Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Evolution of host defence in notothenioid fishes in the Antarctic Ocean

PROVIDER: PRJNA822876 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR18591656_1.fastq.gz	Fastqsanger.gz
	SRR18591656_2.fastq.gz	Fastqsanger.gz
	SRR18591657_1.fastq.gz	Fastqsanger.gz
	SRR18591657_2.fastq.gz	Fastqsanger.gz
	SRR18591658_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 35

Similar Datasets

Notothenioidei

Project description:Evolution in the Constant Cold: Varied Loss of the Cellular Response to Heat Stress Among Antarctic Notothenioid Fishes

| PRJNA368682 | ENA

RNA-seq across tissues in four Notothenioid species (Antarctic icefish)

Project description:We sequenced and assembled de novo the coding transcriptomes in four species of Notothenioid fish: Neopagetopsis ionah (Jonah’s ice fish), Pseudochaenichtys georgianus (South Georgia icefish), Harpagifer antarcticus (Antarctic spiny plunderfish) and Parachaenichthys charcoti (Charcot’s dragonfish). We sampled 1-4 individuals and 1-14 tissues (brain, white muscle, liver, head kidney, trunk kidney, skin, heart, red muscle, spleen, ovary, testis, whole blood, gill, red blood cells) in each species, depending on tissue availability.

2018-06-13 | E-MTAB-6759 | biostudies-arrayexpress

Lost in translation? Proteomic evidence for a muted molecular response to thermal stress in a stenothermal Antarctic fish and possible evolutionary mechanisms

Project description:Antarctic notothenioid fishes are noteworthy for their history of isolation and indications they lack the heat shock response. The mechanistic basis for stenothermy has not been fully elucidated, and some aspects of stenothermy could arise post-transcriptionally. Antarctic emerald rockcod (Trematomus bernacchii) were sampled after exposure to chronic and/or acute high temperatures, followed by assessment of proteomic responses in brain, gill, and kidney using tissue-specific DIA assay libraries. Few cellular stress response proteins were induced, and overall responses were modest in terms of numbers of differentially expressed proteins and their fold changes. Inconsistencies in protein induction across treatments and tissues are suggestive of dysregulation, rather than an adaptive response. Changes in regulation of translation in Antarctic notothenioids could explain these patterns. Some components of the “integrative stress response” that regulates translation are highly conserved (e.g., Ser-52 of eIF2α), but the eIF2α kinases GCN2 and PERK may have evolved along different trajectories in Antarctic fishes. Together, these observations suggest a novel hypothesis for stenothermy and the absence of a coordinated cellular stress response in Antarctic fishes.

2024-10-03 | PXD051983 | panorama

Notothenioid genomes

Project description:Antarctic notothenioid fish genomes project

| PRJEB53202 | ENA

Notothenioidei

Project description:Transcriptome sequencing of three Antarctic notothenioid species

| PRJNA80115 | ENA

Dynamic co-evolution of transposable elements and the piRNA pathway in East African cichlid fishes [smallRNA-seq]

Project description:East African cichlid fishes have diversified in an explosive fashion, but the (epi)genetic basis of the phenotypic diversity of these fishes remains largely unknown. Although transposable elements (TEs) have been associated with phenotypic variation in cichlids, little is known about their transcriptional activity and epigenetic silencing. Here, we describe dynamic patterns of TE expression in African cichlid gonads and during early development. Orthology inference revealed an expansion of piwil1 genes in Lake Malawi cichlids, likely driven by PiggyBac TEs. The expanded piwil1 copies have signatures of positive selection and retain amino acid residues essential for catalytic activity. Furthermore, the gonads of African cichlids express a Piwi-interacting RNA (piRNA) pathway that target TEs. We define the genomic sites of piRNA production in African cichlids and find divergence in closely related species, in line with fast evolution of piRNA-producing loci. Our findings suggest dynamic co-evolution of TEs and host silencing pathways in the African cichlid radiations. We propose that this co-evolution has contributed to cichlid genomic diversity.

2024-04-01 | GSE252804 | GEO

Seasonal RNAseq of Antarctic krill, Euphausia superba, from three different latitudinal regions of the Southern Ocean

Project description:The experiment aimed to investigate seasonal and regional differences in gene expression in Antarctic krill in three different latitudinal regions of the Southern Ocean with variable photoperiodic conditions: South Georgia (54°S), South Orkneys/Bransfield Strait (60°S-63°S) and Lazarev Sea (62°S -66°S). An RNAseq approach was used to test for (1) seasonal differences in gene expression between summer and winter krill from each region, and (2) regional differences in gene expression between the three different regional krill samples from each season. The RNAseq data was analysed with the goal to identify potential seasonal target genes with regulatory functions in the seasonal life cycle of Antarctic krill, focussing on genes related to regulation, reproduction, development and visual perception.

2020-08-12 | E-MTAB-7467 | biostudies-arrayexpress

Dynamic co-evolution of transposable elements and the piRNA pathway in East African cichlid fishes

2024-04-01 | GSE252805 | GEO

RNA-seq across tissues in four Notothenioid species (Antarctic icefish)

Project description:RNA-seq across tissues in four Notothenioid species (Antarctic icefish)

| PRJEB26835 | ENA

Lepidonotothen nudifrons spleen transcriptome

Project description:Spleen Transcriptome of the Antarctic Peninsula notothenioid fish Lepidonotothen nudifrons

| PRJEB8919 | ENA