| Literature DB >> 31714027 |
Li Yang1,2, Jing Liu1, Quanping Su3, Yufen Li2, Xiaofan Yang1, Liyun Xu2, Lili Tong1, Baomin Li1.
Abstract
BACKGROUND: PCDH19 has become the second most relevant gene in epilepsy after SCN1A. Seizures often provoked by fever.Entities:
Keywords: zzm321990PCDH19zzm321990; epilepsy; females; fever; later-onset
Mesh:
Substances:
Year: 2019 PMID: 31714027 PMCID: PMC6908879 DOI: 10.1002/brb3.1455
Source DB: PubMed Journal: Brain Behav Impact factor: 2.708
Pathogenicity assessment of PCDH19 mutations
| Family | Mutation type | Position: Chr X | Exon | Domain | Amino acid changes | Consequence at the protein level | Parents' analysis | ACMG scoring | ACMG pathogenicity | Reported/Novel |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Frameshift | 100408021 | 1 | EC2 | c.577delG | p.Glu193Lysfs*19 | Paternal | PVS + PM1 + PM2 | P | N |
| 2 | Frameshift | 99662504–99662505 | 1 | EC4 | c.1091dupC | p.Tyr366Leufs*10 | Paternal | PVS + PS1 + PM1 | P | Y |
| 3 | Missense | 99662454 | 1 | EC4 | c.1142A > G | p.Asn381Ser | Paternal | PM1 + PM2 + PP3 + PP4 | LP | N |
| 4 | Nonsense | 99661792 | 1 | EC6 | c.1804C > T | p.Arg602* | De novo | PVS + PS1 + PS2 + PM1 + PM2 | P | Y |
| 5 | Frameshift | 99662504–99662505 | 1 | EC4 | c.1091dupC | p.Tyr366Leufs*10 | De novo | PVS + PS1 + PS2 + PM1 | P | Y |
| 6 | Frameshift | 99551862 | 6 | CP | c.2859_2860insT | p.Gly954Trpfs*15 | De novo | PS2 + PM2 | VUS | N |
| 7 | Frameshift | 99663460–99663462 | 1 | EC1 | c.134_135del | p.Asp45Glyfs*43 | De novo | PVS + PS1 + PS2 + PM1 + PM2 | P | Y |
| 8 | In frame | 99663242–99663244 | 1 | EC1 | c.352_354del | p.Glu118del | De novo | PS2 + PM1 + PM2 + PM4 | P | N |
| 9 | Missense | 99662806 | 1 | EC3 | c.790G > C | p.Asp264His | De novo | PS1 + PS2 + PM1 + PM2 + PP3 | P | Y |
| 10 | Large deletion | 1–6 | Deletion of exons 1 to 6 | Absence of protein synthesis | De novo | P | Y |
Abbreviations: CP, cytoplasmic domain; EC, extracellular cadherin domains; LP, likely pathogenic; N, no; P, pathogenic; TM, transmembrane; Y, yes.
Figure 1Schematic diagram of the mutations identified in the PCDH19 gene. CM1 and CM2, cytoplasmic domains 1 and 2; EC, extracellular cadherin domain; SP, signal peptide; TM, transmembrane domain
Figure 2Sequence chromatograms and conversation of amino acid residues affected by the missense mutations. Sequence chromatograms of a PCDH19 mutation as detected in an affected female is shown for each family. Mutation nomenclature is based on the PCDH19 transcript reference EF676096. The red arrow upon orthologous and paralogous protein alignments showing the high conservation of each amino acid altered by missense mutations in vertebrates and in the delta 2 protocadherin paralogous genes
Pathogenicity assessment and conservative analysis of 2 missense mutations
| Family | Domain | Amino acid changes | Consequence at the protein level | Parents' analysis | SIFT | Polyphen 2 | MutationTaster | GERP++ |
|---|---|---|---|---|---|---|---|---|
| 3 | EC4 | c.1142A > G | p.Asn381Ser | Paternal | Damaging | Probably damaging | Disease causing | 5.95 (Conserved) |
| 9 | EC3 | c.790G > C | p.Asp264His | De novo | Damaging | Probably damaging | Disease causing | 5.95 (Conserved) |
Abbreviation: EC, extracellular cadherin domains.
