Single-nucleotide polymorphisms in isolates Pyricularia oryzae isolates from rice and other hosts

We investigated the presence of inter-lineage hybrids in a set of 886 isolates of the rice-infecting lineage of the rice blast fungus (Pyricularia oryzae).

More details in https://doi.org/10.1101/2020.06.02.129296

List of files:

concatenation_5190SCOs_179isolates.fasta.gz: concatenated sequences of 5190 single copy orthologs from 179 isolates (used in Figures A and B, and computations of polymorphism and divergence in Appendix 1).

concatenation_3686SNPs_415isolates.fasta.gz: concatenated polymorphisms identified in 415 isolates at 3686 genomic positions (used in Figure C, Appendix 1).

concatenation_503889SNPs_96isolates.fasta.gz: concatenated polymorphisms identified in 96 isolates at 503889 genomic positions (used in Figures D and E, Appendix 1).

orthology_table_with_70-15_genemodels.txt: Orthology table, with one orthogroup per line, one species per column, 16445 orthogroups, 179 isolates. The MGG column represents gene models from the 70-15 reference genome MG8, determined subsequently to orthology analysis by blastx of 70-15 sequences against isolate VT0027, which was the closest isolate in a neighbor-net network.