GSM8843250: Coculture_Exp_T2_B; Alteromonas macleodii; Thalassiosira pseudonana; RNA-Seq
Total RNA was extracted from 0.2 µm polycarbonate membrane filters using the Zymo Direct-zol RNA MiniPrep Plus kit for all samples. For T. pseudonana transcriptome ribodepletion calibration, three samples obtained from exponentially growing cells were prepared: Total RNA, poly(A) selected with oligo dT-beads (Dynabeads mRNA DIRECT Kit, Life Technologies), and ribodepleted using a tailored Thalassiosira pseudonana riboPOOL following the manufacturer's instructions. For Duo-RNA-seq, samples were prepared in triplicate for each time point and ribodepleted using the T.pseudonana riboPOOL combined with the Pan-Bacteria riboPOOL, with beads mixed in a 1:1 ratio. At this point, libraries were submitted for preparation, and sequencing to the Northwest Genomics Center (University of Washington) using a NextSeq (Illumina) platform.