Background
The molecular cause of severe congenital neutropenia (SCN) is unknown in 30% to 50% of patients.
SEC61A1
encodes the α-subunit of the Sec61 complex, which governs endoplasmic reticulum protein transport and passive calcium leakage. Recently, mutations in
SEC61A1
were reported to be pathogenic in common variable immunodeficiency and glomerulocystic kidney disease.
Objective
Our aim was to expand the spectrum of
SEC61A1
-mediated disease to include autosomal dominant SCN.
Methods
Whole exome sequencing findings were validated, and reported mutations were compared by Western blotting, Ca2
+
flux assays, differentiation of transduced HL-60 cells,
in vitro
differentiation of primary CD34 cells, quantitative PCR for unfolded protein response (UPR) genes, and single-cell RNA sequencing on whole bone marrow.
Results
We identified a novel
de novo
missense mutation in
SEC61A1
(c.A275G;p.Q92R) in a patient with SCN who was born to nonconsanguineous Belgian parents. The mutation results in diminished protein expression, disturbed protein translocation, and an increase in calcium leakage from the endoplasmic reticulum.
In vitro
differentiation of CD34
+
cells recapitulated the patient’s clinical arrest in granulopoiesis. The impact of Q92R-Sec61α1 on neutrophil maturation was validated by using HL-60 cells, in which transduction reduced differentiation into CD11b
+
CD16
+
cells. A potential mechanism for this defect is the uncontrolled initiation of the unfolded protein stress response, with single-cell analysis of primary bone marrow revealing perturbed UPR in myeloid precursors and
in vitro
differentiation of primary CD34
+
cells revealing upregulation of CCAAT/enhancer-binding protein homologous protein and immunoglobulin heavy chain binding protein UPR-response genes.
Conclusion
Specific mutations in
SEC61A1
cause SCN through dysregulation of the UPR.