title: Profiling and identification of small rDNA-derived RNAs and their potential biological functions.
abstract: Small non-coding RNAs constitute a large family of regulatory molecules with diverse functions. Notably, some small non-coding RNAs matched to rDNA have been identified as qiRNAs and small guide RNAs involved in various biological processes. However, a large number of small rDNA-derived RNAs (srRNAs) are usually neglected and yet to be investigated. We systematically investigated srRNAs using small RNA datasets generated by high-throughput sequencing, and found srRNAs are mainly mapped to rRNA coding regions in sense direction. The datasets from immunoprecipitation and high-throughput sequencing demonstrate that srRNAs are co-immunoprecipitated with Argonaute (AGO) proteins. Furthermore, the srRNA expression profile in mouse liver is affected by diabetes. Overexpression or inhibition of srRNAs in cultured cells shows that srRNAs are involved in various signaling pathways. This study presents a global view of srRNAs in total small RNA and AGO protein complex from different species, and demonstrates that srRNAs are correlated with diabetes, and involved in some biological processes. These findings provide new insights into srRNAs and their functions in various physiological and pathological processes.
authors: Key Laboratory of Nutrition and Metabolism, Institute for Nutritional Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, People's Republic of China.
authors: Haibin
authors: H
authors: Wei
authors: Ben
authors: B
authors: Zhou
authors: Fang
authors: F
authors: Zhang
authors: Yanyang
authors: Y
authors: Tu
authors: Yanan
authors: Y
authors: Hu
authors: Baoguo
authors: B
authors: Zhang
authors: Qiwei
authors: Q
authors: Zhai
mesh_terms: D000818:Animals; D017360:Arabidopsis / Q000235:genetics; D060565:Argonaute Proteins / Q000235:genetics* / Q000378:metabolism; D045744:Cell Line, Tumor; D004275:DNA, Ribosomal / Q000235:genetics*; D003920:Diabetes Mellitus / Q000235:genetics; D004331:Drosophila melanogaster / Q000235:genetics; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D005952:Glucose-6-Phosphatase / Q000235:genetics; D006801:Humans; D008099:Liver / Q000378:metabolism; D008156:Luciferases / Q000235:genetics / Q000378:metabolism; D020935:MAP Kinase Signaling System / Q000235:genetics; D008297:Male; D051379:Mice; D008810:Mice, Inbred C57BL; D041681:NIH 3T3 Cells; D019764:Phosphoenolpyruvate Carboxykinase (ATP) / Q000235:genetics; D011401:Promoter Regions, Genetic / Q000235:genetics; D011485:Protein Binding; D018749:RNA, Plant / Q000235:genetics / Q000378:metabolism; D058727:RNA, Small Untranslated / Q000235:genetics* / Q000378:metabolism
chemical_list: D060565:Argonaute Proteins; D004275:DNA, Ribosomal; D018749:RNA, Plant; D058727:RNA, Small Untranslated; D008156:Luciferases; D005952:Glucose-6-Phosphatase; D019764:Phosphoenolpyruvate Carboxykinase (ATP)