Fig. 1

a Synteny map showing synteny between each of 11 putative core chromosomes that were mapped to Fusarium oxysporum f. sp. lycopersici (reference strain). Most of the putative twelfth chromosome (putative lineage-specific DNA) denoted as LSX_44 for F. oxysporum f. sp. koae 44 (Fo koae 44) and LSX_170 for F. oxysporum 170 (Fo 170) does not show synteny between the pathogen and non-pathogen and did not map to the reference strain. This lack of synteny on the putative twelfth chromosome is indicative of lineage-specific DNA, putatively containing conditionally dispensable, accessory chromosomes. b Distribution of variants (single nucleotide polymorphisms, SNPs) comparing the putative chromosomes of the koa wilt pathogen Fo koae 44 and non-pathogenic Fo 170. Darker bars indicate more SNPs identified in that region. Putative chromosomes 11, 12, 13, and putative lineage-specific DNA (ChromosomeX; LSX) show the highest SNP densities