library_construction_protocol: RNA from each sample was prepared with the Qiagen RNeasy mini kit (Qiagen) following manufacturer's guidelines. RNA was DNase treated with the TURBO DNase kit (Thermo Scientific) following standard manufacturer's guidelines Illumina stranded RNA library preparation with RiboZero Plus rRNA depletion at the Microbial Genome Sequencing Center (MiGS, Pittsburg, PA) following standard Illumina protocols.