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Age-associated DNA methylation changes in Xenopus frogs

ABSTRACT: Age-associated DNA methylation changes in Xenopus frogs

PROVIDER: PRJNA915337 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22878473_1.fastq.gz	Fastqsanger.gz
	SRR22878473_2.fastq.gz	Fastqsanger.gz
	SRR22878474_1.fastq.gz	Fastqsanger.gz
	SRR22878474_2.fastq.gz	Fastqsanger.gz
	SRR22878475_1.fastq.gz	Fastqsanger.gz

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Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

Project description:Here we present clear patterns of age-associated changes in DNA methylation in the aquatic vertebrate species Xenopus tropicalis. We selected approximately 3500 sites highly correlated with age from WGBS data from 9 frogs of 3 different age groups (young, approx. 1 year old; mature, approx. 5 years old; old, approx. 9 years old - GSE221656) and designed probes for the development of cost effective targeted bisulfite sequencing (TBSeq) assay. Here, we present the TBSeq assay in sixteen different frogs as a pilot experiment to validate our previous findings.

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Age-associated DNA methylation changes in Xenopus frogs, and Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

Project description:Age-associated DNA methylation changes in Xenopus frogs, and Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

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Age-associated DNA methylation changes in Xenopus frogs

Project description:Here we present clear patterns of age-associated changes in DNA methylation in the aquatic vetebrate species Xenopus tropicalis. We generated nine whole-genome bisulfite sequencing (WGBS) datasets from three distinct age groups (young, approx. 1 year old; mature, approx. 5 years old; old, approx. 9 years old) to characterize the gene- and chromosome-scale changes.

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Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

Project description:Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

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Age-associated DNA methylation changes in <i>Xenopus</i> frogs.

Project description:Age-associated changes in DNA methylation have been characterized across various animals, but not yet in amphibians, which are of particular interest because they include widely studied model organisms. In this study, we present clear evidence that the aquatic vertebrate species Xenopus tropicalis displays patterns of age-associated changes in DNA methylation. We have generated whole-genome bisulfite sequencing (WGBS) profiles from skin samples of nine frogs representing young, mature, and old adults and characterized the gene- and chromosome-scale DNA methylation changes with age. Many of the methylation features and changes we observe are consistent with what is known in mammalian species, suggesting that the mechanism of age-related changes is conserved. Moreover, we selected a few thousand age-associated CpG sites to build an assay based on targeted DNA methylation analysis (TBSseq) to expand our findings in future studies involving larger cohorts of individuals. Preliminary results of a pilot TBSeq experiment recapitulate the findings obtained with WGBS setting the basis for the development of an epigenetic clock assay. The results of this study will allow us to leverage the unique resources available for Xenopus to study how DNA methylation relates to other hallmarks of ageing.

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Age-associated DNA methylation changes in Xenopus frogs, and Targeted bisulfite sequencing to profile age-associated DNA methylation changes in Xenopus frogs

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-04-28 | GSE222108 | GEO

Xenopus frogs

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Expression data from Xenopus laevis liver

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