Putative RFLP Analysis Between HSVd-sycv and Closely Related Variants

Yellow corky vein is a prevalent disease among navel oranges in the Fars province of Iran. Previously we showed that a variant of Hop stunt viroid (HSVd-sycv) was associated with the disease. It was closely related to citrus variant of HSVd from Japan (HSVd-cit8) and with 93.7% homology with lime yellow corky vein variant of HSVd (HSVd– lycv). In this study, putative RFLP (Restriction Fragment Length Polymorphism) analysis using Vector NTI program (version 9.0.0) showed that some restriction enzymes could cut HSVd-sycv but not HSVd-lycv. On the other hand, M.Ngo BIX and FauI which could cut HSVd-lycv at positions of nt 53 and 97, respectively, could not cut HSVdsycv. Likewise, some restriction enzymes could cut HSVd-cit8 but could not cut HSVd-sycv. Therefore these variants can be recognized by these restriction enzymes.