title: A.borealis A4 control 1
design: The libraries for Illumina sequencing were prepared using NEBNext Ultra II Directional RNA Library Prep Kit for Illumina (NEB, Ipswitch, MA, USA). Briefly, 100 ng RNA was enriched using RiboCop rRNA Depletion Kits (Lexogen, Austria). Thereafter, the RNA was fragmented, end prepped and adapter-ligated. Finally, the libraries were amplified according to the manufacturers instructions. The quality of the libraries was checked on Agilent 4200 TapeSation System using D1000 Screen Tape (Agilent Technologies, Palo Alto, CA, USA), the quantity was measured on Qubit 3.0. Illumina sequencing was performed on the NovaSeq 6000 instrument (Illumina, San Diego, CA, USA) with 2  151 run configuration. Raw RNA-Seq reads were aligned against the A. borealis (JGI: Armillaria borealis FPL87.14 v1.0)  genome using STAR v2.7 .5a. After alignment, the level of expression was estimated using RSEM v1.3.1