Genetic analysis of Iranian population of Potato leafroll virus based on ORF0.
Potato leafroll virus (PLRV) is a destructive virus of potatoes and responsible for high yield losses wherever potatoes are grown. In this study, DNA fragments containing ORF0 from each of nine PLRV isolates was sequenced. Sequence analysis data using 36 isolates from 12 different countries including 14 Iranian isolates showed that the identities of ORF0 at both nucleotide and amino acid levels between the Iranian isolates were 96-100 % and these isolates were more similar to the European PLRV isolates than to the other isolates. Furthermore, phylogenetic and population genetic analysis were carried out on the basis of full-length ORF0 and overlapping and non-overlapping regions of ORF0 and ORF1 (ORF0/1) which revealed that PLRV isolates were not geographically resolved. Also, we identified negative selection with different ratios for each of the mentioned genomic regions suggesting effects of F-box motif and -1 frameshift on ORF0 non-overlapping region and ORF0/1 in the selection pressure, respectively. Five recombination events were detected in the Iranian, Australian, and European isolates suggesting an important role for this phenomenon in influencing genetic diversity within this virus population.
Department of Plant Pathology, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran.
Shaheen Nourinejhad
SN
Zarghani
Masoud
M
Shams-Bakhsh
Neda
N
Zand
Nemat
N
Sokhandan-Bashir
Maghsoud
M
Pazhouhandeh
D001483:Base Sequence; D003001:Cloning, Molecular; D004797:Enzyme-Linked Immunosorbent Assay; D004926:Escherichia coli / Q000235:genetics / Q000378:metabolism; D014644:Genetic Variation; D007492:Iran; D052679:Luteoviridae / Q000145:classification / Q000235:genetics* / Q000472:pathogenicity; D016366:Open Reading Frames; D010802:Phylogeny; D010935:Plant Diseases / Q000821:virology; D018515:Plant Leaves / Q000821:virology; D012367:RNA, Viral / Q000235:genetics*; D011995:Recombination, Genetic; D012641:Selection, Genetic; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D011198:Solanum tuberosum / Q000821:virology*
D012367:RNA, Viral