Differentially Expressed Long Non-Coding RNAs Were Predicted to Be Involved in the Control of Signaling Pathways in Pediatric Astrocytoma

• Published in: Molecular neurobiology 2017-10, Vol.54 (8), p.6598-6608
• Main Authors: Ruiz Esparza-Garrido, Ruth, Rodríguez-Corona, Juan Manuel, López-Aguilar, Javier Enrique, Rodríguez-Florido, Marco Antonio, Velázquez-Wong, Ana Claudia, Viedma-Rodríguez, Rubí, Salamanca-Gómez, Fabio, Velázquez-Flores, Miguel Ángel
• Format: Article
• Language: English
• Subjects: Adolescent; Astrocytoma; Astrocytoma - genetics; Astrocytoma - metabolism; Binding sites; Biomedical and Life Sciences; Biomedicine; Brain Neoplasms - genetics; Brain Neoplasms - metabolism; Cell Biology; Child; Child, Preschool; Female; Gene expression; Gene Expression Profiling; Gene Expression Regulation, Neoplastic; Glioblastoma; Homology; Humans; Infant; Male; miRNA; mRNA; Neurobiology; Neurology; Neurosciences; Non-coding RNA; Pediatrics; Pleckstrin; Ribonucleic acid; RNA; RNA, Long Noncoding - genetics; RNA, Long Noncoding - metabolism; RNA-binding protein; Signal transduction; Signal Transduction - physiology; Tissues; Transcription; Tumors
• ISSN: 0893-7648; 1559-1182
• DOI: 10.1007/s12035-016-0123-9

Expression changes for long non-coding RNAs (lncRNAs) have been identified in adult glioblastoma multiforme (GBM) and in a mixture of adult and pediatric astrocytoma. Since adult and pediatric astrocytomas are molecularly different, the mixture of both could mask specific features in each. We determined the global expression patterns of lncRNAs and messenger RNA (mRNAs) in pediatric astrocytoma of different histological grades. Transcript expression changes were determined with an HTA 2.0 array. lncRNA interactions with microRNAs and mRNAs were predicted by using an algorithm and the LncTar tool, respectively. Interactomes were constructed with the HIPPIE database and visualized with the Cytoscape platform. The array showed expression changes in 156 and 207 lncRNAs in tumors (versus the control) and in pediatric GBM (versus low-grade astrocytoma), respectively. Predictions identified lncRNAs that have putative microRNA binding sites, which might suggest that they function as sponges in these tumors. Also, lncRNAs were shown to interact with many mRNAs, such as Pleckstrin homology-like domain, family A, member 1 (PHLDA1) and sulfatase 2 (SULF2). For example, qPCR found long intergenic non-coding RNA regulator of reprogramming (linc-RoR) expression levels upregulated in pediatric GBM when they were compared with control tissues or with low-grade tumors. Meanwhile, PHLDA1 and ELAV-like RNA binding protein 1 (ELAV1) showed expression changes in tumors relative to the control. Our data showed many lncRNAs with expression changes in pediatric astrocytoma, which might be involved in the regulation of different signaling pathways.