Epilepsy Research 120 (2016) 73–78 Contents lists available at www.sciencedirect.com Epilepsy Research journal homepage: www.elsevier.com/locate/epilepsyres Short communication Screening LGI1 in a cohort of 26 lateral temporal lobe epilepsy patients with auditory aura from Turkey detects a novel de novo mutation Yesim F. Kesim a , Gunes Altiokka Uzun b , Emrah Yucesan a , Feyza N. Tuncer a , Ozkan Ozdemir a , Nerses Bebek b , Ugur Ozbek a , Sibel A. Ugur Iseri a,∗ , Betul Baykan b a b Istanbul University, Institute of Experimental Medicine, Department of Genetics, Istanbul, Turkey Istanbul University, Istanbul Faculty of Medicine, Department of Neurology, Clinical Neurophysiology Unit, Istanbul, Turkey a r t i c l e i n f o Article history: Received 5 June 2015 Received in revised form 2 November 2015 Accepted 9 December 2015 Available online 12 December 2015 Keywords: Lateral temporal lobe epilepsy (LTLE) Autosomal Dominant Lateral Temporal Epilepsy (ADLTE) Idiopathic Partial Epilepsy with Auditory Features (IPEAF) LGI1 De novo Mutation Auditory aura s u m m a r y Autosomal dominant lateral temporal lobe epilepsy (ADLTE) is an autosomal dominant epileptic syndrome characterized by focal seizures with auditory or aphasic symptoms. The same phenotype is also observed in a sporadic form of lateral temporal lobe epilepsy (LTLE), namely idiopathic partial epilepsy with auditory features (IPEAF). Heterozygous mutations in LGI1 account for up to 50% of ADLTE families and only rarely observed in IPEAF cases. In this study, we analysed a cohort of 26 individuals with LTLE diagnosed according to the following criteria: focal epilepsy with auditory aura and absence of cerebral lesions on brain MRI. All patients underwent clinical, neuroradiological and electroencephalography examinations and afterwards they were screened for mutations in LGI1 gene. The single LGI1 mutation identified in this study is a novel missense variant (NM 005097.2: c.1013T > C; p.Phe338Ser) observed de novo in a sporadic patient. This is the first study involving clinical analysis of a LTLE cohort from Turkey and genetic contribution of LGI1 to ADLTE phenotype. Identification of rare LGI1 gene mutations in sporadic cases supports diagnosis as ADTLE and draws attention to potential familial clustering of ADTLE in suggestive generations, which is especially important for genetic counselling. © 2015 Elsevier B.V. All rights reserved. Introduction Lateral temporal lobe epilepsy (LTLE) is a group of conditions with specific seizure characteristics including auditory aura or aphasic symptoms with a high tendency to generalize. Non-lesional LTLE characterized by negative magnetic resonance imaging (MRI) findings has been described for a number of familial and sporadic cases. Familial non-lesional LTLE, namely Autosomal Dominant Lateral Temporal Lobe Epilepsy (ADLTE; OMIM 600512) is inherited in an autosomal dominant fashion presenting reduced penetrance with an overall estimate of 66% (Ho et al., 2012). Sporadic nonlesional LTLE, on the other hand, is known as idiopathic partial epilepsy with auditory features (IPEAF). Both ADTLE and IPEAF are Abbreviations: ADTLE, Autosomal Dominant Lateral Temporal Lobe Epilepsy; AED, Antiepileptic drugs; EEG, Electroencephalography; EPTP, Epitempin; IPEAF, Idiopathic Partial Epilepsy with Auditory Features; LGI1, Leucine-rich GliomaInactivated 1; LoC, Loss of Consciousness; LRR, Leucine-Rich Repeat; LTLE, Lateral Temporal Lobe Epilepsy; MRI, Magnetic Resonance Imaging. ∗ Corresponding author. Istanbul University Institute of Experimental Medicine, Department of Genetics, Vakif Gureba Cad. 34093, Fatih/Istanbul, Turkey. Tel.: +90212 414 2000/33318 ext; fax: +90212 532 4171. E-mail address: sibel.ugur@istanbul.edu.tr (S.A.U. Iseri). http://dx.doi.org/10.1016/j.eplepsyres.2015.12.006 0920-1211/© 2015 Elsevier B.V. All rights reserved. clinically characterized by focal seizures with typical involvement of auditory symptoms and mostly benign outcomes (Michelucci et al., 2009). Both conditions are reported to have homogenous clinical courses regarding frequency of seizures, response to treatment and disease onset with a mean age of 18-19 