GSE65565 Next-generation sequencing analysis of Piwi-interacting RNAs (piRNAs) in Drosophila wild-type and bel mutant ovaries

Contributors : Pang-Kuo Lo ; Yi-Chun Huang ; Wu-Min DengSeries Type : Non-coding RNA profiling by high throughput sequencingOrganism : Drosophila melanogasterBelle has been known to be co-localized with piRNA-related proteins at the nuage of germline cells during Drosophila oogenesis. However, its role in piRNA biogenesis remains unclear. To reveal whether Belle is involved in regulating piRNA expression, we performed next-generation sequencing analysis of small non-coding RNAs on ovaries harvested from the wild type (W1118) and trans-heterozygous bel[74407/neo30] mutant. Small RNA-seq experiments were performed on three individual ovary samples with the same genotype. For piRNA expression analysis, we performed mapping of three sets of small RNA sequencing reads for each genotype to previously identified eight distinct piRNA clusters located in four different Drosophila chromosomes (from X to 4). Analysis of the piRNA expression profiling from these piRNA cluster loci indicates that some specific piRNA populations were either upregulated or downregulated in bel mutant ovaries compared with wild-type ovaries. Furthermore, we performed systematic analysis by mapping piRNA sequencing reads to sequences of all identified Drosophila transposable elements (TEs) to classify and measure piRNA reads based on their TE targets. Among 124 TE-classified piRNA populations, 9 and 20 of them were upregulated and downregulated ( ≥2 folds), respectively, in bel74407/neo30 mutant ovaries ...

Source: GEO: Gene Expression Omnibus - September 1, 2017 Category: Genetics & Stem Cells Tags: Non-coding RNA profiling by high throughput sequencing Drosophila melanogaster Source Type: research