Arrhythmia Variant Associations and Reclassifications in the eMERGE-III Sequencing Study

Andrew M. Glazer, Giovanni Davogustto, Christian M. Shaffer, Carlos G. Vanoye, Reshma R. Desai, Eric H. Farber-Eger, Ozan Dikilitas, Ning Shang, Jennifer A. Pacheco, Tao Yang, Ayesha Muhammad, Jonathan D. Mosley, Sara L. Van Driest, Quinn S. Wells, Lauren Lee Shaffer, Olivia R. Kalash, Yuko Wada, Sarah Bland, Zachary T. Yoneda, Devyn W. MitchellBrett M. Kroncke, Iftikhar J. Kullo, Gail P. Jarvik, Adam S. Gordon, Eric B. Larson, Teri A. Manolio, Tooraj Mirshahi, Jonathan Z. Luo, Daniel Schaid, Bahram Namjou, Tarek Alsaied, Rajbir Singh, Ashutosh Singhal, Cong Liu, Chunhua Weng, George Hripcsak, James D. Ralston, Elizabeth M. Mcnally, Wendy K. Chung, David S. Carrell, Kathleen A. Leppig, Hakon Hakonarson, Patrick Sleiman, Sunghwan Sohn, Joseph Glessner, Joshua Denny, Wei Qi Wei, Alfred L. George, M. Benjamin Shoemaker, Dan M. Roden*

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

1 Scopus citations

Abstract

Background: Sequencing Mendelian arrhythmia genes in individuals without an indication for arrhythmia genetic testing can identify carriers of pathogenic or likely pathogenic (P/LP) variants. However, the extent to which these variants are associated with clinically meaningful phenotypes before or after return of variant results is unclear. In addition, the majority of discovered variants are currently classified as variants of uncertain significance, limiting clinical actionability. Methods: The eMERGE-III study (Electronic Medical Records and Genomics Phase III) is a multicenter prospective cohort that included 21 846 participants without previous indication for cardiac genetic testing. Participants were sequenced for 109 Mendelian disease genes, including 10 linked to arrhythmia syndromes. Variant carriers were assessed with electronic health record-derived phenotypes and follow-up clinical examination. Selected variants of uncertain significance (n=50) were characterized in vitro with automated electrophysiology experiments in HEK293 cells. Results: As previously reported, 3.0% of participants had P/LP variants in the 109 genes. Herein, we report 120 participants (0.6%) with P/LP arrhythmia variants. Compared with noncarriers, arrhythmia P/LP carriers had a significantly higher burden of arrhythmia phenotypes in their electronic health records. Fifty-four participants had variant results returned. Nineteen of these 54 participants had inherited arrhythmia syndrome diagnoses (primarily long-QT syndrome), and 12 of these 19 diagnoses were made only after variant results were returned (0.05%). After in vitro functional evaluation of 50 variants of uncertain significance, we reclassified 11 variants: 3 to likely benign and 8 to P/LP. Conclusions: Genome sequencing in a large population without indication for arrhythmia genetic testing identified phenotype-positive carriers of variants in congenital arrhythmia syndrome disease genes. As the genomes of large numbers of people are sequenced, the disease risk from rare variants in arrhythmia genes can be assessed by integrating genomic screening, electronic health record phenotypes, and in vitro functional studies. Registration: URL: https://www.clinicaltrials.gov; Unique identifier; NCT03394859.

Original languageEnglish (US)
Pages (from-to)877-891
Number of pages15
JournalCirculation
Volume145
Issue number12
DOIs
StatePublished - Mar 22 2022

Keywords

  • arrhythmias
  • cardiac
  • electronic health records
  • electrophysiology
  • genetic testing
  • long QT syndrome

ASJC Scopus subject areas

  • Cardiology and Cardiovascular Medicine
  • Physiology (medical)

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