| Literature DB >> 34755423 |
Zhe Yang1, Yuting Ma1,2, Jiana Huang3, Jianzhong Xian1, Yin Huang1, Linbo Wu4, WenLiang Zhu4, Feng Wang5, Liang Chen6, Xiufang Lin1, Yubi Lin1.
Abstract
INTRODUCTION: Long QT syndrome (LQTS) is a life-threatening inherited channelopathy, and prolonged QT intervals easily trigger malignant arrhythmias, especially torsades de pointes and ventricular fibrillation.Entities:
Keywords: KCNH2; SCN5A; ion channelopathy; long QT syndrome; whole-exome sequencing
Mesh:
Substances:
Year: 2021 PMID: 34755423 PMCID: PMC8739608 DOI: 10.1111/anec.12889
Source DB: PubMed Journal: Ann Noninvasive Electrocardiol ISSN: 1082-720X Impact factor: 1.468
Predisposing gene analysis of whole‐exome sequencing
| Name | Sequence (5′–3′) |
|---|---|
| SCN5A exon 27 forward primer | CGCTTATGTCAAGTGGGAGG |
| SCN5A exon 27 reverse primer | AAGGAAGTGGAGGAGATGGAG |
| KCNH2 exon 3 forward primer | GACCTCTGATGCTCGCTCTG |
| KCNH2 exon 3 reverse primer | CCCACCCTTCAGTAGTCCC |
FIGURE 1Family pedigree and representative ECGs. (a) The proband diagnosed with LQTS is shown using arrows. II: 1 carried the digenic heterozygous mutations of KCNH2 p.307_308del and SCN5A p.R1865H. I: 1 and II: 2 were heterozygous for SCN5A p.R1865H. Except II: 1, other family members did not carry KCNH2 mutation. (b, c), The ECG images of II: 1 demonstrated LQTS. QTc interval was 550 milliseconds (ms) when the heart rate was 79 bpm. It was 560 ms when the heart rate was 131 bpm. (d–f), Representative ECGs of family members of the proband (the chest lead V6 of II: 2 fell off). (g) The proband experienced multiple ventricular tachycardias and even ventricular fibrillation by ICD monitoring. ICD had released cardioversion and defibrillation treatment. (h) The Holter presented sinus arrest with persistent ventricular pacing of ICD
Predisposing gene analysis of whole‐exome sequencing
| Chr | Start | Ref | Alt | Gene | Amino acid Change | 1000g2015 | snp142 | SIFT | Polyphen2 | OMIM disease |
|---|---|---|---|---|---|---|---|---|---|---|
| chr3 | 38592170 | C | T | SCN5A | NM_001160160:exon28:c.G5594A:p.R1865H | ‐ | rs370694515 | 0.055(T) | 1 (D) | Ion channelopathy; cardiomyopathy |
| chr6 | 129618854 | G | A | LAMA2 | NM_001098623:exon3:c.A1177G:p.N393D | <0.001 | rs147301872 | 0.005(D) | 0.109 (B) | Muscular dystrophy |
| chr7 | 150648538 | CCA | ‐ | KCNH2 | NM_001204798:exon3:c.921_923del:p.307_308del | ‐ | ‐ | ‐ | ‐ | Short QT syndrome; long QT syndrome |
| chrX | 31854929 | T | A | DMD | NM_004011:exon21:c.A3083T:p.E1028V | ‐ | ‐ | 0.054(T) | 0.999 (D) | Cardiomyopathy; muscular dystrophy |
Chr, chromosome; 1000G, 1000 genomes (2015 version); SNP, single nucleotide polymorphism; B, benign; D, damaging; T, tolerated; –, no report; OMIM, Online Mendelian Inheritance in Man.
FIGURE 2Conservation analyses at the mutant sites of SCN5A and KCNH2 protein. SCN5A p.R1865 and KCNH2 p.307_308 of amino acid sequences were highly conserved across the common species
FIGURE 3Sanger sequencing for SCN5A and KCNH2 mutations. KCNH2 p.307_308del and SCN5A p.R1865H of the proband were validated as positive by Sanger sequencing. Additionally, I: 1 and II: 2 carried with the heterozygous for SCN5A p.R1865H. Except II: 1, other family members did not carry with the KCNH2 mutation
FIGURE 4RNA secondary structural prediction. (a, b) Compared with wild‐type KCNH2, the structure of KCNH2 p.307_308del affected the single‐stranded RNA folding, resulting in a false regional double helix. The minimum free energy (MFE) of KCNH2 p.307_308del increased, which thus led to a reduction of structural stability. (c, d) SCN5A p.R1865H showed no significant influence on the RNA structure, and the MFE value of SCN5A p.R1865H mutation was approximately similar to that of the wild type
Amino acids physical and chemical parameter prediction
| Physical and chemical parameters | KCNH2‐wild type | KCNH2‐p.307_308del | SCN5A‐wild type | SCN5A‐p.R1865H |
|---|---|---|---|---|
| Molecular weight | 14430.15 | 14359.07 | 18856.35 | 18872.39 |
| Theoretical pI | 9.30 | 9.30 | 12.10 | 12.10 |
| Instability index | 30.43 | 30.59 | 95.32 | 91.73 |
| Aliphatic index | 106.54 | 106.59 | 45.00 | 47.22 |
| GRAVY | 0.336 | 0.325 | −0.541 | −0.511 |
Abbreviation: GRAVY, Grand average of hydropathicity.
Hydrophobicity, transmembrane domain, and phosphorylation analyses
| KCNH2 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 302 | 303 | 304 | 305 | 306 | 307 | 308 | 309 | 310 | 311 | 312 | 313 | ||
| Amino acid | WT | I | C | V | M | L | I | G | S | L | M | Y | A |
| p.307_308del | I | C | V | M | L | D | ‐ | S | L | M | Y | A | |
| Hydrophobicity | WT | 2.167 | 3.100(max) | 2.556 | 2.156 | 2.667 | 2.378 | 1.956 | 1.689 | 1.389 | 1.467 | 1.278 | 1.278 |
| p.307_308del | 2.167 | 2.211 | 1.622 | 1.733 | 2.033 | 1.389 | ‐ | 1.311 | 0.756 | 1.044 | 0.933 | 1.278 | |
| Transmembrane | WT | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix |
| p.307_308del | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | TMhelix | |
| Phosphorylation | WT | Yes | |||||||||||
| p.307_308del | No | ||||||||||||
FIGURE 5The hydrophobicity prediction of protein. (a) The changed site (position 307) of KCNH2 p.307_308del was located close to the largest hydrophobic region of the protein. The hydrophobicity of predicted amino acid residues and adjacent sequences was significantly weaken. (b) The changed site of SCN5A gene (position 1864) increased the corresponding amino acid residues and nearby sequences hydrophobicity, but the influence was not significant