Table 1  Annotation features for the four members of the Zymoseptoria species complex
Z. tritici   Z. pseudotritici   Z. ardabiliae   Z. brevis
Assembly
Assembly size (Mb)  39.7  32.7  31.5  31.9
No. of scaffolds  21  1164  868  6116
Previous annotation  New
annotation
Transcriptome reconstruction
No. of transcripts (de novo)  —  68,653  16,056  16,353  17,870
No. of transcripts (genome-guided)  —  73,127  19,076  20,193  15,331
No. of gene models  —  13,847  12,027  12,719  10,649
Gene annotation
No. of predicted gene models  10,952  11,839  11,044  10,787  10,557
No. of complete gene models  9397  11,795  10,957  10,686  10,342
No. of partial gene models  1555  44  87  101  215
No. of gene models with RNA-seq supporta  9423  10,048  7618  8297  9939
Average gene length (bp)  1599.8  1620.9  1594.3  1584.9  1592.8
Average transcript length (bp)  1388.8  1462.1  1459.4  1440.9  1462.5
Average protein length (aa)  436.6  487.8  488.0  482.0  487.5
No. of exons  28,309  30,068  26,699  26,231  25,367
Average exon length (bp)  505.7  575.2  604.7  593.7  608.1
Average no. of exons per gene  2.59  2.54  2.42  2.43  2.40
No. of introns  17,357  18,226  15,653  15,445  14,809
Average intron length (bp)  124.1  91.6  90.9  98.4  94.6
Average no. of introns per gene  2.27  2.27  2.16  2.16  2.16
No. of genes with introns  7654  8044  7234  7165  6883
Gene density (genes/Mb)  276.0  298.3  338.2  330.3  331.1
Functional annotation
% of predicted proteins  —  22.9  18.8  19.2  18.1
% of hypothetical proteins  —  31.3  31.2  31.4  32.8
% of similar to proteins  —  45.8  50  49.4  49.1
No. of secreted proteins  970b  874  838  965  700
No. of small secreted proteins (<300 aa)  441b  441  399  540  331
a  Based on alignment with reconstructed transcripts (e-value < 1e-5).
b  Extracted from Morais do Amaral et al. 2012.