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Antisense oligonucleotide therapy for KCNT1 encephalopathy
Lisseth Estefania Burbano, Melody Li, Nikola Jancovski, Paymaan Jafar-Nejad, Kay Richards, Alicia Sedo, Armand Soriano, Ben Rollo, Linghan Jia, Elena V. Gazina, Sandra Piltz, Fatwa Adikusuma, Paul Q. Thomas, Helen Kopsidas, Frank Rigo, Christopher A. Reid, Snezana Maljevic, Steven Petrou
Lisseth Estefania Burbano, Melody Li, Nikola Jancovski, Paymaan Jafar-Nejad, Kay Richards, Alicia Sedo, Armand Soriano, Ben Rollo, Linghan Jia, Elena V. Gazina, Sandra Piltz, Fatwa Adikusuma, Paul Q. Thomas, Helen Kopsidas, Frank Rigo, Christopher A. Reid, Snezana Maljevic, Steven Petrou
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Research Article Genetics Neuroscience

Antisense oligonucleotide therapy for KCNT1 encephalopathy

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Abstract

Developmental and epileptic encephalopathies (DEEs) are characterized by pharmaco-resistant seizures with concomitant intellectual disability. Epilepsy of infancy with migrating focal seizures (EIMFS) is one of the most severe of these syndromes. De novo variants in ion channels, including gain-of-function variants in KCNT1, which encodes for sodium activated potassium channel protein KNa1.1, have been found to play a major role in the etiology of EIMFS. Here, we test a potential precision therapeutic approach in KCNT1-associated DEE using a gene-silencing antisense oligonucleotide (ASO) approach. We generated a mouse model carrying the KCNT1 p.P924L pathogenic variant; only the homozygous animals presented with the frequent, debilitating seizures and developmental compromise that are seen in patients. After a single intracerebroventricular bolus injection of a Kcnt1 gapmer ASO in symptomatic mice at postnatal day 40, seizure frequency was significantly reduced, behavioral abnormalities improved, and overall survival was extended compared with mice treated with a control ASO (nonhybridizing sequence). ASO administration at neonatal age was also well tolerated and effective in controlling seizures and extending the life span of treated animals. The data presented here provide proof of concept for ASO-based gene silencing as a promising therapeutic approach in KCNT1-associated epilepsies.

Authors

Lisseth Estefania Burbano, Melody Li, Nikola Jancovski, Paymaan Jafar-Nejad, Kay Richards, Alicia Sedo, Armand Soriano, Ben Rollo, Linghan Jia, Elena V. Gazina, Sandra Piltz, Fatwa Adikusuma, Paul Q. Thomas, Helen Kopsidas, Frank Rigo, Christopher A. Reid, Snezana Maljevic, Steven Petrou

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Figure 4

ASO-mediated knockdown of Kcnt1 at P40 markedly improves the disease phenotype of adult L/L mice.

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ASO-mediated knockdown of Kcnt1 at P40 markedly improves the disease phe...
(A) Experimental timeline for behavioral studies. (B) Kaplan-Meier curves show a dose-dependent improvement in survival of adult L/L mice treated with Kcnt1 ASO (P < 0.0001 for Kcnt1 ASO ED50, ED80, and 500 μg, log-rank test), while mice treated with control ASO showed a survival similar to that of untreated animals (P = 0.237, log-rank test, untreated n = 16, control ASO n = 16, Kcnt1 ASO ED50 n = 13, ED80 n = 11, 500 μg n = 11). (C) Acute spike frequency over 24 hours (untreated n = 4, Kcnt1 ASO ED50 n = 6, ED80 n = 7, 500 μg n = 8; 1-way ANOVA F[3, 21] = 7.978, P = 0.001). (D) Seizure frequency was significantly reduced after treatment with Kcnt1 ASO ED80 and 500 μg. Although ED50 did not reach statistical significance, a trend toward reduction was observed. Treatment with control ASO did not reduce the occurrence of seizures (control ASO n = 9; ED50 n = 8; ED80 n = 10, 500 μg n = 9; seizure frequency was compared using the nonparametric Wilcoxon matched pairs signed-rank test, with Pratt’s method for identical rows). (E) Representative images of nesting behavior of Kcnt1 ASO ED80 (top) and control ASO–treated (bottom) L/L mice. (F) Nesting score of animals treated with Kcnt1 ASO showed a significant improvement compared with control ASO–treated animals (ED50 vs. control P = 0.0002; ED80 vs. control P = 0.0015; 500 μg vs. control P < 0.0001; untreated vs. control P > 0.9. Kruskal-Wallis test with Dunn’s post hoc analysis. Untreated n = 8, control ASO n = 12; ED50 n = 13; ED80 n = 10, 500 μg n = 12). Data are presented in a box-and-whisker plot with maximal and minimal data points (whiskers) and median (line).

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