclerochronology) and condition index were determined in order to identify genes likely to respond to a specific factor. Amongst the studied metals, Cr, Zn, Cd and Ni were the main factors correlated with transcription levels, with effects on translation, apoptosis, immune response, response to stimulus and transport pathways. However, the main factor explaining changes in gene transcription appeared to be the age of individuals with a negative correlation with the transcription of retrotransposons-related genes. To investigate this effect further, mussels were classified into 3 age classes. In young, middle-aged and old animals, transcription levels were mainly explained by Cu, Zn and age, respectively. This suggests differences in the molecular responses of this species to metals during its lifetime that must be better assessed in future ecotoxicology studies.

2017-09-20 | GSE94542 | GEO

Unio pictorum

Project description:Unio pictorum overview

| PRJNA975228 | ENA

Unio delphinus

Project description:Unio delphinus overview

| PRJNA946835 | ENA

Unio pictorum

Project description:Unio pictorum Genome sequencing and assembly

| PRJNA940338 | ENA

Unio delphinus isolate:BIV7592

Project description:Unio delphinus isolate:BIV7592 Genome sequencing and assembly

| PRJNA917855 | ENA

Mytilus galloprovincialis, digestive gland and gill, exposed to Prorocentrum lima, producers of okadaic acid.

Project description:Differential expression analysis of digestive gland and gill tissues of mussels (Mytilus galloprovincialis) exposed to dinoflagellates (Prorocentrum lima), producers of okadaic acid, at a concentration of 200 cells/ml for one day. Each sample consists in total RNA was extracted from pooled tissues of 5 individuals.

2015-11-19 | GSE72817 | GEO

Transcriptomic analysis of trout gill ionocytes in freshwater and seawater using laser capture microdissection combined with microarray analysis

Project description:Fish gills represent a complex organ that perform multiple physiological functions and is composed of several cell types. Among these cells, ionocytes are implicated in the maintenance of ion homeostasis. However, because the ionocyte represents only a small percent of whole gill tissue, its specific transcriptome can be overlooked among the numerous cell types included in the gill. The objective of this study is to better understand ionocyte functions by comparing the RNA expression of this cell type in freshwater and seawater adapted rainbow trout. To realize this objective, ionocytes were captured from gill cryosections using laser capture microdissection after immunohistochemistry. Then, transcriptome analyses were performed on an Agilent trout oligonucleotide microarray. Gene expression analysis identified 108 unique annotated genes differentially expressed between freshwater and seawater ionocytes, with a gene fold higher than 3. Most of these genes were up regulated in freshwater cells. Interestingly, several genes implicated in ion transport, extracellular matrix and structural cellular proteins appeared up regulated in freshwater ionocytes. Among them, several ion transporters, such as CIC2, SLC26A6, and NBC, were validated by qPCR and/or in situ hybridization. The latter technique allowed us to localize the transcripts of these ion transporters in only ionocytes and more particularly in the freshwater cells. Genes involved in metabolism and also several genes implicated in transcriptional regulation, cell signaling and the cell cycle were also over-expressed in freshwater ionocytes. In conclusion, laser capture microdissection combined with microarray analysis allowed for the determination of the cell signature of scarce cells in fish gills, such as ionocytes, and aided characterization of the transcriptome of these cells in freshwater and seawater adapted trout.

2015-10-08 | GSE69409 | GEO

Gill transcriptomic analysis in fast- and slow-growing individuals of the mussel Mytilus galloprovincialis reared under a daily air exposure regime

Project description:Gill transcriptome of fast- and slow-growing mussels reared under continuous food supply was recently analysed in order to ascertain the differential gene expression underlying interindividual differences in growth rate. The present study aims to analyse the gene expression differences between fast- and slow-growing mussels submitted to an air exposure of 8 hours a day during the rearing period. Transcriptome will be also compared with their continuously submerged counterparts in order to analyse the effect of air exposure on the gene expression of fast- and slow-growing individuals.

2019-09-15 | GSE131910 | GEO

Divergent immunity and energetic programs in the gills of migratory and resident Oncorhynchus mykiss

Project description:To identify gene expression differences between Oncorhynchus mykiss that migrate and those that reside in freshwater, we compared gill transcriptomes of fish prior to release from a hatchery with those of fish recaptured eight days post-release while all fish were still in freshwater, but some were captured next to the hatchery (non-migrants) and others were captured moving toward the ocean (migrants). The in-hatchery sampling method represents a highly similar environment for all the fish, and allows for the determination of activated genes predictive of smolting programs prior to release into streams. Morphological (e.g. color) and physiological (gill NaCl-ATPase activity) data were also obtained and correlated to gene expression differences to aid in predictions.

2014-03-04 | GSE48844 | GEO

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