Bisulfite sequencing (RRBS-seq): CpG methylation reports for Australian invasive cane toads

Sarma, Roshmi Rekha, UNSW Sydney, https://orcid.org/0000-0003-3389-6416

Crossland, Michael R, UNSW Sydney

Eyck, Harrison J.F, UNSW Sydney

DeVore, Jayna L, University of Sydney

Edwards, Richard J, UNSW Sydney

Cocomazzo, Michael, Deakin University

Zhou, Jia, UNSW Sydney

Brown, Gregory P, Macquarie University

Shine, Richard, Macquarie University

Rollins, Lee Ann, UNSW Sydney

r.sarma@unsw.edu.au, l.rollins@unsw.edu.au

Publication date: March 23, 2021

Publisher: Dryad

https://doi.org/10.5061/dryad.pk0p2ngmv

Citation

Sarma, Roshmi Rekha et al. (2021), Bisulfite sequencing (RRBS-seq): CpG methylation reports for Australian invasive cane toads, Dryad, Dataset, https://doi.org/10.5061/dryad.pk0p2ngmv

Abstract

In response to novel environments, invasive populations often evolve rapidly. Standing genetic variation is an important predictor of evolutionary response but epigenetic variation may also play a role. Here we use an iconic invader, the cane toad (Rhinella marina), to investigate how manipulating epigenetic status affects phenotypic traits. We collected wild toads from across Australia, bred them, and experimentally manipulated DNA methylation of the subsequent two generations (G1, G2) through exposure to the DNA methylation inhibitor zebularine and/or conspecific tadpole alarm cues. Direct exposure to alarm cues (an indicator of predation risk) increased the potency of G2 tadpole chemical cues, but this was accompanied by reductions in survival. Exposure to alarm cues during G1 also increased the potency of G2 tadpole cues, indicating intergenerational plasticity in this inducible defence. In addition, the negative effects of alarm cues on tadpole viability (i.e., the costs of producing the inducible defence) were minimised in the second generation. Exposure to zebularine during G1 induced similar intergenerational effects, suggesting a role for alteration in DNA methylation. Accordingly, we identified intergenerational shifts in DNA methylation at some loci in response to alarm cue exposure. Substantial demethylation occurred within the Sodium Channel Epithelial 1 Subunit Gamma gene (SCNN1G) in alarm cue-exposed individuals and their offspring. This gene is a key to regulation of sodium in epithelial cells and may help to maintain the protective epidermal barrier. These data suggest that early-life experiences of tadpoles induce intergenerational effects through epigenetic mechanism, which enhance larval fitness.

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Funding

Australian Research Council, Award: DP160102991

Australian Research Council, Award: DE150101393