Mat 3 Time 1 RNA
Bulk RNA was extracted using a TRIzol LS (ThermoFischer) extraction protocol on 250L homogenised sample volume per extraction. Ribosomal RNA (rRNA) was depleted using the NEBNext rRNA Depletion Kit (Bacteria; New England Biolabs), and cDNA templates were synthesised from rRNA-depleted pools using a modified protocol with the NEBNext Ultra II RNA Library Prep Kit for Illumina (New England Biolabs).