Identification of novel single-nucleotide variants altering RNA splicing of PKD1 and PKD2

• Published in: Journal of human genetics Vol. 67; no. 1; pp. 27 - 34
• Main Authors: Xie, Shengyu, Leng, Xiangyou, Tao, Dachang, Zhang, Yangwei, Wang, Zhaokun, Zhang, Xinyue, He, Tianrong, Tan, Xiaolan, Liu, Yunqiang, Yang, Yuan
• Format: Journal Article
• Language: English
• Published: England Nature Publishing Group 01.01.2022
• Subjects: Algorithms; Cloning; Genetic diversity; Genetics; Kidney diseases; Mutation; Splicing
• ISSN: 1434-5161; 1435-232X
• DOI: 10.1038/s10038-021-00959-1

The development of sequencing techniques identified numerous genetic variants, and accurate evaluation of the clinical significance of these variants facilitates the diagnosis of Mendelian diseases. In the present study, 549 rare single- nucleotide variants of uncertain significance were extracted from the ADPKD and ClinVar databases. MaxEntScan scoresplice is an in silico splicing prediction tool that was used to analyze rare PKD1 and PKD2 variants of unknown significance. An in vitro minigene splicing assay was used to verify 37 splicing-altering candidates that were located within seven residues of the splice donor sequence excluding canonical GT dinucleotides or within 21 residues of the acceptor sequence excluding canonical AG dinucleotides of PKD1 and PKD2. We demonstrated that eight PKD1 variants alter RNA splicing and were predicted to be pathogenic.