Chromosome-level genome assembly and manually-curated proteome of model necrotroph Parastagonospora nodorum Sn15 reveals a genome-wide trove of candidate effector homologs, and redundancy of virulence-related functions within an accessory chromosome

Table 2 Criteria used to predict the primary gene prediction set (Set A) for P. nodorum Sn15, and the secondary set (Set B) which contains low-confidence gene predictions for the purpose of extracting a small proportion of strong effector candidates

Criteria	Set A (high confidence)	Set B (putative)
CDS length Gene expression Orthology/Homology	> 300 bp / > 100 aa AND > 50 FPKM OR Orthology (reciprocal best hit) to previous annotation [20, 23]	(> 90 bp / > 30 aa AND > 5 FPKM) OR Homology to previous annotation set [20, 23]

ISSN: 1471-2164