Table 1.
Statistics of P. lycopersici ER1518 genome assembly.
Table 2.
Statistics of P. lycopersici ER1518 gene prediction.
Fig 1.
Heatmap of OrthoMCL orthologous groups for the most interesting Pfam protein and CAZymes domains identified in P. lycopersici ER1518 (PLY ER1518) and ten other fungal pathogens.
The heatmap represents the type and the number of domains (rows) for each fungus (columns). The Z-score indicates that the values have been centred and scaled by rows (domains), so that negative z-scores are more likely coloured in red and high z-scores in white. Abbreviations: PLY ER1211, P. lycopersici ER1211; AN, Aspergillus nidulans; BG, Blumeria graminis; CH, Colletotrichum higgisinianum; FO, Fusarium oxysporum; LM, Leptosphaeria maculans; NC, Neurospora crassa; PTT, Pyrenophora teres; PTR, Pyrenophora tritici-repentis; PN, Phaeospheria nodorum. CMB, Carbohydrate-Binding Modules; CE, carbohydrate esterases; GH, Glycoside Hydrolases; GT, Glycosyl-Transferases; PL, Polysaccharide Lyases; HET, HETerokaryon Incompatibility-related domains, NB-ARC, Nucleotide-Binding Adaptor shared by APAF-1, R proteins, and CED-4 domain; NACHT, Neuronal Apoptosis inhibitor; ANK, ankyrin; TPR, tetratricopeptide; ABC, ATP-Binding Cassette transporters; MFS, Major Facilitator domains.
Table 3.
Statistics of orthologous analysis performed with OrthoMCL.
Fig 2.
Phylogenetic tree of RPB2 protein of P. lycopersici ER1518 and other ten ascomycetes obtained with PhyML 3.0 and drawn with MEGA7.
The tree is drawn to scale, with bootstrap values on branches and branch lengths measured in the number of substitutions per site.
Fig 3.
Circular representation of genomic features.
Circular representation of the assembled sequences (length > 10Kb) of P. lycopersici ER1518 genome reporting the distribution of the following features: A) Repetitive elements count (blue); B) Gene density (green); C) Sequence identity percentage (red) of P. lycopersici ER1211 genomic sequences based on pairwise alignment between genome assemblies performed with MUMmer.
Table 4.
Statistics of repeat annotation and masking of P. lycopersici.
TE classes have been reported according to Wicker classification [10].
Fig 4.
Repeat content comparative analysis among P. lycopersici ER1518 and other five ascomycetes.
Histogram of percentages of different TE categories respect to the total annotated TEs reported for each species.