eccDNA-seq of TRV2 V0 plant
Enrichment of eccDNA fraction was performed according to the protocol previously described in Merkulov et al 2024. (https://doi.org/10.1186/s12864-024-10314-1). To reduce the proportion of linear DNA sequences in total plant DNA samples, exonuclease treatment was performed with Plasmid Safe ATP dependent Exonuclease (LGC Biosearch Technologies, E3101K, Beverly, MA, USA). Each sample was then used for eccDNA amplification by rolling circle amplification with phi29 DNA polymerase (Thermo Scientific, EP0091, Waltham, MA, USA). Next, 500 ng of the RCA product was used for the debranching step with T7 endonuclease (New England Biolabs, M0302S, Ipswich, MA, USA.
SUB16327550
TRV2_empty_V0_eccDNA_1