years (Bisulli et al., 2004a). Heterozygous variations in leucine-rich, glioma-inactivated 1 (LGI1) gene have been implicated both in ADTLE and IPEAF (Dazzo et al., 2015a). Substantial proportion of ADLTE families (up to 50%) and only very rare IPEAF cases carry inherited or de novo point mutations in LGI1, respectively (Michelucci et al., 2003; Bisulli et al., 2004b; Dazzo et al., 2015a). Small LGI1 micro-rearrangements have also been spotted in ADTLE (Fanciulli et al., 2012; Dazzo et al., 2015a). LGI1 encodes a secreted protein that is expressed predominantly in hippocampal and cortical neurons (Senechal et al., 2005). The LGI1 protein contains four leucine-rich repeat (LRR) motifs in its N-terminal domain responsible for protein-protein interactions (Kobe and Kajava, 2001) and a epitempin (EPTP) domain containing seven EPTP repeats in its C-terminal domain, which has prominent role in the development of epileptic disorders (Staub et al., 2002). Herein, we report clinical and genetic analyses of a cohort of 26 patients from Turkey exhibiting focal epilepsy with auditory features leading to identification of a novel de novo LGI1 mutation. 74 Y.F. Kesim et al. / Epilepsy Research 120 (2016) 73–78 Materials and Methods Subjects and Clinical Investigations A cohort of 26 unrelated patients with focal epilepsy and clearcut recurring auditory auras were enrolled to this study. This cohort had been followed up between the years 1996-2013 at Istanbul University Epilepsy Center (EPIMER). All patients underwent full clinical, neuroradiological and electroencephalography (EEG) examinations. Informed consents were obtained from all patients and their recruited family members in accordance with ethics approval obtained for the study from Ethics Committee of Istanbul Medical Faculty (2012/740-1058). Clinical data from each patient was collected including details of seizure types and frequency, nature of auditory aura, response to treatment, antiepileptic drugs (AED) used, ictal and interictal EEG recordings, and neuroradiological findings. Genetic Analysis All exons and exon-intron boundaries of LGI1 gene were analysed for sequence variants from genomic DNA extracted from whole blood for all patients. All sequence variants presented herein are named according to LGI1 gene transcript variant NM 005097.2. Upon identification of a de novo variant in LGI1, the relevant trio was analysed for relationship specification using the application Graphical Representation of Relationships (Abecasis et al., 2001) after whole genome genotyping with the GeneChip Mapping 250 K Nsp Array (Affymetrix Inc., Santa Clara, Calif., USA). Table 1 The characteristics of the cohort and associated phenotypes. Patient Characteristics Patients (Total: 26) N(%) Gender: Female/Male Mean age (±standard deviation) Follow-up duration (years) Age at onset of epilepsy (years) Consanguinity of the parents Family history of epilepsy Family history of ADLTE Comorbid diseases 13/13; (50%)/(50%) 34.8 ± 11.24 6.8 ± 5.5 16.83± 11.12 6 (23.1%) 10 (38.5%) 5 (19.2%) Hypertension (n = 1); diabetes mellitus (n = 1); Hashimoto’s thyroiditis (n = 1); Hodgkin lymphoma (n = 1) Seizure Characteristics* History of febrile seizures Focal and bilateral convulsive seizures Focal seizures with LOCa only Bilateral convulsive seizures and focal seizures with LOC Seizure precipitation by noises Seizure relapse after AED withdrawal Elementary auditory aura Complex auditory aura Negative auditory aura (decrease of sound etc. Bilateral perception of auditory aura Lateralized auditory aura Other coexisting aura symptoms Good prognosis (drug-responsive) EEG Findings Normal/nonspecific Focal interictal epileptic discharges 6 (23.1%) 10 (38.5%) 5 (19.2%) 11 (42.3%) 2 (7.7%) 11 (42.3%) 9 (34.6%) 13 (50%) 4 (15.4%) 18 (69.2%) 8 (30.8%) (4 left -4 right-sided) Déjà vu (n = 3), vertigo (n = 4), paresthesia (n = 3), nausea (n = 1), blurred vision (n = 1). 