Molecular variation of HC-Pro gene of Sugarcane streak mosaic virus
The objective of this study is to assess the molecular evolution and divergence of SCSMV according to HC-Pro gene sequences.The HC-Pro gene sequences of SCSMV were obtained by RT-PCR,and analyzed by bioinformatic software,in aspect of recombination,phylogenetics,selection,demography,and gene flow.In the present study,44 HC-Pro gene sequences were determined with a 70% lowest similarity;only one novel recombination site together with two previous reported sites were found in HC-Pro gene,suggesting that infrequent recombination events were distributed in this gene of SCSMV;one novel lineage (lineage Ⅲ) clustered by SCSMV sequences determined here was found;strong purifying selection was found in the HC-Pro gene of SCSMV.Our genetic study further indicates that the HC-Pro gene showed high genetic diversity in the genome of SCSMV.