Abstract
SLC4A4 variants are the etiologies of inherited proximal renal tubular acidosis (pRTA), which results in metabolic acidosis, hypokalemia, glaucoma, band keratopathy, and cataract. This study aims to characterize SLC4A4 variant and uniparental isodisomy of chromosome 4 in a patient, and analyse the functional characterization of SLC4A4 variants. This study analyzed renal tubular acidosis disease genes by whole exome sequencing (WES). H3M2 algorithm was used to analyze the run of homozygosity region in chromosomal regions in trio-WES data. The pathogenicity analysis of variants was performed using bioinformatics tools. Additionally, protein stability was analyzed by cycloheximide chase assay. Whole-cell patch clamping was used to examine the electrophysiological properties of NBCe1-A. A novel homozygous SLC4A4 variant was identified in the patient: a missense variant c.496C > T, p. Arg166Trp (NM_003759.4). But the father was heterozygous variant carrier, and the mother did not detect the variant. The H3M2 and UPDio algorithm revealed paternal uniparental isodisomy on chromosome 4 in the patient. SIFT, Poly Phen-2, FATHMM and Mutant Taster showed that the variant might be pathogenic. The tertiary structure analysis showed that the variant could cause structural damage to NBCe1 protein. Foldx results showed that the protein stability of the variant was slightly reduced. Cycloheximide chase assay demonstrated that the variant affects protein stability. The result of electrophysiological studies showed that the variant altered Na+/HCO3− cotransport activity of protein. In conclusion, the study is the first to report a pRTA patient with Arg166Trp variant with UPiD (4) pat and analyze the function of Arg166Trp variant.
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Data from the study can be obtained from the corresponding author.
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Funding
This work was supported by the Public Health and Technology Project of Tianjin [Grant number TJWJ2021ZD007], the Program of Tianjin Science and Technology Plan [Grant number 21JCZDJC00390], and the Tianjin Key Medical Discipline (Specialty) Construction Project [Grant number TJYXZDXK-040A].
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WHW, CQC: writing-review & editing, project administration, funding acquisition. XTW, SYZ, FYZ: bioinformatics analysis. YL, WCS, SWH: data curation, methodology, functional analysis, investigation, writing-original draft. MZH, YZ: functional analysis.
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Liu, Y., Sheng, W., Hou, S. et al. Functional Characterization of a Novel SLC4A4 Variant and Uniparental Isodisomy in Proximal Renal Tubular Acidosis Patient. Biochem Genet (2023). https://doi.org/10.1007/s10528-023-10554-y
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DOI: https://doi.org/10.1007/s10528-023-10554-y