RNA seq of small intestine of Mus Musculus during A. ceylanicum infection
Strand-specific, dual unique indexed libraries for sequencing on all Illumina platforms were made using the NEBNext Ultra II RNA Library Prep Kit for Illumina (New England Biolabs, Ipswich, MA). The manufacturers protocol was modified by diluting adapter 1:30 and using 3 L of this dilution. The size selection of the library was performed with AMPure SPRI-select beads (Beckman Coulter Genomics, Danvers, MA). Glycosylase digestion of adapter and second strand was done in the same reaction as the final amplification to avoid further cleanups. Sample input for this method was PolyA enriched RNA. The resulting libraries were sequenced on an Illumina NovaSeq 6000 paired-end 100bp run.