Landscape of RNAs in human lumbar disc degeneration
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Ping-Heng Lan1,11,*, Zhi-Heng Liu2,*, Yan-Jun Pei1, Zhi-Gang Wu3,4, Yang Yu5,6, Yong-Feng Yang7, Xu Liu8, Lu Che8, Chi-Jiao Ma9, Yan-Ke Xie8, Qing-Jie Hu8, Zhong-Yuan Wan10, Hai-Qiang Wang1
1Department of Orthopaedics, Xijing Hospital, Fourth Military Medical University, Xi’an, P. R. China
2Department of Orthopaedics, Xi’an Air Force Hospital, Xi’an, P.R. China
3The Second Department of Surgery, No. 518 Hospital of the PLA, Xi’an, P. R. China
4Department of Orthopaedic Surgery, Lanzhou General Hospital of Lanzhou Military Region, PLA, Lanzhou, P. R. China
5State Key Laboratory of Military Stomatology, Department of Periodontology, School of Stomatology, Fourth Military Medical University, Xi’an, P. R. China
6Shaanxi Key Laboratory of Stomatology, Biomaterials Unit, School of Stomatology, Fourth Military Medical University, Xi’an, P. R. China
7Company Eleven, Brigade of Undergraduates, Fourth Military Medical University, Xi’an, P. R. China
8Aerospace Medical School, Fourth Military Medical University, Xi’an, P. R. China
9The First Hospital of Hanbin Area, Ankang, P. R. China
10Department of Orthopedics, General Hospital of Beijing Military Command, Beijing, P. R. China
11Department of Orthopaedics, No. 5 Hospital of the PLA, Yinchuan, P. R. China
*These authors contributed equally to this work
Keywords: noncoding RNAs, miRNAs, circRNAs, gene regulation, RNA transcription
Received: March 30, 2016 Accepted: August 12, 2016 Published: August 17, 2016
Accumulating evidence indicates noncoding RNAs (ncRNAs) fine-tune gene expression with mysterious machinery. We conducted a combination of mRNA, miRNA, circRNA, LncRNA microarray analyses on 10 adults’ lumbar discs. Moreover, we performed additional global exploration on RNA interacting machinery in terms of in silico computational pipeline. Here we show the landscape of RNAs in human lumbar discs. In general, the RNA-abundant landscape comprises 14,635 mRNAs (37.93%), 2,059 miRNAs (5.34%), 18,995 LncRNAs (49.23%) and 2,894 (7.5%) circRNAs. Chromosome 1 contributes for RNA transcription at most (10%). Bi-directional transcription contributes evenly for RNA biogenesis, in terms of 5’ to 3’ and 3’ to 5’. Despite the majority of circRNAs are exonic, antisense (1.49%), intergenic (0.035%), intragenic (1.69%), and intronic (6.29%) circRNAs should not be ignored. A single miRNA could interact with a multitude of circRNAs. Notably, CDR1as or ciRS-7 harbors 66 consecutive binding sites for miR-7-5p (previous miR-7), evidencing our pipeline. The majority of binding sites are perfect-matched (78.95%). Collectively, global landscape of RNAs sheds novel insights on RNA interacting mechanisms in human intervertebral disc degeneration.
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