GEO DataSets

(Submitter supplied) The mangrove killifish, Kryptolebias marmoratus, can reproduce with self-fertilisation, offering a unique and useful genetic tool for generation of genetic mutants and quick identification of mutated genes. From an ENU-mutated mangrove killifish line R228, we have isolated a novel mutant line, no-fin-ray/nfr in which homozygous mutant of adult fish fin ray development is largely reduced. Besides the reduction of the fin, the nfr mutant also exhibited other phenotype associated with ectodermal cell lineages including loss of scales, deformation in the gill structure such as decreasing the number of gill filaments, the reduction in the number of jaw teeth, pharyngeal teeth and gill rakers. more...

Organism:

Kryptolebias marmoratus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23686

12 Samples

Download data: FA, TSV

(Submitter supplied) The present study examined the effects of 0, 10, 100, and 1000 μg/L potassium perchlorate exposure on PGCs of medaka embryos and the expression pattern of genes that maintain PGCs integrity and epigenetic processes.

Organism:

Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25587

12 Samples

Download data: FPKM_TRACKING

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Aphyosemion australe; Iconisemion striatum; Nothobranchius furzeri; Austrofundulus limnaeus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

8 related Platforms

175 Samples

Download data

(Submitter supplied) We evaluate the global chromatin changes that occur during the developmental progression and development-to-diapause transition in a closely related set of killifish species.

Organism:

Austrofundulus limnaeus; Iconisemion striatum; Aphyosemion australe; Nothobranchius furzeri

Type:

Genome binding/occupancy profiling by high throughput sequencing

4 related Platforms

30 Samples

Download data: TXT

(Submitter supplied) We evaluate the global gene expression changes that occur during a stage-matched developmental window in a closely related set of killifish species.

Organism:

Aphyosemion australe; Iconisemion striatum; Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

4 related Platforms

145 Samples

Download data: CSV

(Submitter supplied) The function of germ cells in somatic growth and aging is demonstrated in invertebrate models but remains unclear in vertebrates. Here, we demonstrate sex-dependent somatic regulation by germ cells in the short-lived vertebrate model Nothobranchius furzeri. In females, germ-cell-removal shortened lifespan, decreased estrogen, and increased insulin-like growth factor 1 (IGF-1) signaling. In contrast, germ-cell-removal in males improved their health state with increased vitamin D signaling. more...

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32658

2 Samples

Download data: TSV, TXT

(Submitter supplied) Comparison of bulk RNA-Seq data from the livers of male and female medaka fish, in the BPA lineage vs control lineage of f2 generation, with publicly available human NAFLD-NASH patient data revealed that 20% of DEGs were mutually upregulated with those found in human NAFLD patients. Additionally, 27.69% of DEGs were mutually downregulated, and 52.31% of ancestral BPA-specific DEGs were expressed in the livers of female fish in the BPA lineage. more...

Organism:

Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27992

10 Samples

Download data: TSV

(Submitter supplied) In order to identify the effects of the absence of SEDL on Medaka transcriptome, we performed RNAseq experiments Transcriptome analysis of the liver of mice trated with CD95 activating antibody, compared with liver of mice trated with saline.

Organism:

Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21753

6 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27992

6 Samples

Download data: TXT

(Submitter supplied) Transcriptomic profile of Stage 40 Oryzias latipes (Medaka) embryos wild type and KO for SEDL

Organism:

Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27992

6 Samples

Download data: TXT

(Submitter supplied) Quantification of gene expression at different dvelopmental stages of the short-lived killifish Nothobranchius furzeri GRZ strain.

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19871

19 Samples

Download data: CSV

(Submitter supplied) Injury is a common occurrence in the life of most if not all organisms. Because injury and the extent of damage inflicted are not predictable events, pre-existing tissues must somehow determine how much tissue needs to be restored. It has been known for over a century that amputation position along a proximal-distal (P/D) axis determines the regeneration speed of amputated limbs in regeneration-competent animals1. more...

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL32658

32 Samples

Download data: H5, TXT

(Submitter supplied) 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. more...

Organism:

Astatotilapia calliptera; Tropheops sp. 'mauve'; Pundamilia nyererei; Haplochromis burtoni; Oreochromis niloticus; Maylandia zebra

Type:

Expression profiling by high throughput sequencing

6 related Platforms

40 Samples

Download data: TXT

(Submitter supplied) 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. more...

Organism:

Oreochromis niloticus; Haplochromis burtoni; Maylandia zebra; Astatotilapia calliptera; Pundamilia nyererei; Tropheops sp. 'mauve'

Type:

Non-coding RNA profiling by high throughput sequencing

6 related Platforms

31 Samples

Download data: TXT

(Submitter supplied) Adult humans respond to heart injury by forming a permanent scar, yet other vertebrates are capable of robust and complete cardiac regeneration. Despite progress towards characterizing the mechanisms of cardiac regeneration in fish and amphibians, the large evolutionary gulf between mammals and regenerating vertebrates complicates deciphering which cellular and molecular features truly enable regeneration. more...

Organism:

Danio rerio; Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL27992 GPL24995

22 Samples

Download data: MTX, TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL33195 GPL30852

51 Samples

Download data: CSV

(Submitter supplied) Classical evolutionary theories propose tradeoffs between reproduction, damage repair, and lifespan. However, the specific role of the germline in shaping vertebrate aging remains largely unknown. Here, we use the turquoise killifish (N. furzeri) to genetically arrest germline differentiation at discrete stages, and examine how different ‘flavors’ of infertility impact life-history. We first constructed a comprehensive single-cell gonadal atlas, providing cell-type-specific markers for downstream phenotypic analysis. more...

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33195

28 Samples

Download data: CSV

(Submitter supplied) This approach was used to increase the continuity of the killifish genome, and assess the relative distance of specific genes from the sex locus.

Organism:

Nothobranchius furzeri

Type:

Other

Platform:

GPL30852

2 Samples

Download data: FASTA, HIC

(Submitter supplied) In many vertebrate species, age at maturity is proportional to organismal lifespan. A number of theories have attempted to provide a conceptual framework for this fascinating apparent co-evolution. The ‘disposable soma’ theory predicts that costly resources that are invested in germline preservation come at the expense of repairing age-related somatic damage. On the other hand, classical experiments in C. more...

Organism:

Nothobranchius furzeri

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30852

23 Samples

Download data: CSV

(Submitter supplied) Expression profile of the brain (ventral part of telenchephalon, hypothalamus and pituitary) of medaka (Oryzias latipes) kept under constant photoperiodic conditions were obtained by RNA-seq analysis. Monthly transcriptomes under constant photoperiodic conditions identified 518 circannual genes.

Organism:

Oryzias latipes

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33470

20 Samples

Download data: XLSX