Presence of SMC domain in members of putative Fusariviridae family.

<p>Position of the SMC domain on the ORF2 and E-value is presented.</p

Phylogenetic tree of selected members of prokaryotic, eukaryotic, and viral SMC domains.

<p>Phylogenetic ML-tree with Poisson correction with 1000 replications generated from SMC and SMC-like amino acid sequences. sequences (all used organisms and accession numbers of the sequences are shown in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0187799#pone.0187799.s003" target="_blank">S3 Table</a>). Bootstrap values are given at the nodes.</p

Amino acid sequence identities (in %) of ORF1 (under the diagonal) and ORF2 (above the diagonal) between the SaFV1-containing isolates of <i>S</i>. <i>alkalinus</i>.

<p>Amino acid sequence identities (in %) of ORF1 (under the diagonal) and ORF2 (above the diagonal) between the SaFV1-containing isolates of <i>S</i>. <i>alkalinus</i>.</p

The genomic organization of SaFV1 compared to other viruses that possess structural maintenance of chromosomes domain.

<p>Boxes and lines represent open reading frames (ORFs) and non-coding sequences, respectively. Positions of polymerase (Pol, red), helicase (Hel, green), and structural maintenance of chromosomes (SMC, blue) domains are indicated. VP1-4 are structural proteins. Genomes are shown to scale.</p

The alkalophilic fungus <i>Sodiomyces alkalinus</i> hosts beta- and gammapartitiviruses together with a new fusarivirus - Fig 3

<p>Phylogeny of the <i>Sodiomyces</i> sp. based on the ITS rDNA sequences (A), with the origin location of dsRNA-containing strains and phylogeny of the SaFV1 isolates based on the whole genome sequence (B).</p

Phylogeny of SaPV1 and CtParV1-SAL in relation to other partitiviruses.

<p>ML phylogenetic tree generated from the CP amino acid sequence with 1000 bootstrap replicates.</p

Potential secondary structures of 3´end, and ORF1-ORF2 intergenic region of Sodiomyces alkalinus fusarivirus 1 (SaFV1).

<p>a) Potential secondary structures of 3´end (from 6183–6239 nucleotides) and b) ORF1-ORF2 intergenic region (from 4590 to 4659 nucleotides). The ΔG values (kcal/mol) were calculated using RNAfold program. UAA stop codons and AUG codon are marked.</p

Phylogenetic tree as inferred from the I-VII RdRp motifs of fusariviruses.

<p>Maximum likelihood tree generated using RdRp segments of motifs I to VII with 1000 bootstrap replicates. Plum pox virus was used as an outgroup. Presence of the SMC domain in ORF2 protein of fusariviruses is indicated with an asterisk. Bootstrap values above 50% are given next to the branches. Section marks (§) indicate proposed taxa.</p

Schematic representation of the putative genomic organization of fusariviruses.

<p>The boxes and lines represent open reading frames (ORFs) and non-coding sequences, respectively. Positions of polymerase (Pol, red), helicase (Hel, green), and structural maintenance of chromosomes (SMC, blue) domains are indicated. Genomes are shown to scale. The A(n) represents poly (A) tail. Sodiomyces alkalinus fusarivirus 1 –SaFV1, Fusarium graminearum virus—FgV1, Sclerotinia sclerotiorum fusarivirus 1—SsFV1, Alternaria brassicicola fusarivirus 1- AbFV1,—Nigrospora oryzae fusarivirus 1—NoFV1. Fusarium poae fusarivirus 1 –FpFV1, Pleospora typhicola fusarivirus 1 –PtFV1, Rosellinia necatrix fusarivirus 1 –RnFV1, Penicillium roqueforti ssRNA mycovirus 1 –PrRV1, Macrophomina phaseolina ssRNA virus 1 –MpRV1, and Penicilium aurantiogriseum fusarivirus 1 –PaFV1, have similar genome organization as SaFV1.</p

Comparative codon-usage analysis of viruses from <i>S</i>. <i>alkalinus</i>.

<p>Frequency of [XYG + XYC] of <i>S</i>. <i>alkalinus</i> was computed from codon frequencies of RPB2 and TEF1-alpha protein coding genes sequenced previously [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0187799#pone.0187799.ref001" target="_blank">1</a>], data for <i>Colletotrichum</i> sp. were from <a href="http://www.kazusa.or.jp/" target="_blank">http://www.kazusa.or.jp</a>.</p