Two featured series of rRNA-derived RNA fragments (rRFs) constitute a novel class of small RNAs

In this study, we reported two featured series of rRNA-derived RNA fragments (rRFs) from the small RNA sequencing (sRNA-seq) data of Amblyomma testudinarium using the Illunima platform. Two series of rRFs (rRF5 and rRF3) were precisely aligned to the 5' and 3' ends of the 5.8S and 28S rRNA...

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Bibliographic Details
Published in:PloS one 2017-04, Vol.12 (4), p.e0176458-e0176458
Main Authors: Chen, Ze, Sun, Yu, Yang, Xiaojun, Wu, Zhenfeng, Guo, Kaifei, Niu, Xiaoran, Wang, Qingsong, Ruan, Jishou, Bu, Wenjun, Gao, Shan
Format: Article
Language:English
Subjects:
Animals
Antisense RNA
Apoptosis
Apoptosis - genetics
Bioinformatics
Biology
Biology and life sciences
Cell proliferation
Cell Proliferation - genetics
Cleaning
Complementarity
Computer programs
Construction
Contamination
Data processing
Degradation
Deoxyribonucleic acid
DNA
DNA damage
DNA repair
Double-strand break repair
Drought
Drought resistance
Ecotourism
Female
Forestry
Gene expression
Gene mapping
Gene silencing
Genetic aspects
Genomes
Hard ticks
Infections
Information systems
Life sciences
Molecular biology
Nucleotide sequence
Polymerase chain reaction
Prostate cancer
Quality control
Research and analysis methods
Ribonucleic acid
Ribosomal RNA
RNA
RNA, Ribosomal - genetics
RNA, Small Untranslated - genetics
Salt tolerance
Salts
Statistical analysis
Studies
Ticks - genetics
Viruses
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Summary:In this study, we reported two featured series of rRNA-derived RNA fragments (rRFs) from the small RNA sequencing (sRNA-seq) data of Amblyomma testudinarium using the Illunima platform. Two series of rRFs (rRF5 and rRF3) were precisely aligned to the 5' and 3' ends of the 5.8S and 28S rRNA gene. The rRF5 and rRF3 series were significantly more highly expressed than the rRFs located in the body of the rRNA genes. These series contained perfectly aligned reads, the lengths of which varied progressively with 1-bp differences. The rRF5 and rRF3 series in the same expression pattern exist ubiquitously from ticks to human. The cellular experiments showed the RNAi knockdown of one 20-nt rRF3 induced the cell apoptosis and inhibited the cell proliferation. In addition, the RNAi knockdown resulted in a significant decrease of H1299 cells in the G2 phase of the cell cycle. These results indicated the rRF5 and rRF3 series were not random intermediates or products during rRNA degradation, but could constitute a new class of small RNAs that deserves further investigation.
ISSN:1932-6203
1932-6203
DOI:10.1371/journal.pone.0176458