| Literature DB >> 35591852 |
Nan Li1, Harvest F Gu2.
Abstract
The SLC12A3 (Solute carrier family 12 member 3) gene encodes a sodium-chloride cotransporter and mediates Na+ and Cl- reabsorption in the distal convoluted tubule of kidneys. An experimental study has previously showed that with knockdown of zebrafish ortholog, slc12a3 led to structural abnormality of kidney pronephric distal duct at 1-cell stage, suggesting that SLC12A3 may have genetic effects in renal disorders. Many clinical reports have demonstrated that the function-loss mutations in the SLC12A3 gene, mainly including Thr60Met, Asp486Asn, Gly741Arg, Leu859Pro, Arg861Cys, Arg913Gln, Arg928Cys and Cys994Tyr, play the pathogenic effects in Gitelman syndrome. This kidney disease is inherited as an autosomal recessive trait. In addition, several population genetic association studies have indicated that the single nucleotide variant Arg913Gln in the SLC12A3 gene is associated with diabetic kidney disease in type 2 diabetes subjects. In this review, we first summarized bioinformatics of the SLC12A3 gene and its genetic variation. We then described the different genetic and biological effects of SLC12A3 in Gitelman syndrome and diabetic kidney disease. We also discussed about further genetic and biological analyses of SLC12A3 as pharmacokinetic targets of diuretics.Entities:
Keywords: SLC12a3; diabetic kidney disease; genetic variant; gitelman syndrome; sodium and chloride reabsorption
Year: 2022 PMID: 35591852 PMCID: PMC9111839 DOI: 10.3389/fgene.2022.799224
Source DB: PubMed Journal: Front Genet ISSN: 1664-8021 Impact factor: 4.772
FIGURE 1A schematic diagram of SLC12A3 as a transmembrane protein to transport Na+ and Cl− from extra- to intra-cellular luminal sides in a renal distal convoluted tubule epithelial cell and its dysfunction in Gitelman syndrome. SLC12A3 is a protein composed of cytoplasmic topological domains and helical transmembrane regions and flanked by a short amino-terminal domain (NH2) and a long carboxyterminal domain (COOH). (A) In heathy subjects, most of the Na+ and Cl− in distal convoluted tubule (DCT) of kidneys is reabsorbed by this protein. (B) In individuals with Gitelman syndrome, the dysfunction of SLC12A3 by inactivating mutations results in decreased reabsorption of Na+ and Cl− in DCT. As a heterotrimer, sodium channel epithelial 1 subunits alpha, beta, and gamma (SCNN1A, B and G) in the connecting tubule (CNT) and cortical collecting duct (CCD) function with co-reabsorption of Na+. While SLC12A3 is dysfunctional, SCNN1 (also known as ENaC) activity is compensatory increased, resulting in a greater tubular secretion of K+ and other ions (Mg2+and Na+) (Colussi et al., 1997).
Bioinformatics of the SLC12A3 gene.
| Gene symbol |
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| Aliases | Solute Carrier Family 12 Member 3 |
| Thiazide-Sensitive Sodium-Chloride Cotransporter | |
| Na-Cl Cotransporter | |
| Na-Cl Symporter | |
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| ID in gene databases | HGNC: |
| Entrez Gene: | |
| Ensembl: | |
| OMIM: | |
| UniProtKB: | |
| Chromosomal localization | 16q13 |
| Genomic locations | chr16:56,865,207-56,915,850 (GRCh38/hg38) |
| RefSeq DNA Sequence NC_000016.10 | |
| Size: 50,644 bases; Orientation: Plus strand | |
| Protein | Accession: P55017 |
| Second accessions: A8MSJ2; C9JNN9 | |
| Size: 1021 amino acids | |
| Molecular mass: 113139 Da | |
| RefSeq mRNAs |
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| miRNAs | hsa-miR-136-5p; hsa-miR-335-5p; hsa-miR-515-5p; hsa-miR-519e-5p; hsa-miR-623; hsa-miR-629-3p; hsa-miR-676-3p; hsa-miR-1273e; hsa-miR-2355-3p; hsa-miR-4287; hsa-miR-4329; hsa-miR-4469; hsa-miR-4524a-3p; hsa-miR-4685-3p; hsa-miR-4780; hsa-miR-5680; hsa-miR-6867-3p; hsa-miR-6780b-3p; has-miR-6863; hsa-miR-7113-3p |
| Biological function | This gene encodes a renal thiazide-sensitive sodium-chloride cotransporter that is important for electrolyte homeostasis. This cotransporter mediates sodium and chloride reabsorption in the distal convoluted tubule |
| Diseases associated | Many mutations in this gene cause Gitelman syndrome, which is characterized by hypokalemic alkalosis combined with hypomagnesemia, low urinary calcium, and increased renin activity associated with normal blood pressure. SNV Arg913Gln in this gene is associated with diabetic kidney disease |
| Drug target | It is the target for thiazide diuretics that are used for treating high blood pressures |
FIGURE 2The SLC12A3 gene expression at mRNA levels in different tissues. The SLC12A3 gene expression at mRNA levels is predominant in kidneys, but low in adrenal gland, spleen, small intestine, and other tissues.
