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

Hearn, Jack ORCID: https://orcid.org/0000-0003-3358-4949, Pearson, Marianne, Blaxter, Mark, Wilson, Philip J. and Little, Tom J. (2019) 'Genome-wide methylation is modified by caloric restriction in Daphnia magna'. BMC Genomics, Vol 20, Issue 1, e197.

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Abstract

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.

Item Type:	Article
Subjects:	QU Biochemistry > Genetics > QU 475 Genetic processes QU Biochemistry > Proteins. Amino Acids. Peptides > QU 58.5 DNA. QW Microbiology and Immunology > Environmental Microbiology > QW 70 Veterinary microbiology QX Parasitology > QX 4 General works
Faculty: Department:	Biological Sciences > Vector Biology Department
Digital Object Identifer (DOI):	https://doi.org/10.1186/s12864-019-5578-4
Depositing User:	Stacy Murtagh
Date Deposited:	21 Mar 2019 16:43
Last Modified:	07 Jun 2022 11:11
URI:	https://archive.lstmed.ac.uk/id/eprint/10434

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