Figure 3Identification of the PCDH19 deletion in family 10. Y‐axes represent log R ratio; the X‐axis indicates the position on the X chromosome
Figure 4Pedigrees of three females with PCDH19‐GCE families. It showing the characteristic inheritance pattern of affected females and transmitting males. Squares represent males, circles females; Upper left corner: focal seizures; Upper right corner: generalized seizures; Lower right corner: psychosis; Lower left corner: Epilepsy of unknown type. Dots in the middle of the squares indicate unaffected mutation carriers. The arrows indicate the proband in the family
The clinical manifestations of the female epileptic patients with PCDH19 mutations
| Family | Patient | Age at exam (years.month) | Onset age (years.month) | Type of seizures | SE | Seizures in cluster | Sensitivity to fever | Intellectual disability | Language delay | Autism | Psychosis | Brain MRI | Interictal EEG | Onset area of focal sz | The last follow‐up | ||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Present age | Current AEDs | Seizure frequency | |||||||||||||||
| 1 | 1 | 5.6 | 2.6 | Focal | N | Y | Y | Mild | Mild | N | N | Normal | Normal | Left frontal | 7.5 | LEV/VPA | Seizure free for 2 years |
| 1 | 2 | 2.3 | 0.6 | Focal | N | Y | Y | Moderate | Moderate | N | N | Normal | Normal | Right frontal | 4.2 | LEV/VPA/TPM | Seizure free for 1 year |
| 1 | 3 | 28 | 8 |
GTCS Focal | N | Y | Y | Moderate | Moderate | N | N | Normal | Normal | NA | 30 | N | Seizure free for 13 years |
| 1 | 4 | 3 | NA | NA | NA | NA | Moderate | Moderate | N | Y | NA | NA | NA | NA | NA | ||
| 1 | 5 | 3 | NA | NA | NA | NA | Moderate | Moderate | N | N | NA | NA | NA | NA | NA | ||
| 2 | 6 | 6 | 1.5 | Focal | N | Y | Y | Very mild | N | N | N | Normal | Normal | NA | 7 | OXC/CZP | Seizure free for 2 years |
| 2 | 7 | 6 | 1.9 | Focal | N | Y | Y | Very mild | N | N | N | Normal | Normal | NA | 7 | OXC/CZP | Seizure free for 2 years |
| 2 | 8 | 56 | 20 | Focal | N | Y | N | N | N | N | N | Normal | Normal | NA | 57 | CZB | Seizure free for 3 years |
| 3 | 9 | 2.1 | 1.1 |
GTCS Focal | N | Y | Y | N | N | N | N | Normal | Normal | NA | 2.3 | VPA | 1–2 clusters a year |
| 4 | 10 | 1 | 0.5 |
GTCS Focal | N | Y | Y | Mild | Moderate | N | N | Normal | Normal | Right parietal | 2.2 | VPA/TPM/CZP | Seizure free for 1 year |
| 5 | 1 | 1.11 | 0.11 | Focal | N | Y | Y | Moderate | Moderate | N | N | Normal | FD | Right frontal | 3 | VPA | Seizure free for 1 year |
| 6 | 12 | 2.6 | 1.4 | Focal | N | Y | Y | Moderate | Moderate | N | N | Normal | Normal | Left occipital | 3.8 | VPA/TPMNZP/OXC | 3–4 clusters a year |
| 7 | 13 | 5.5 | 3.4 | Focal | N | Y | Y | Very mild | N | N | N | Normal | FD | Left frontal | 7.6 | VPA | Seizure free for 2 years |
| 8 | 14 | 6 | 0.7 | Focal | N | Y | Y | Mild | Mild | N | N | Enlargement of lateral ventricular | FD | NA | 9.6 | VPA/TPMLTG/OXC | 1–2 clusters a year |
| 9 | 15 | 0.10 | 0.8 |
GTCS Focal | N | Y | Y | Mild | Mild | N | N | Enlargement of ventricular and subarachnoid space in left brain | Multi. FD | Right parietal | 2.1 | VPA/TPM | 1–2 clusters a year |
| 10 | 16 | 7.8 | 1.6 |
GTCS Focal | N | Y | Y | Moderate/severe | Moderate | N | N | Normal | Normal | NA | 9.2 | LEV/VPA/TPM | 1–2 clusters a year |
Abbreviations: AEDs, antiepileptic drugs; CBZ, carbamazepine; CZP, clonazepam; FD, focal discharge; Focal, focal motor seizures; GTCS, generalized tonic‐clonic seizures; LEV, levetiracetam; LTG, lamotrigine; Multi. FD, multifocal discharge; N, none; NA, not available; NZP, nitrazepam; OXC, oxcarbazepine; TPM, topiramate; VPA, sodium valproate; Y, yes.
Figure 5Ictal EEG and EMG tracing of patient No. 10 in family 4. Rapid spikes followed by sharp waves, predominant on the right central‐parietal regions corresponding to rhythmic shaking of left limbs and eyelids