Molecular Characterization of Polyprotein genes of Two BCMV (Bean common mosaic potyvirus) isolates in Antalya (Turkey) and Their Genomic Divergence

Abstract

Common bean (Phaseolus vulgaris L.) is regarded as one of the most important crops of the Fabaceae family throughout the world. Diseases caused by viruses are the most important factor limiting the production of beans. Bean specimens with classic virus-like symptoms were collected from bean fields in Antalya (Turkey) in July and August, 2018. BCMV was examined by RT-PCR test (Reverse Transcriptase -Polymerase Chain Reaction) using appropriate primer pairs directed to the partial NIb and the capsid protein (CP) gene which was devised to identify and to characterize the viral agent. The PCR test produced approximately 850 bp amplicon of expected lengths in 11 out of 20 fresh leaf tissues, indicating the presence of BCMV. Two of them were randomly selected and molecularly cloned into a congruent plasmid vector to reveal the CP sequences of interested isolates. Obtained recombinant clones consisting of insert genes were bidirectionally sequenced and both of the sequences were registered in the GenBank with MN104839 and MN104840 accession number. The provided BCMV partial CP gene sequences comprised 823 bp coding for 274 amino acid residues. The CP gene of these isolates was aligned with those of 17 isolates deposited in the GenBank database from different geographical location and its phylogenetic relationships were determined. Molecular analysis of the CP gene sequences of Antalya isolates showed the highest identity rates between 91.22 % and 94.71 %, at the nucleotide level. Moreover, phylogenetic analyses revealed that BCMV-Antalya 1 and Antalya 10 are best clustered with the Turkish isolate (KT766179) and England isolate (AY112735), respectively. By this study, the genetic difference of BCMV isolates have been determined in the bean plant from Antalya province of Turkey.