Following genome-wide homozygosity mapping in a large cohort of Dutch RP patients,
13 five patients with homozygous regions of at least 2 Mb encompassing
FAM161A were analyzed for mutations in this gene. In one individual (P1), a homozygous nonsense mutation was identified, c.1309A>T; p.(Arg437*) (
Fig. 1A). This mutation had previously been identified in three German families segregating arRP.
3 To further explore the prevalence of this mutation in the Dutch and Belgian populations, ARMS analysis was performed for this mutation (
Fig. 1A). Of 284 patients, 2 additional patients carried the p.(Arg437*) mutation in a homozygous state (P2 and P3), whereas 4 individuals were heterozygous carriers of this mutation. Screening of the coding region revealed a second heterozygous mutation in three of them, that is, P6 carried a 1-bp deletion leading to a frameshift and the incorporation of a premature stop codon (c.1501del, p.[Cys501Valfs*4]), P7 carried a second nonsense mutation (c.1567C>T, p.[Arg523*]), and P8 carried a mutation abolishing the 5′ splice site of the first intron (c.183+1G>T). No second exonic mutation was detected in the fourth heterozygous carrier P
het. Copy number variations of the coding region of
FAM161A as a potential second mutation were excluded by genomic qPCR analysis. Since the expression of
FAM161A is known to be strictly regulated by the retinal transcription factor CRX, reflected by the association of the gene with two evolutionarily conserved upstream and intronic CBRs respectively (
Supplementary Fig. S1), we hypothesized that disruption of the binding sequence for CRX could alter the regulation of this gene.
14 Hence, both CBRs were sequenced for this individual but no sequence variation was identified. Interestingly, P
het had two nieces with RP, whose DNA was not present in the initial cohort. Sanger sequencing subsequently revealed the p.(Arg437*) mutation to be present in homozygous state in these two sisters (P4 and P5). Of note, both sisters also carry a heterozygous mutation in
RPE65 (c.11+5G>A) that is recurrently present in the village where they live. In total, eight individuals were identified with biallelic mutations in
FAM161A, with the p.(Arg437*) representing at least one of the two alleles in all cases. All
FAM161A mutations identified in this study are depicted in
Figure 1B.