Mean nucleotide distance in CA fragment of <i>gag</i> gene among (inter-genotype) genotypes A and B of SRLV.

<p>Mean nucleotide distance in CA fragment of <i>gag</i> gene among (inter-genotype) genotypes A and B of SRLV.</p

Bayesian phylogenetic tree based on MA fragment.

<p>Sequences from this study are shown in bold and their names are preceded by the flock origin No. and the animal species (s–sheep; g–goat). Sequences of co-infection variant strains are indicated by a (‘) and (“).</p

Origins and characteristics of the Polish SRLV strains selected for genetic characterization.

<p>Origins and characteristics of the Polish SRLV strains selected for genetic characterization.</p

Bayesian phylogenetic tree based on CA fragment.

<p>Sequences from this study are shown in bold and their names are preceded by the flock origin No. and the animal species (s–sheep; g–goat). Sequences of co-infection variant strains are indicated by a (‘) and (“).</p

Bayesian phylogenetic tree based on V1/V2 SU fragment.

<p>Sequences from this study are shown in bold and their names are preceded by the flock origin No. and the animal species (s–sheep; g–goat). Sequences of co-infection variant strains are indicated by a (‘) and (“).</p

MOESM2 of Computational analysis of envelope glycoproteins from diverse geographical isolates of bovine leukemia virus identifies highly conserved peptide motifs

Additional file 2: Table S2. The conserved and semi-conserved segments in BLV envelope glycoprotein. A white color reflect segments highly conserved at the amino and nucleotide sequence levels, dark yellow color reflect segments conserved at the amino acid level. # The sequences are from MEME output and they reflect the nucleotides that are most frequent at these positions. For example, having a T in the output sequence does not mean that all gp51 env segments of BLVs will have a T nucleotide at that position. A [|] indicates more than one nucleotide is frequent at this position. A “-“ horizontal dashes between nucleotides denote the next codon. *The amino acid residues that are most frequent at these positions

The Molecular Characterization of Bovine Leukaemia Virus Isolates from Eastern Europe and Siberia and Its Impact on Phylogeny

<div><p>Recent studies have shown that bovine leukemia virus (BLV) sequences can be classified into seven distinct genotypes based on full gp51 sequence. This classification was based on available sequence data that mainly represented the BLV population that is circulating in cattle from the US and South America. In order to aid with a global perspective inclusion of data from Eastern Europe is required. In this study we examined 44 BLV isolates from different geographical regions of Poland, Belarus, Ukraine, and Russia. Phylogenetic analysis based on a 444bp fragment of <i>env</i> gene revealed that most of isolates belonged to genotypes 4 and 7. Furthermore, we confirmed the existence of a new genotype, genotype 8, which was highly supported by phylogenetic computations. A significant number of amino acid substitutions were found in the sequences of the studied Eastern European isolates, of which 71% have not been described previously. The substitutions encompassed mainly the C-part of the CD4+ epitope, zinc binding peptide region, CD8+ T cell epitope, and overlapping linear epitope E. These observations highlight the use of sequence data to both elucidate phylogenetic relationships and the potential effect on serological detection of geographically diverse isolates.</p> </div

Alignment of the partial amino acid <i>env</i> sequences from 44 BLV isolates.

<p>All newly found substitutions are marked with light grey fields. The labeled rectangles in the upper part of figure refer to the coding sequences of antigenic determinants and the black frame on alignment refer to the Zinc-binding peptide. The localization of 4, 7 and 8 BLV genotypes is represented by the black bars in the right part of figure. Dots indicate identity with BLV_FLK (M35242.1), which was used as reference in this work.</p

Bayesian phylogenetic tree based on 400 bp of <i>env</i> gene sequences of BLV isolates.

<p>Euroasian isolates are shown by name. Remaining strains in the tree are shown by accession number and country of origin. Numbers on nodes indicate posterior probabilities. Genotypes are indicated by vertical line.</p