Oncotarget

Research Papers:

Landscape of RNAs in human lumbar disc degeneration

Ping-Heng Lan, Zhi-Heng Liu, Yan-Jun Pei, Zhi-Gang Wu, Yang Yu, Yong-Feng Yang, Xu Liu, Lu Che, Chi-Jiao Ma, Yan-Ke Xie, Qing-Jie Hu, Zhong-Yuan Wan and Hai-Qiang Wang _

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Oncotarget. 2016; 7:63166-63176. https://doi.org/10.18632/oncotarget.11334

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Abstract

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

Correspondence to:

Hai-Qiang Wang, email: [email protected], [email protected]

Keywords: noncoding RNAs, miRNAs, circRNAs, gene regulation, RNA transcription

Received: March 30, 2016     Accepted: August 12, 2016     Published: August 17, 2016

ABSTRACT

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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