Active transposable elements (TEs) generate insertion polymorphisms that can be 
detected through genome resequencing strategies. However, these techniques may 
have limitations for organisms with large genomes or for somatic insertions. 
Here, we present a method that takes advantage of the extrachromosomal circular 
DNA (eccDNA) forms of actively transposing TEs in order to detect and 
characterize active TEs in any plant or animal tissue. Mobilome-seq consists in 
selectively amplifying and sequencing eccDNAs. It relies on linear digestion of 
genomic DNA followed by rolling circle amplification of circular DNA. Both 
active DNA transposons and retrotransposons can be identified using this 
technique.