Putative recombination signature and significance of insertion/deletion events in the RNA-dependent RNA polymerase coding region of sugarcane yellow leaf virus

► We investigated the deletion/insertion region in ORF1 of SCYLV genome. ► The likely ORF1 plays a role in the replication and the variability among virus population. ► Identification possible recombination events located in the RdRp domain of the Hawaiian isolates. ► Haw73-6110 and Haw87-4094 isolate were recombinant and Haw87-4319 was not.