Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Erosion into carbonate rock facilitates dispersal-mediated allopatric speciation in freshwater fishes

PROVIDER: PRJNA929083 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR23278800.fastq.gz	Fastqsanger.gz
	SRR23278801.fastq.gz	Fastqsanger.gz
	SRR23278802.fastq.gz	Fastqsanger.gz
	SRR23278803.fastq.gz	Fastqsanger.gz
	SRR23278804.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 116

Similar Datasets

Project description:The role of ecology in allopatric speciation of riverine fishes

| PRJNA1177478 | ENA

Project description:Erosion of heterogeneous rock drives diversification of Appalachian fishes

| PRJNA910655 | ENA

Transcriptomic profiles of Japanese medaka (Oryzias latipes) in response to alkalinity stress

Project description:Alkalinity stress is considered to be one of the major stressors for fish in saline-alkali water. Thus, it is of great significance from both aquaculture and physiological viewpoint to understand the molecular genetic response of aquatic organisms to alkalinity stress. The objective of this study is to determine genome-wide gene expression profiles to better understand the physiology response of medaka (Oryzias latipes) to high carbonate alkalinity stress. In lab-based cultures, adult fish were exposed to freshwater and high carbonate alkalinity water .We designed a microarray containing 26429 oligonucleotides and describe our experimental results for measuring gene expression changes in the gill of carbonate alkalinity stress exposed fish. The fish were exposed to freshwater (FW) and high carbonate alkalinity water (AW) for 96h, each with three replicates.

2014-01-24 | E-GEOD-27298 | biostudies-arrayexpress

Transcriptomic profiles of Japanese medaka (Oryzias latipes) in response to alkalinity stress

2014-01-24 | GSE27298 | GEO

Rapid speciation of cichlids fishes may be explained by evolutionary divergence of novel open reading frames

Project description:We have investigated whether we can understand the speciation of the cichlid fishes using proteogenomic approach. We have deposited both the RNA-Seq data and Mass Spectra data here. Details of methods carried out can be found in the Methods Section of the paper.

2021-09-09 | PXD019072 | Pride

Total RNA sequencing of the liver tissues of Oreochromis niloticus (Nile Tilapia) and of Pundamilia nyerei

Project description:Cichlids fishes exhibit extensive phenotypic diversification and speciation. In this study we integrate transcriptomic and proteomic signatures from two cichlids species, identify novel open reading frames (nORFs) and perform evolutionary analysis on these nORF regions. We embark comparative transrcriptomics and proteogenomic analysis of two metabolically active tissues, the testes and liver, of two cichlid species Oreochromis niloticus (Nile tilapia, ON) and Pundamilia nyererei (Makobe Island, PN). Our results suggest that the time scale of speciation of the two species can be better explained by the evolutionary divergence of these nORF genomic regions.

2021-05-17 | GSE150744 | GEO

RNA sequencing analysis during the DL3 formation of Bursaphelenchus xylophilus

Project description:DNA methylation is a pivotal process that regulates gene expression and facilitates rapid adaptation to challenging environments. The pine wood nematode (PWN; Bursaphelenchus xylophilus), the causative agent of pine wilt disease, survives and spreads at low temperatures through third-stage dispersal larvae, making it a major pathogen for pine wood in Asia. To comprehend the impact of DNA methylation on the formation and environmental adaptation of third-stage dispersal larvae, we conducted whole-genome bisulfite sequencing and transcriptional sequencing on both the third-stage dispersal larvae and three other stages propagative larvae of PWN.

2023-10-12 | GSE242182 | GEO

Whole genome bisulfite sequencing analysis during the DL3 formation of Bursaphelenchus xylophilus

2023-10-12 | GSE242181 | GEO

Drosophila

Project description:Genomic Signatures of Speciation in Sympatric and Allopatric Hawaiian picture-winged Drosophila

| PRJNA294585 | ENA

Proteomics support the threespine stickleback egg coat as a protective oocyte envelope

Project description:After the end of the last ice age, ancestrally marine threespine stickleback fish (Gasterosteus aculeatus) have undergone an adaptive radiation into freshwater environments throughout the Northern Hemisphere, creating an excellent model system for studying molecular adaptation and speciation. Stickleback populations are reproductively isolated to varying degrees, despite the fact that they can be crossed in the lab to produce viable offspring. Ecological and behavioral factors have been suggested to underlie incipient stickleback speciation. However, reproductive proteins represent a previously unexplored driver of speciation. As mediators of gamete recognition during fertilization, reproductive proteins both create and maintain species boundaries. Gamete recognition proteins are also frequently found to be rapidly evolving, and their divergence may culminate in reproductive isolation and ultimately speciation. As an initial investigation into the contribution of reproductive proteins to stickleback reproductive isolation, we characterized the egg coat proteome of threespine stickleback eggs. In agreement with other teleosts, we find that stickleback egg coats are comprised of homologs to the zona pellucida (ZP) proteins ZP1 and ZP3. We explore aspects of stickleback ZP protein biology, including glycosylation, disulfide bonding, and sites of synthesis, and find many substantial differences compared to their mammalian homologs. Furthermore, molecular evolutionary analyses indicate that ZP3, but not ZP1, has experienced positive Darwinian selection across teleost fish. Taken together, these changes to stickleback ZP protein architecture suggest that the egg coats of stickleback fish, and perhaps fish more generally, have evolved to fulfill a more protective functional role than their mammalian counterparts.

2021-05-26 | PXD017488 | Pride

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