Abstract
PIWI-interacting RNAs (piRNAs) repress transposons to protect the germline genome from DNA damage caused by transposon transposition. In Drosophila, the Traffic jam (Tj) mRNA is consumed to produce piRNA in its 3′-UTR. A cis element located within the 3′-UTR, Tj-cis, is necessary for piRNA biogenesis. In this study, we analyzed the structure of the Tj-cis RNA, a 100-nt RNA corresponding to the Tj-cis element, by the SHAPE and NMR analyses and found that a stable hairpin structure formed in the 5′ half of the Tj-cis RNA. The tertiary structure of the 16-nt stable hairpin was analyzed by NMR, and a novel stem–loop structure, the T-hairpin, was found. In the T-hairpin, four uridine residues are exposed to the solvent, suggesting that this stem–loop is the target of Yb protein, a Tudor domain-containing piRNA biogenesis factor. The piRNA biogenesis assay showed that both the T-hairpin and the 3′ half are required for the function of the Tj-cis element, suggesting that both the T-hairpin and the 3′ half are recognized by Yb protein.
Funder
Ministry of Education, Culture, Sports, Science, and Technology
Japan
KAKENHI
Publisher
Cold Spring Harbor Laboratory
Reference35 articles.
1. Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination
2. Case DA , Darden TA , Cheatham TE III , Simmerling CL , Wang J , Duke RE , Luo R , Walker RC , Zhang W , Merz KM , 2012. AMBER 12. University of California, San Francisco.
3. BootstRatio: A web-based statistical analysis of fold-change in qPCR and RT-qPCR data using resampling methods
4. piRNA-Guided Genome Defense: From Biogenesis to Silencing
5. Prediction of RNA Pseudoknots Using Heuristic Modeling with Mapping and Sequential Folding
Cited by
4 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献