18 (69.2%) 78 routine EEG and 2 video-EEG 8 (30.8%) 18 (69.2%) a LOC, Loss of consciousness; The seizure types were diagnosed according to the ILAE classification in 2010 (Berg et al., 2010) * Results All 26 patients admitted to our clinic over the course of 17 years were non-lesional, i.e. their MRI findings were unremarkable and/or unrelated to their seizures. The breakdown of familial origin of LTLE in the cohort is as follows: ADTLE (5); LTLE with positive family history of epilepsy (5); sporadic LTLE (16) (Table 1). Sequence analysis of LGI1 in the cohort revealed a novel heterozygous variant only in a single case with a negative family history of epilepsy. This transition, c.1013T > C resides in exon 8 and at the protein level results in substitution of the amino acid phenylalanine at position 338 with a serine (p.Phe338Ser) in the 3rd EPTP repeat. Upon detection of this novel variant in LGI1, the unaffected family members (parents and two siblings) were recruited to the study. Their genetic screenings were accordingly negative for c.1013T > C suggesting a de novo mechanism (Fig. 1a). The de novo nature of the variant has prompted us to confirm parent offspring relationship via whole genome SNP genotyping. LGI1 c.1013T > C; p.Phe338Ser variant was not detected neither in Ensembl Genome Browser (Human release 81), which retrieves human variation information from a variety of sources including Database of Short Genetic Variations (dbSNP), the National Heart Lung and Blood Institute Exome Sequencing Project (ESP) and The Human Gene Mutation Database (HGMD-Public) or in The Exome Aggregation Consortium (ExAC) Browser. The variant was also found to be absent in 300 unrelated individuals from Turkey. The amino acid p.Phe338 is found to be evolutionary conserved from human to zebrafish (Fig. 1b) and the substitution is predicted to be damaging by in silico prediction tools, including Mutation Taster, SIFT and Polyphen. Substitution of hydrophobic and aromatic phenylalanine at position 338 with the uncharged serine may alter the structure of the EPTP repeat domain and result in a misfolded protein. This variant has been submitted to the freely accessible NCBI ClinVar Database. 42 different LGI1 gene mutations identified to date are presented in Table 2 along with the novel de novo mutation in this study. The 38-year-old male patient (E5 in Fig. 1a) with the novel variant is the youngest among three siblings of non-consanguineous parents. He had a normal developmental period and had no history of febrile seizures. He had started experiencing elementary auras (buzzing and ringing) and bilateral convulsive seizures at the age of 12 years. He had mild hypertension, which was under control with antihypertensive drugs. Neurological examination was unremarkable and his three Tesla MRI was normal. He had four EEG investigations and one of them showed nonspecific abnormalities of theta range. He was seizure-free for 7 years under carbamazepine treatment with a history of seizure recurrence upon medication withdrawal. He has been currently using carbamazepine (800 mg/day) and has 2-3 short elementary auras per month, not disturbing his quality of life. Discussion The present study describes LGI1 mutation screening in a cohort of 26 patients selected on the basis of focal epilepsy with auditory auras and absence of a symptomatic etiology. Our inclusion criterion was solely based on phenotypic distinction, rather than having a positive or negative family history. Reduced penetrance and variable expressivity of a potential LGI1 variant in the preceding generations as well as emergence of a de novo variant for the first time in the family can bias familial clustering of the condition at the time of the study. Sporadic cases arising due to such mechanisms may eventually result in dominant transmission of the condition in suggestive generations, which in turn will lead to reclassification of the condition as ADTLE. The two LGI1 mutations p.Arg136Trp and p.Arg474X (Table 2) each reported for both Y.F. Kesim et al. / Epilepsy Research 120 (2016) 73–78 75 Fig. 1. A novel de novo mutation in LGI1. (A) DNA sequence analysis of c.1013T > C variant in the relevant family. (B) The evolutionary conservation of phenylalanine at position 338 (marked with an arrow) is shown with multiple sequence alignments among human (H.sapiens; NP 005088.1), chimpanzee (P.troglodytes; NP 001065246.1), Rhesus monkey (M.mulatta, XP 