RNA-seq of Eimeria necatrix: unsporulated oocysts
cDNA fragments 250-300 bp in length were preferentially purified with the AMPure XP system (Beckman Coulter, Beverly, MA, USA). Finally, the correct length of the cDNA was ensured by running the DNA 1000 assay (Agilent) on the 2100 Bioanalyzer (Agilent). The index-coded samples were then processed on a cBotTM 2 Cluster Generation System (Illumina) using a TruSeq PE Cluster Kit v3-cBot-HS (Illumina) in accordance with the manufacturers instructions for clustering. Sequences of 125/150 bp paired-end reads were obtained in each lane using the Hiseq 2500 platform (Illumina).