Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Updating the genome of the African turquoise killifish (Nothobranchius furzeri)

PROVIDER: PRJNA1282602 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR34221554_subreads.fastq.gz	Fastqsanger.gz

Items per page:

1 - 1 of 1

Similar Datasets

Circular RNAs in the ageing African turquoise killifish

Project description:In this work we took 9 samples from brain and 6 samples from muscle of the African turquoise killifish (Nothobranchius furzeri) at 3.5, 8.5 and 14 weeks. Total RNA was sequenced and circRNAs were detected.

2019-07-31 | GSE134065 | GEO

Nothobranchius furzeri

Project description:Turquoise killifish (Nothobranchius furzeri) gut microbiota

| PRJNA379271 | ENA

Antibody repertoire sequencing reveals systemic and mucosal immunosenescence in the short-lived turquoise killifish

Project description:Aging individuals exhibit a pervasive decline in adaptive immune function, with important implications for health and lifespan. Previous studies have found a pervasive loss of immune-repertoire diversity in human peripheral blood; however, little is known about repertoire aging in other immune compartments, or in species other than humans. Here, we perform the first study of immune-repertoire aging in an emerging model of vertebrate aging, the African turquoise killifish (Nothobranchius furzeri). Despite their extremely short lifespans, these killifish exhibit complex and individualised heavy-chain repertoires, with a generative process capable of producing millions of distinct productive sequences. Whole-body killifish repertoires decline rapidly in within-individual diversity with age, while between-individual variability increases. Large, expanded B-cell clones exhibit far greater diversity loss with age than small clones, suggesting an important difference in the age-sensitivity of different B cell populations. Compared to the whole body, the immune repertoires of isolated intestinal samples exhibit much more dramatic age-related phenotypes, apparently due to an elevated prevalence of age-sensitive expanded clones. Our results highlight the importance of organ-specific dynamics in adaptive immunosenescence.

2026-03-30 | PXD029992 | Pride

Identification of retinal cell types within the ageing African turquoise killifish retina and their respective age-related transcriptional changes using scRNA-seq

Project description:The mammalian central nervous system (CNS) and its retina are susceptible to age-related patholgoies, resulting in progressive, irreversible diseases like glaucoma and age-related macular degeneration (AMD), which are increasingly prevalent with rising life expectancy. Currently, there are no targeted long-term therapies to prevent vision loss. The short lived African turquoise killifsh (Nothobranchius furzeri, GRZ-AD) is a valuable genetic model for ageing studies, displaying rapid ageing phenotypes within its four to six-month lifespan. Our investigation on the molecular consequences of ageing in the retina, employing scRNA-sequencing, shows a a comprehensive overview of the cellular heterogeneity of the killifish retina, uncovering age-related gene expression changes specific to certain retinal cell populations.

2024-08-21 | GSE255364 | GEO

Effect of ageing on gene expression in the African turquiose killifish retina

Project description:The mammalian central nervous system (CNS) is susceptible to age-related pathologies, resulting in progressive, irreversible disease. Neurodegenerative eye conditions, like glaucoma and age-related macular degeneneration (AMD), are on the rise due to increased life expectancy. Despite this, there are currently no long-term therapies to prevent degeneration and vision loss. The short-lived African turquoise kililfsh (Nothobranchius furzeri GRZ-AD) is an ideal genetic model for ageing studies, exhibiting rapid ageing phenotypes within its four to six-mont lifespan. Investigating the molecular consequences of ageing in the retina, we conducted bulk RNA-sequencing, revealing dysregulation of genetic pathways associated with ageing CNS and retinal diseas in the aged killifish retina.

2024-08-27 | GSE255363 | GEO

Nothobranchius furzeri strain:GRZ

Project description:Low coverage genome sequence of the turquoise killifish, Nothobranchius furzeri

| PRJNA29535 | ENA

Early immune cell development precedes gastrulation in annual killifish

Project description:Native to ephemeral pools in southeastern Africa that evaporate each dry season, the annual killifish, Nothobranchius furzeri (N. furzeri), evolved under intense selective pressure, producing a highly derived mode of early development. Following cleavage, deep blastomeres disperse as individual cells across the yolk surface, remaining independent until undergoing self-organized aggregation and germ layer formation. This dispersed phase lacks the tissue-level organization characteristic of other vertebrate embryos, providing an opporunity to investigate how lineage-specifying GRNs function in an altered morphogenetic environment. To investigate this question, we performed single cell RNA-sequencing on killifish embryos using PIP-seq technology, thereby producing the first coarse-grained atlas of early killifish embryogenesis. Here we show that primitive myelopoiesis, which in most studied vertebrates invariably develops from ventral mesodermal progenitor domains, is uncoupled from this tissue source in N. furzeri. Instead, neutrophils emerge prior to gastrulation. This rearrangement equips the African killifish with functional neutrophils before organogenesis begins, making it a striking example of developmental heterochrony.

2026-06-25 | GSE333732 | GEO

A cross-sectional study of gene expression in different strains of Nothobranchius furzeri

Project description:We quantified gene expression in three different strains of the short-lived killifish Nothobranchius furzeri during aging.

2023-10-24 | GSE207748 | GEO

RNA sequencing of gonad tissue of Nothobranchius furzeri at different age in males and females

Project description:Quantification of gene expression at different dvelopmental stages of the short-lived killifish Nothobranchius furzeri GRZ strain.

2024-04-15 | GSE263626 | GEO

Longitudinal RNA-Seq study of Nothobranchius furzeri fin biopsies

Project description:Here, we performed a longitudinal study of genome-wide gene expression in the short-lived killifish Nothobranchius furzeri (MZM-0410 strain) and correlated variations in transcript abundance at two time points during early adult life with age at death.

2020-06-24 | GSE150318 | 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