001093284.1), grey wolf (C.lupus; XP 534971.2), cattle (B.taurus; NP 001040056.2), mouse (M.musculus; NP 064674.1), rat (R. norvegicus; NP 665712.1), chicken (G.gallus; NP 001038120.1), frog (X.tropicalis; NP 001072366.1) and zebrafish (D.rerio; NP 001122241.1 and NP 955921.1). (C) Schematic representation of the domain structure of LGI1 protein. LRR: leucine-rich repeat; LRRNT and LRRCT: Cysteine-rich domains residing N- and C-terminal to LRRs, respectively; EPTP: epitempin (domains are plotted to scale). sporadic and familial cases serve as good examples for this phenomenon. The single LGI1 mutation identified in this study is a novel missense change (c.1013T > C; p.Phe338Ser) observed de novo in a sporadic patient. Having identified the causative mutation, the patient is now informed about the possible transmission of the ADTLE phenotype in his future children. It is interesting to note that in families with LGI1 mutations, the most commonly reported type of auditory seizure symptoms was simple, unformed sounds (Ottman et al., 2004), similar to our patient positive for LGI1 mutation. Additionally, this patient is responsive to therapy with recurrence after drug withdrawal, which is a typical feature of reported patients with LGI1 mutations (Berkovic et al., 2004). None of the 10 LTLE patients from our cohort with a positive family history of epilepsy had LGI1 mutations, even though LGI1 mutations account for almost 50% of ADLTE families. Nevertheless, copy number variations (CNVs) have not been tested for this cohort, which are not a frequent cause of ADLTE. Dazzo et al., 2015a reported identification of only one family with a novel microdeletion spanning LGI1 exon 2 in a group of 24 ADTLE families and 140 76 Y.F. Kesim et al. / Epilepsy Research 120 (2016) 73–78 Table 2 Current catalogue of LGI1 mutations (NM 005097.2) in ADLTE and IPEAF arranged according to mutation location. The variant descriptions are checked with the ‘Name Checker’ or ‘Position Converter’ options from the Mutalyzer website (https://mutalyzer.nl/) and corrected accordingly, whenever required. Region Variation Protein Change F/S* Reference Exon 1 Exon 1 Exon 1 Exon 1 Exon 1 Exon 2 Exon 3 Exon 3 Intron 3-4 Exon 4 Exon 4 Exon 4 Exon 4 Exon 4 Intron 4-5 Intron 4-5 & Exon5 Exon 5 Exon 5 Exon 6 Exon 6 Exon 6 Exon 6 Exon 6 Exon 7 Exon 7 Intron 7-8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 Exon 8 c.77T > C c.124T > C c.124T > G c.136T > C c.137G > T c.245T > C c.329C > A c.329del c.360-3C > A c.365T > A c.365T > C c.367G > A c.377 379del c.406C > T c.431 + 1G > A c.432-2 436del c.435C > G c.461T > C c.535T > C c.598T > C c.598del c.611del c.673G > T c.695T > C c.758del c.839-2A > G c.856T > C c.893T > C c.953T > G c.1013T > C c.1050 1051del c.1075A > G c.1118T > C c.1148A > C c.1219C > T c.1295T > A c.1418C > T c.1420C > T c.1421G > A c.1477G > A c.1636 1637del c.1639dup p.Leu26Ser p.Cys42Arg p.Cys42Gly p.Cys46Arg p.Cys46Phe p.Ile82Thr p.Ala110Asp p.Ala110ValfsX8 Truncation p.Ile122Lys p.Ile122Thr p.Glu123Lys p.Asn126del p.Arg136Trp Truncation Truncation p.Ser145Arg p.Leu154Pro p.Cys179Arg p.Cys200Arg p. Cys200AlafsX40 p.Pro204GlnfsX36 p.Glu225X p.Leu232Pro p.Ala253ValfsX32 Truncation p.Cys286Arg p.Ile298Thr p.Phe318Cys p.Phe338Ser p.Asp350GlufsX31 p.Ile359Val p.Leu373Ser p.Glu383Ala p.Arg407Cys p.Val432Glu p.Ser473Leu p.Arg474X p.Arg474Gln p.Gly493Arg p.Gln546AspfsX8 p.Ile547AsnfsX8 F F F F F F F F F F F F F S, F F F F F F F F F F F F F S F F S F F F F F F F F, S F F F F Pizzuti et al., 2003 Ottman et al., 2004 Berkovic et al., 2004 Gu et al., 2002 Lee et al., 2014 Sadleir et al., 2013 Ottman et al., 2004 Hedera et al., 2004 Kalachikov et al., 2002 Striano et al., 2008 Di Bonaventura et al., 2011 Di Bonaventura et al., 2009 De Bellescize et al., 2009 Michelucci et al., 2007; Di Bonaventura et al., 2011 Chabrol et al., 2007 Sadleir et al., 2013 Hedera et al., 2004 Pisano et al., 2005 Di Bonaventura et al., 2011 Michelucci et al., 2003 Heiman et al., 2010 Kalachikov et al., 2002 Sadleir et al., 2013 Chabrol et al., 2007 Morante-Redolat et al., 2002 Kobayashi et al., 2003 Dazzo et al., 2015a Ottman et al., 2004 Fertig et al., 2003 Current study