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Daphnia magna methylation and caloric restriction

ABSTRACT: Genome-wide Methylation Patterns Under Caloric Restriction in Daphnia magna.

PROVIDER: PRJEB24784 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2281820_1.fastq.gz	Fastqsanger.gz
	ERR2281820_2.fastq.gz	Fastqsanger.gz
	ERR2281830_1.fastq.gz	Fastqsanger.gz
	ERR2281830_2.fastq.gz	Fastqsanger.gz
	ERR2281840_1.fastq.gz	Fastqsanger.gz

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Daphnia magna nutritional transcriptomics

Project description:Differential expression in response to caloric restriction in Daphnia magna

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caloric restriction

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Daphnia magna exposed to narcotics and polar narcotics

Project description:This SuperSeries is composed of the following subset Series: GSE29854: Daphnia magna exposed to narcotics and polar narcotics - aniline GSE29856: Daphnia magna exposed to narcotics and polar narcotics - 4-chloroaniline GSE29857: Daphnia magna exposed to narcotics and polar narcotics - 3,5-dichloroaniline GSE29858: Daphnia magna exposed to narcotics and polar narcotics - 2,3,4-trichloroaniline GSE29862: Daphnia magna exposed to narcotics and polar narcotics - ethanol GSE29864: Daphnia magna exposed to narcotics and polar narcotics - isopropanol GSE29867: Daphnia magna exposed to narcotics and polar narcotics - methanol Refer to individual Series

2012-02-01 | E-GEOD-29993 | biostudies-arrayexpress

Genome-wide methylation is modified by caloric restriction in Daphnia magna.

Project description:BACKGROUND:The degradation of epigenetic control with age is associated with progressive diseases of ageing, including cancers, immunodeficiency and diabetes. Reduced caloric intake slows the effects of ageing and age-related disease in vertebrates and invertebrates, a process potentially mediated by the impact of caloric restriction on epigenetic factors such as DNA methylation. We used whole genome bisulphite sequencing to study how DNA methylation patterns change with diet in a small invertebrate, the crustacean Daphnia magna. Daphnia show the classic response of longer life under caloric restriction (CR), and they reproduce clonally, which permits the study of epigenetic changes in the absence of genetic variation. RESULTS:Global cytosine followed by guanine (CpG) methylation was 0.7-0.9%, and there was no difference in overall methylation levels between normal and calorie restricted replicates. However, 333 differentially methylated regions (DMRs) were evident between the normally fed and CR replicates post-filtering. Of these 65% were hypomethylated in the CR group, and 35% were hypermethylated in the CR group. CONCLUSIONS:Our results demonstrate an effect of CR on the genome-wide methylation profile. This adds to a growing body of research in Daphnia magna that demonstrate an epigenomic response to environmental stimuli. Specifically, gene Ontology (GO) term enrichment of genes associated with hyper and hypo-methylated DMRs showed significant enrichment for methylation and acyl-CoA dehydrogenase activity, which are linked to current understanding of their roles in CR in invertebrate model organisms.

| S-EPMC6408862 | biostudies-literature

Genome-wide DNA Methylation Patterns in Daphnia magna Reveal Targeting to 5’ Exons

Project description:Daphnia magna is a widely used model organism in ecological and evolutionary studies. DNA methylation in D. magna can influence development and adaptation to changing environments. Previous studies have demonstrated that D. magna is generally hypomethylated. In this study we confirmed these observations using whole genome bisulfite sequencing (WGBS). In line with previous studies we observe that DNA methylation is elevated in the first exons downstream of the transcription start sites (TSS). Moreover, these exons are hypermethylated compared to adjacent introns. In contrast to prior studies in Daphnia, we found no significant changes in DNA methylation with age. These observations extend our understanding of the epigenetic landscape in D. magna, and motivate further exploration of epigenetic regulation in this organism and its response to environmental factors.

2024-07-05 | GSE267859 | GEO

RNA-sequencing analysis of genetically identical female and male Daphnia magna with age

Project description:Comparison of female and male Daphnia magna gene expression with age. The sexes in Daphnia magna are genetically identical. The aim of this study was to identify possible differences in gene expression between genders with age.

2020-09-23 | GSE125466 | GEO

Daphnia magna

Project description:Daphnia magna gut microbiota

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Daphnia magna

Project description:Daphnia magna pool-seq

| PRJNA849360 | ENA

Daphnia magna

Project description:Genome sequencing Daphnia magna

| PRJNA344883 | ENA

Transgenerational DNA methylation changes in Daphnia magna exposed to chronic gamma radiation

Project description:DNA methylation epigenetic changes were analysed in Daphnia magna exposed for 25-day to chronic gamma irradiation compared to unexposed controls. Generation F0 were exposed to 6.5 μGy/h or 41.3 mG/h and let recoverd until the F3 generation without exposures to ionizing radiations. DNA-methylation patterns were analysed by WGBS on the whole organismes at the generation F0, F2 and F3 in order to detect possible transmission of DNA methylation changes to the progeny.

2018-03-01 | GSE108426 | GEO

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