| Literature DB >> 31387860 |
Gholson J Lyon1, Elaine Marchi1, Joseph Ekstein2, Vardiella Meiner3,4, Yoel Hirsch2, Sholem Scher2, Edward Yang5, Darryl C De Vivo6, Ricardo Madrid1, Quan Li7, Kai Wang8, Andrea Haworth9, Ilana Chilton10, Wendy K Chung10, Milen Velinov1.
Abstract
Whole-exome sequencing was used to identify the genetic etiology of a rapidly progressing neurological disease present in two of six siblings with early childhood onset of severe progressive spastic paraparesis and learning disabilities. A homozygous mutation (c.2005G>T, p, V669L) was found in VAC14, and the clinical phenotype is consistent with the recently described VAC14-related striatonigral degeneration, childhood-onset syndrome (SNDC) (MIM#617054). However, the phenotype includes a distinct clinical presentation of retinitis pigmentosa (RP), which has not previously been reported in association with VAC14 mutations. Brain magnetic resonance imaging (MRI) revealed abnormal magnetic susceptibility in the globus pallidus, which can be seen in neurodegeneration with brain iron accumulation (NBIA). RP is a group of inherited retinal diseases with phenotypic/genetic heterogeneity, and the pathophysiologic basis of RP is not completely understood but is thought to be due to a primary retinal photoreceptor cell degenerative process. Most cases of RP are seen in isolation (nonsyndromic); this is a report of RP in two siblings with VAC14-associated syndrome, and it is suggested that a connection between RP and VAC14-associated syndrome should be explored in future studies.Entities:
Keywords: moderate global developmental delay; retinitis pigmentosa inversa
Mesh:
Substances:
Year: 2019 PMID: 31387860 PMCID: PMC6913149 DOI: 10.1101/mcs.a003715
Source DB: PubMed Journal: Cold Spring Harb Mol Case Stud ISSN: 2373-2873
Phenotypic features—HPO terminology
| Proband 1 (II-1) | Mother (I-1) | Father (I-2) | Sibling sister (II-6) | |
|---|---|---|---|---|
| HP:0002376 Loss of developmental skills | Y | Y | N | Y |
| HP:0002317 Unsteady gait | Y | N | N | Y |
| HP:0002307 Drooling | Y | N | N | N |
| HP:0012179 Delayed speech | Y | N | N | Y |
| HP:0006957 Loss of ability to walk | Y | N | N | Y |
| HP:0006957 Hypotonia | Y | N | N | Y |
| HP:0000007 Autosomal recessive inheritance | Y | Y | Y | Y |
| HP:0001561 Polyhydramnios | N/A | Y | N | N |
| HP:0009381 Short fingers | Y | Y | N/A | Y |
| HP:0001263 Global developmental delay | Y | N/A | N/A | Y |
| HP:0000750 Delayed speech and language | Y | N/A | N/A | Y |
| HP:0002015 Dysphagia | Y | N/A | N/A | Y |
| HP:0001167 Abnormality of finger | N | Y | N/A | N/A |
| HP:0000518 Cataract | Y | N/A | N/A | Y |
(N/A) Not available, (Y) yes, present, (N) no, not present.
Figure 1.Family pedigree: ancestry is Sephardic and Ashkenazim Syrian Jewish. Affected probands (confirmed to be homozygous for V669L/ V669L in VAC14) are marked with black-filled symbols. Carriers (verified by sequencing to be heterozygous WT/V669L in VAC14) are marked with a dot in the symbol. Proband 1: age 21, male, developmental delays, spastic paraplegia, RP, basal ganglia anomaly, speech problems, premature birth at 34 wk. Sibling 2: age 20, female; sibling 3: age 18, female; sibling 4: age 20, male; sibling 5: age 14, female; sibling 6 (Proband 2): age 4, mild developmental delays, hypotonia, nondysmorphic, RP; mother: age 44, clubfoot, abnormal fingers and toes, bruises easily, with five siblings: female age 40, female age 31 (has child with craniosynostosis), brother age 38, brother age 39, sister age 31 with clubfoot, hydrocephalus s/p shunt, abnormal finger and toe formation; father: age 51; the ages of the paternal siblings are not known. Parents are second cousins once removed. Consanguinity in the pedigree, as maternal grandparents are first cousins. History of night blindness with the paternal uncle and paternal great uncle of the probands (marked with cross-hatching in the pedigree).
Quality metrics of exome sequencing data from Otogenetics
| Affected brother | Affected sister | Father | Mother | |
|---|---|---|---|---|
| TOTAL_READS (Mb) | 37.73 | 43.9 | 43.0 | 39.2 |
| MEAN_COVERAGE (×) | 67.9 | 79.3 | 75.0 | 70.3 |
| PF_UNIQUE_READS | 37.7 | 43.9 | 43.0 | 39.2 |
| Average aligned reads (%) | 98.8 | 98.7 | 98.7 | 98.6 |
Genomic/exome findings
| Gene | Chromosome | HGVS DNA reference | HGVS protein reference | Variant type | Predicted effect (substitution, deletion, etc.) | dbSNP/ dbVar ID | Genotype (heterozygous/homozygous) | ClinVar ID (optional) | Parent of origin (optional) |
|---|---|---|---|---|---|---|---|---|---|
| Chr 16: 70729477a | NM_018052 | c.2005G>T, p. V669L | Missense | Substitution | rs1363536856 | Homozygous | Pending, SUB5893230 | Biparentally inherited |
aUsing Human February 2009 (GRCh37/hg19) Assembly.