Fig 1.
Schematic representation of the genomes of Apricot vein clearing associated virus (AVCaV, reference isolate and Pair isolate), Caucasus prunus virus (Aze204 agent) and Citrus leaf blotch virus (CLBV).
The size in amino acids of the encoded proteins is indicated between brackets. The four genomes are aligned on the basis of the C-ter of the polymerase. The hatched boxes represent parts of the Pol and MP genes which are either absent or not expressed, respectively, in the AVCaV reference isolate but present and expressed in the Iran1, Pair and 13025 isolates. The black arrows represent the amplified fragments using the two primer pairs Pol-F1/R1 and NB-F1/R1. MP, Movement protein; CP, Coat protein; NB, Nucleic acid binding protein.
Fig 2.
Phylogenetic analysis of the polymerase amino acid sequences of representative species in the Alphaflexiviridae and Betaflexiviridae families.
The abbreviations of virus names are given in S3 Table. The families to which each virus belongs are indicated at the right. The isolates of AVCaV, CLBV and CPr VAze204 are indicated in bold. The trees were constructed by the neighbour-joining method from strict amino acid identity distances and the statistical significance of branches was evaluated by bootstrap analysis (1,000 replicates). Only bootstrap values higher than 70% are indicated. The scale bars represent 10% amino acid divergence.
Fig 3.
Phylogenetic analysis of the movement protein amino acid sequences of representative species in the family Betaflexiviridae.
The abbreviations of virus names are given in S3 Table. The isolates of AVCaV, CLBV and CPrV Aze204 are indicated in bold. The trees were constructed by the neighbour-joining method from strict amino acid identity distances and the statistical significance of branches was evaluated by bootstrap analysis (1,000 replicates). Only bootstrap values higher than 70% are indicated. The scale bars represent 10% amino acid divergence.
Fig 4.
Phylogenetic analysis of the coat protein amino acid sequences of representative species in the family Betaflexiviridae.
The abbreviations of virus names are given in S3 Table. The type of the movement protein (30K-type or Triple Gene Block, TGB) to which each virus belongs are indicated at the right. The isolates of AVCaV, CLBV and CPrV Aze204 are indicated in bold. The trees were constructed by the neighbour-joining method from strict amino acid identity distances and the statistical significance of branches was evaluated by bootstrap analysis (1,000 replicates). Only bootstrap values higher than 70% are indicated. The scale bars represent 10% amino acid divergence.
Table 1.
Percentage of identity of genes and encoded proteins of the new agent identified in the Aze204 Prunus source with the corresponding genes and proteins of Betaflexiviridae members with a 30K-type movement protein.