DNA sequence variation and methylation in an arsenic tolerant earthworm population

Kille, Peter; Andre, Jane; Anderson, Craig; Ang, Hui Na; Bruford, Michael W.; Bundy, Jacob G.; Donnelly, Robert; Hodson, Mark E.; Juma, Gabriela; Lahive, Elma; Morgan, A. John; Stuerzenbaum, Stephen R.; Spurgeon, David J. ORCID: https://orcid.org/0000-0003-3264-8760. 2013 DNA sequence variation and methylation in an arsenic tolerant earthworm population. Soil Biology and Biochemistry, 57. 524-532. https://doi.org/10.1016/j.soilbio.2012.10.014

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Official URL: http://dx.doi.org/10.1016/j.soilbio.2012.10.014

Abstract/Summary

Evidence is emerging that earthworms can evolve tolerance to trace element enriched soils. However, few studies have sought to establish whether such tolerance is determined through adaptation or plasticity. Here we report results from a combined analysis of mitochondrial (cytochrome oxidase II, COII), nuclear (amplified fragment length polymorphism, AFLP) variation and DNA methylation in populations of the earthworm Lumbricus rubellus from sites across an abandoned arsenic and copper mine. Earthworms from the mine site population demonstrated clear arsenic tolerance in comparison to a naïve strain. COII and AFLP results suggest that L. rubellus from the unexposed and the adapted populations comprises two cryptic lineages (Lineages A and B) each of which was present across all of the sites. AFLP analysis by lineage highlighted variations associated with soil metal/metalloid concentrations (most clearly for Lineage A) suggesting a genetic component to the observed tolerance. The methylation sensitive AFLP (Me-AFLP) identified a high genome methylation content (average 13.5%) in both lineages. For Lineage A, Me-AFLP analysis did not identify a strong association with soil arsenic levels. For Lineage B, however, a clear association of methylation patterns with soil arsenic concentrations was found. This suggests that Lineage B earthworms utilise epigenetic mechanisms to adapt to the presence of contamination. These fundamentally different genetic adjustments in the two clades indicate that the two lineages employ distinct adaptive strategies (genetic or epigenetic) in response to arsenic exposure. Mechanisms driving this variation may be founded within the colonisation histories of the lineages.

Item Type:	Publication - Article
Digital Object Identifier (DOI):	https://doi.org/10.1016/j.soilbio.2012.10.014
Programmes:	CEH Topics & Objectives 2009 - 2012 > Biodiversity
UKCEH and CEH Sections/Science Areas:	Acreman
ISSN:	0038-0717
Additional Keywords:	arsenic tolerance, cryptic lineages, adaptive variation, DNA methylation, epigenetics
NORA Subject Terms:	Ecology and Environment
Date made live:	17 Oct 2013 16:04 +0 (UTC)
URI:	https://nora.nerc.ac.uk/id/eprint/503549

Item Type:

Publication - Article

Digital Object Identifier (DOI):

https://doi.org/10.1016/j.soilbio.2012.10.014

Programmes:

CEH Topics & Objectives 2009 - 2012 > Biodiversity

UKCEH and CEH Sections/Science Areas:

Acreman

ISSN:

0038-0717

Additional Keywords:

arsenic tolerance, cryptic lineages, adaptive variation, DNA methylation, epigenetics