Copepodites, 1,2 dpi
RNA was extracted and purified by RNeasy micro kit (Qiagen) according to instructions in appendix C using Tri Reagent (Sigma Aldrich) for lysis. Homogenization was done using tissueLyser LT (Qiagen) using 1.4 mm zirconium oxide beads (Precellys 14). RNA samples were frozen at  80 C until analysis. Library preparation and sequencing were carried out at Fasteris SA (Geneva, Switzerland). Libraries were prepared for 50 bp single-end reads and were sequenced in multiplexed mode on Illumina HiSeq 2000 with up 10 million reads per sample, using Illuminas stranded RNA-seq protocol (TruSeq, with polyA selection) with forward direction primer.