Kalachikov et al., 2002 Di Bonaventura et al., 2011 Dazzo et al., 2015a Kalachikov et al., 2002 Striano et al., 2011 Michelucci et al., 2003 Berkovic et al., 2004; Kawamata et al., 2010 Morante-Redolat et al., 2002; Bisulli et al., 2004b Kawamata et al., 2010 Heiman et al., 2010 Heiman et al., 2010 Kalachikov et al., 2002 sporadic cases with no evidence of point mutations in LGI1. Nevertheless, the clinical utility of diagnostic screening of CNVs in LGI1 are still debatable (Magini et al., 2014) (Dazzo et al., 2015a). LGI1, unlike most of the other epilepsy related genes, encodes a neuronal secreted protein instead of an ion channel subunit (Senechal et al., 2005). Secreted LGI1 presumably acts as an antiepileptogenic ligand that modulates AMPA-type glutamate receptor mediated synaptic transmission (Fukata et al., 2010). In vitro mutagenesis assays and in vivo studies with homozygous and heterozygous null mice (Lgi1-/− and Lgi1+/− ) collectively suggest that heterozygous loss-of-function alleles contribute to disease pathogenesis by haploinsufficiency (Senechal et al., 2005) (Fukata et al., 2010). It is proposed that LGI1 protein secretion and stability are altered by LGI1 mutations (Senechal et al., 2005). A rat model carrying a missense mutation (L385R) in Lgi1 has recently been generated (Baulac et al., 2012), which probably serves as a suitable model for LGI1-related epilepsies, where the majority of human LGI1 mutations (66%) are missense (Ho et al., 2012). In this model, the depletion of LGI1 protein in neurons has not been attributed only to a failure of Lgi1 secretion, but also to rapid degradation of Lgi1-L385R (Baulac et al., 2012). Interestingly, heterozygous Lgi1+/L385R rats are shown to be more susceptible to sound-induced seizures, which may be controlled by AEDs such as carbamazepine, phenytoin and levetiracetam (Fumoto et al., 2014). However, in contrast to the findings in the pertinent rat model, two sporadic patients from our cohort describing sound-induced seizures were detected negative for LGI1 mutations. In addition to haploinsufficiency, LGI1 mutations may have pathogenic effects through dominant-negative mechanisms (Zhou et al., 2009). Analysis of genes related to dominant epilepsy syndromes should both focus on familial and sporadic forms in order to get a better picture of the mutation frequency, molecular diagnosis and genetic counselling. For ADTLE, the distinctive features including auditory aura and non-lesional brain MRI findings are shared among familial and sporadic cases pointing involvement of common genes and pathways. Recently, heterozygous mutations in reelin (RELN) have been shown to be segregating in ADLTE-affected families (Dazzo et al., 2015b). Secreted RELN and LGI1 co-localize in rat brain, which support involvement of overlapping mechanisms in ADTLE pathogenesis. Nevertheless, RELN like LGI1 and further ADTLE genes yet to be identified need to be screened in large and well-defined cohorts for extensive analysis of the genotype–phenotype correlations. Conclusion In conclusion, we report identification of a novel de novo LGI1 mutation in a patient from Turkey, which both aids the Y.F. Kesim et al. / Epilepsy Research 120 (2016) 73–78 diagnosis of the condition as ADTLE and brings up more solid genetic counselling options for the patient. Conflict of Interest None of the authors has any conflicts of interest to disclose. We confirm that we have read the Journal’s position on issues involved in ethical publication and affirm that this report is consistent with those guidelines. Acknowledgements The authors are grateful to the patients and their relatives for their participation in this study. This work was supported by the grants of Scientific Research Projects Coordination Unit of Istanbul University, Project Numbers: 26263 and 26211; Istanbul Development Agency, Project Number: TR10/15/YNK/0093. FYK, EY and OO have been fellows of The Scientific and Technology Research Council of Turkey (TUBITAK) Project Number: 113S331. We also thank Assoc. Prof. Ebru Altindag, Prof. Candan Gurses and Prof. Aysen Gokyigit for referring their patients. 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