Related Experiment Video
Updated: Jun 3, 2026

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease
Published on: April 4, 2018
The common African American polymorphism SCN5A-S1103Y interacts with mutation SCN5A-R680H to increase late Na current
Jianding Cheng1, David J Tester, Bi-Hua Tan
1Division of Cardiovascular Medicine, Department of Medicine, University of Wisconsin, Madison, Wisconsin 53792, USA.
Insights
The common SCN5A-S1103Y variant, a risk factor for sudden death, interacts with R680H to increase sodium current, especially under acidosis. This "double hit" may explain sudden arrhythmic death in individuals with these SCN5A gene variants.
Area of Science:
- Cardiovascular Genetics
- Molecular Cardiology
- Electrophysiology
Background:
- The SCN5A-S1103Y polymorphism is linked to arrhythmia and sudden death, particularly in African Americans.
- A case of sudden unexplained death (SUD) in a young athlete prompted investigation into SCN5A variant interactions.
Purpose of the Study:
- To investigate the hypothesis that SCN5A-S1103Y interacts with other SCN5A variants to alter sodium current (I(Na)).
- To determine the functional impact of combined SCN5A-R680H and SCN5A-S1103Y variants on cardiac sodium channel function.
Main Methods:
- Constructing and expressing SCN5A variants (R680H, S1103Y) separately and together in HEK293 cells.
- Measuring late sodium current (late I(Na)) using patch-clamp electrophysiology under normal and acidic conditions (pH 6.7).
- Analyzing variants on both the common SCN5A-Q1077del and less common SCN5A-Q1077 splice variant backgrounds.
Main Results:
- The SCN5A-R680H variant, alone and in combination with S1103Y, significantly increased late I(Na) in the SCN5A-Q1077del background.
- Coexpression of R680H and S1103Y (R680H+S1103Y) and variants on the same cDNA (R680H/S1103Y) resulted in 3.4- and 3.6-fold increases in late I(Na), respectively.
- Intracellular acidosis markedly potentiated the increase in late I(Na) caused by these SCN5A variants, with R680H/S1103Y showing a 5.5-fold increase.
Conclusions:
- This study provides the first evidence of a functional interaction between the common SCN5A-S1103Y polymorphism and the R680H mutation.
- The combined effect of these variants, particularly under acidic conditions, can significantly enhance late I(Na), potentially leading to fatal arrhythmias.
- A 'double hit' genetic mechanism combined with an environmental factor like acidosis may explain sudden arrhythmic death in cases involving these SCN5A variants.
Abstract:
The common polymorphism SCN5A-S1103Y (∼13% allelic frequency in African Americans) is a risk factor for arrhythmia, sudden unexplained death (SUD), and sudden infant death syndrome. Prompted by a case of autopsy-negative SUD in a 23-year-old African American man who collapsed while playing football, we hypothesized that S1103Y interacted with other SCN5A variants to pathologically modify sodium current (I(Na)). Mutational analysis of arrhythmia-associated genes in the victim revealed the variants SCN5A-R680H and SCN5A-S1103Y. These variants were made both separately and in the same cDNA construct of the alternative splice variant backgrounds (SCN5A-Q1077del and Q1077) and expressed in HEK293 cells. In the most abundant SCN5A-Q1077del, late I(Na) for S1103Y alone was not significantly different from wild type (WT). However, late I(Na) for R680H, R680H+S1103Y (coexpressed), and R680H/S1103Y (on the same cDNA) was increased 2.1-, 3.4-, and 3.6-fold, respectively, compared with WT. Intracellular acidosis (pH 6.7) increased late I(Na) for S1103Y, R680H, R680H+S1103Y, and R680H/S1103Y by 2.2-, 2.4-, 5.0-, and 5.5-fold, respectively, compared with WT at pH 6.7. Expression in the less abundant SCN5A-Q1077 showed no increased late I(Na). This is the initial report of a functional interaction for the common polymorphism S1103Y with another mutation in the major transcript Q1077del of SCN5A. The "double hit" and environmental factor of acidosis may have converged to cause arrhythmic sudden death in this case.
Related Concept Videos
Comparing Copy Number Variations and SNPs
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...
Pharmacogenetics of Drug Transporters: P-Glycoprotein and Solute Carrier Transporters
Single Nucleotide Polymorphisms-SNPs
Multiple Allele Traits
Alternative RNA Splicing
There are five types of alternative RNA splicing that vary in the ways the pre-mRNA segments are removed or retained in the mature mRNA. The first...

