COMBINED ANALYSIS OF LINKAGE AND WHOLE EXOME SEQUENCING REVEALS CIC AS A CANDIDATE GENE FOR ISOLATED DYSTONIA

Year 2021, Volume: 84 Issue: 4, 457 - 463, 01.10.2021

Barış Salman , Emrah Yücesan , Bedia Samancı Başar Bilgiç Haşmet Hanağası , Hakan Gürvit , Uğur Özbek , Sibel Uğur İşeri

https://doi.org/10.26650/IUITFD.2021.913346

Abstract

Objective: To explore the underlying genetic variations and mechanisms in a family affected by isolated dystonia. Material and Method: We employed whole genome Single Nucleotide Polymorphism (SNP) based linkage analysis along with whole exome sequencing (WES) in a consanguineous family presenting with isolated dystonia. An in-house pipeline compiled for WES analysis along with in-depth in silico prediction algorithms were used to assess the associated data produced in this study. Sanger sequencing was used for variant confirmation and segregation. Results: Data analysis included locus oriented WES variant prioritization and cryptic splicing predictions. We detected a homozygous and synonymous variation rs748449895 (NM_015125.4: c.4143C>T; p.(Thr1381=)) in the capicua transcriptional repressor, CIC. This variation disrupts the YB-1 RNA recognition motif and creates an alternative SRp20 RNA recognition motif. Conclusion: The resulting variant might cause the dystonia phenotype by affecting the alternative splicing of CIC transcript and altering the exon inclusion motif which may disrupt the ATXN1– CIC complex.

Keywords

Autosomal recessive dystonia, whole genome genotyping, linkage analysis, whole exome sequencing, alternative splicing

Supporting Institution

Scientific Research Projects Coordination Unit of Istanbul University, TUBITAK

Project Number

TYL-2018-30315, ONAP-11021, TUBITAK-113S331, TUBITAK-214S222

Thanks

The authors are grateful to the family for participating in this study. We also thank to Turkish Academy of Sciences for the 2019 Distinguished Young Scientist Award to SAUI.

BAĞLANTI VE TÜM EKZOM DİZİLEME ANALİZLERİNİN BİRLİKTE DEĞERLENDİRİLMESİYLE CIC GENİNİN İZOLE DİSTONİ ADAYI OLARAK BELİRLENMESİ

Abstract

Amaç: İzole distoni hastalığından etkilenmiş bir ailede hastalığa neden olan genetik varyasyonları ve mekanizmaları keşfetmek. Gereç ve Yöntem: İzole distoni hastalığı tanısı konmuş ve akraba evliliği bulunan bir ailede, tüm genom Single Nucleotide Polymorphism (SNP) temelli bağlantı analizi ile beraber tüm ekzom dizileme (TED) gerçekleştirildi. TED analizleri için laboratuvarımızda geliştirilen akış hattı ve in siliko tahmin algoritmaları bu çalışmada üretilen verinin ilişkilendirilmesinde kullanıldı. Sanger dizileme varyantların doğrulanması ve ayrımı için kullanıldı. Bulgular: SNP dizimi ile genotipleme, bağlantı analizi ve ekzom dizileme analizleri sonucu rs748449895 (NM_015125.4: c. 4143C>T;p.(Thr1381=)) homozigot sinonim varyantı tespit edildi. Devamındaki biyoinformatik analizler varyantın YB-1 RNA tanıma motifi olduğunu gösterdi. Bu varyant YB-1 RNA tanıma motifini bozarak, SRp20 RNA tanıma motifi oluşturmaktadır. Sonuç: Bulunan varyant, ekzon katılma motifini değiştirerek CIC transkriptinin alternatif kırpılmasını etkileyip ATXN1-CIC kompleksini bozarak distoni fenotipine yol açabilir.

Keywords

Otozomal resesif distoni, tüm genom genotipleme, bağlantı analizi, tüm ekzom dizileme, alternatif kırpılma

Project Number

TYL-2018-30315, ONAP-11021, TUBITAK-113S331, TUBITAK-214S222

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