Comprehensive CircRNA expression profile and selection of key CircRNAs during priming phase of rat liver regeneration

BMC Genomics

Research Article

Jianlin Guo¹  Cuifang Chang¹  Lifei Li¹  Yanhui Chen¹  Cunshuan Xu¹ 

[1] College of Life Science, Henan Normal University, 453007, Xinxiang, Henan Province, China;State Key Laboratory Cultivation Base for Cell Differentiation Regulation and Henan Engineering Laboratory for Bioengineering and Drug Development, 453007, Xinxiang, Henan Province, China;

关键词: High-throughput RNA sequencing technology;    circRNA;    Rat liver regeneration;    miRNA;    Host linear transcripts;    Hepatocyte proliferation;    Energy metabolism;    Substance metabolism;   

DOI  :  10.1186/s12864-016-3476-6

 received in 2016-07-21, accepted in 2016-12-26,  发布年份 2017

来源: Springer

【 摘 要 】

BackgroundRat liver regeneration (LR) proceeds along a process of highly organized and ordered tissue growth in response to the loss or injury of liver tissue, during which many physiological processes may play important roles. The molecular mechanism of hepatocyte proliferation, energy metabolism and substance metabolism during rat LR had been elucidated. Further, the correlation of circular RNA (circRNA) abundance with proliferation has recently been clarified. However, the regulatory capacity of circRNA in rat LR remains a fascinating topic.ResultsTo investigate the regulatory mechanism of circRNA during priming phase of rat LR, high-throughput RNA sequencing technology was performed to unbiasedly profile the expression of circRNA during priming phase of rat LR. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) biological pathway analysis was conducted to predict the functions of differentially expressed circRNAs and their host linear transcripts. Co-expression networks of circRNA-miRNA were constructed based on the correlation analysis between the differentially expressed LR-related circRNAs and the condition of their miRNA binding sites. To excavate the key circRNAs in the early phase of rat LR, we comprehensively evaluated and integrated the relationship of expression level between the circRNAs and the linear transcripts as well as the distribution of miRNA binding sites in circRNA sequences.ConclusionsThis paper is the first to employ the comprehensive circRNA expression profile and to investigate circRNA-miRNA interactions during priming phase of rat LR. Two thousand four hundred twelve circRNAs were detected, and 159 circRNAs deriving from 116 host linear transcripts differentially expressed (p < 0.05). Six significantly changed circRNAs during priming phase of rat LR were screened as key circle molecules, and then were validated by qRT-PCR. This study will lay the foundation for revealing the functional roles of circRNAs during rat LR and help solve the remaining clinical problems.

【 授权许可】

CC BY   
© The Author(s). 2017