Previous studies reported that symbiont endophytic fungi are widely distributed in all tissues of tobacco plants and played important roles. It is therefore important to determine the species distribution and characteristics of endophytic fungi in tobacco. Here, two parasitic fungi Leptosphaerulina chartarum and Curvularia trifolii were isolated from normal tobacco tissue, then were used to sequence their nuclear and mitogenomes. Finally, we yield 41.68 Mb and 37.95 Mb nuclear genome for C. trifolii and L. chartarum with the contig N50 as 638.94 Kb and 284.12 Kb, respectively. The average GC content of these two species were 49.74% and 50.64%. And the C. trifolii and L. chartarum mitochondrial genomes were 68,926 bp and 59,100 bp long circular molecules with average GC contents of 28.60% and 29.31%, respectively. In order to gain additional evidence for the classification of C. trifolii and L. chartarum, we calculated the evolutionary rate of 7 nuclear and 12 mitochondrial genes and then performed phylogenetic analyses. The results showed that the phylogenetic trees performed by combining nuclear and mitochondrial genes showed similar topologies, only existing tiny difference. Combined with our studies, we further confirmed that the phylogenetic relationships of endophytic fungi in tobacco is better to construct based on the datasets of multi-protein coding genes either from nuclear or mitochondrial genomes. These data therefore provide an understanding of the gene content and evolutionary history of species within the Pleosporales.

Two parasitic fungi Leptosphaerulina chartarum and Curvularia trifolii were isolated from normal tobacco tissue, then were used to sequence their nuclear and mitogenomes on Illumina platform.