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A comparative study of mutation screening of sarcomeric genes (MYBPC3, MYH7, TNNT2) using single gene approach versus targeted gene panel next generation sequencing in a cohort of HCM patients in Egypt
Joint Authors
John, Shibu
Walsh, Roddy
Barton, Paul J.
Abd al-Ghani, Besra S.
Azar, Rimun S.
Buchan, Rachel
al-Juindi, Ahmad
al-Jamal, Sarah Muharram
Badran, Hala M.
Shihadah, Huda
Cook, Stuart A.
Yaqub, Majdi H.
Qasim, Hibah SH.
Source
The Egyptian Journal of Medical Human Genetics
Issue
Vol. 18, Issue 4 (31 Oct. 2017), pp.381-387, 7 p.
Publisher
Egyptian Society of Human Genetics
Publication Date
2017-10-31
Country of Publication
Egypt
No. of Pages
7
Main Subjects
Abstract EN
Background : NGS enables simultaneous sequencing of large numbers of associated genes in genetic heterogeneous disorders, in a more rapid and cost-effective manner than traditional technologies.
However there have been limited direct comparisons between NGS and more established technologies to assess the sensitivity and false negative rates of this new approach.
The scope of the present manuscript is to compare variants detected in MYBPC3, MYH7 and TNNT2 genes using the stepwise dHPLC / Sanger versus targeted NGS.
Methods : In this study, we have analysed a group of 150 samples of patients from the Bibliotheca Alexandrina-Aswan Heart Centre National HCM program.
The genetic testing was simultaneously undertaken by high throughput denaturing high-performance liquid chromatography (dHPLC) followed by Sanger based sequencing and targeted next generation deep sequencing using panel of inherited cardiac genes (ICC).
The panel included over 100 genes including the 3 sarcomeric genes.
Analysis of the sequencing data of the 3 genes was undertaken in a double blinded strategy.
Results : NGS analysis detected all pathogenic and likely pathogenic variants identified by dHPLC (50 in total, some samples had double hits).
There was a 0% false negative rate for NGS based analysis.
Nineteen variants were missed by dHPLC and detected by NGS, thus increasing the diagnostic yield in this co- analysed cohort from 22.0% (33/150) to 31.3% (47/150).
Of interest to note that the mutation spectrum in this Egyptian HCM population revealed a high rate of homozygosity in MYBPC3 and MYH7 genes in comparison to other population studies (6/150, 4%).
None of the homozygous samples were detected by dHPLC analysis.
Conclusion : NGS provides a useful and rapid tool to allow panoramic screening of several genes simultaneously with a high sensitivity rate amongst genes of known etiologic role allowing high throughput analysis of HCM patients and relevant control series in a less characterised population.-
American Psychological Association (APA)
Qasim, Hibah SH.& Walsh, Roddy& Barton, Paul J.& Abd al-Ghani, Besra S.& Azar, Rimun S.& Buchan, Rachel…[et al.]. 2017. A comparative study of mutation screening of sarcomeric genes (MYBPC3, MYH7, TNNT2) using single gene approach versus targeted gene panel next generation sequencing in a cohort of HCM patients in Egypt. The Egyptian Journal of Medical Human Genetics،Vol. 18, no. 4, pp.381-387.
https://search.emarefa.net/detail/BIM-760313
Modern Language Association (MLA)
Qasim, Hibah SH.…[et al.]. A comparative study of mutation screening of sarcomeric genes (MYBPC3, MYH7, TNNT2) using single gene approach versus targeted gene panel next generation sequencing in a cohort of HCM patients in Egypt. The Egyptian Journal of Medical Human Genetics Vol. 18, no. 4 (Oct. 2017), pp.381-387.
https://search.emarefa.net/detail/BIM-760313
American Medical Association (AMA)
Qasim, Hibah SH.& Walsh, Roddy& Barton, Paul J.& Abd al-Ghani, Besra S.& Azar, Rimun S.& Buchan, Rachel…[et al.]. A comparative study of mutation screening of sarcomeric genes (MYBPC3, MYH7, TNNT2) using single gene approach versus targeted gene panel next generation sequencing in a cohort of HCM patients in Egypt. The Egyptian Journal of Medical Human Genetics. 2017. Vol. 18, no. 4, pp.381-387.
https://search.emarefa.net/detail/BIM-760313
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references : p. 387
Record ID
BIM-760313