GSE135591
The transcriptome of  larval carcasses from both wildtype and Nxt1 trans-heterozygotes
The transcriptome of  larval carcasses from both wildtype and Nxt1 trans-heterozygotes were assessed by RNA-Seq. A total of 1821 genes were down-regulated and 1339 genes were up-regulated. Down-regulated genes had a higher total intron length and had more introns, while up-regulated genes had a lower total intron length and less introns when compared to the non-differentially expressed genes. The majority of down-regulated genes were involved in the production of circular RNAs (circRNAS). We further investigated circRNA expression in larval carcasses from both wildtype and Nxt1 trans-heterozygotes by sequencing total RNA after RNAseR treatment. RNAseR digests linear RNA and thus enriches for circRNAs. Mock samples without RNAseR treatment were also sequenced. We found that circRNA products of Nxt1-responsive genes are reduced in Nxt1 mutants, although the nascent transcripts of these genes are produced at normal levels. Overall design: To assess the effect of Nxt1 on circRNA expression, we sequenced and analysed total RNA with and without RNAseR treatment from Nxt1 trans-heterozygotes and wildtype larval carcasses. All samples were sequenced in triplicates. We analysed pre-mRNA:mRNA:circRNA ratios, as well as the different CircRNA structures formed.