1) The study analyzed epigenetic variation in shoots from a 1000-year old clone of the seagrass Zostera marina in the Baltic Sea. 2) While all 34 shoots sampled along a 250m transect were genetically identical based on microsatellite analysis, they showed epigenetic differences in cytosine methylation patterns. 3) Epigenetic variation between shoots was independent of their distance from shore and not correlated with geographic distance, suggesting epigenetic variation is not spatially structured within this clonal meadow.