Illlumina sequencing of mRNA, greenhouse experiment
rRNA was subtracted following the protocol described by Stewart et al. (2010). After subtraction, a 227 bp control RNA transcribed from the pSPT18 vector (positions 2867-3104 and 1-70) was added in a 1:2000 ratio (on a nanogram basis) to the total rRNA-subtracted RNA. This mixture was then reverse-transcribed using the SuperScript III kit (Invitrogen). illumina libraries were prepared following the protocol of Meyer and Kircher (2010), with indices 1 to 24 pooled together and sent for eight lanes of Illumina HiSeq 2000 paired-end 2x101 bp sequencing at McGill University and G*nome Qu*bec Innovation Center, Montr*al, Canada.