Clinical characteristics and genetic disease classification of Gitelman syndrome and diabetic kidney disease.
| Disease name | Gitelman syndrome (GS) | Diabetic kidney disease (DKD) |
|---|---|---|
| Synonyms | Gitelman’s syndrome | Diabetic nephropathy |
| Familial hypokalemia-hypomagnesemia | ||
| Common clinical symptoms | Hypokalemic metabolic alkalosis in combination with significant hypomagnesemia and low urinary calcium excretion | Elevated blood glucose levels, increased hemoglobin A1c, and increased urinary albumin excretion |
| Often muscle weakness and tetany, accompanied by abdominal pain, vomiting and fever. Paresthesias, especially in the face | Early glomerular filtration rate decline, serum uric acid; concomitant microvascular complications; and positive family history | |
| Growth | Normal but can be delayed in the GS patients with severe hypokalemia and hypomagnesemia | Normal |
| Age | >6 years old and usually diagnosed during adolescence or adulthood | >40 years old and diagnosed during adulthood or old age |
| Blood pressures | Lower than that in the general population | Higher systolic blood pressure |
| Cardiology issue | Sudden cardiac arrest, occasionally | Often associated with cardiovascular diseases |
| Classification of genetic diseases | Autosomal recessive inherited disease | Polygenic genetic disease |
| Susceptibility gene |
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SLC12A3: solute carrier family 12 (Sodium/Chloride transporter), member 3.
Genetic variation in the SLC12A3 gene in Gitelman syndrome.
| Genetic variants | Exon | |
|---|---|---|
| Missense mutation | Met1Leu; Thr60Met*; Asp62Asn; Glu68Lys; His69Asn; Tyr70Cys; Arg83Gln | Exon 1 |
| Glu131Lys | Exon 2 | |
| Arg145His; Val153Met; Arg158Gln; Thr163Met | Exon 3 | |
| Trp172Arg; Ser178Leu; Thr180Lys; Gly186Asp; Gly196Val | Exon 4 | |
| Gly201Asp; Arg209Gln; Leu215Pro; Ala226Pro; Gly230Asp; Val242Ala | Exon 5 | |
| Arg261Cys; Gly264Ala; Leu272Pro; Met279Rrg | Exon 6 | |
| Thr304Met; Ala313Val*; Ser314Phe; Gly316Val | Exon 7 | |
| Thr339Ile; G342A; Pro349Leu; A356V; Asn359Lys | Exon 8 | |
| Ala370Pro; G374V; Thr382Met; Tyr386Cys | Exon 9 | |
| Arg399Cys; Ser402Phe; Asn406His; Gly421Arg; Asn426Lys; Cys430Gly; Gly439Ser; Gly439Val; Cys421Phe; Thr428Ile; Asn442Lys | Exon 10 | |
| Gly463Arg; Ala464Thr; Lys478Glu | Exon 11 | |
| Asp486Asn*; Gly496Cys; Arg507Cys; Ala523Thr | Exon 12 | |
| Asn534Lys; Phe535Leu; Leu542Pro; Phe545Leu; Ser555Leu | Exon 13 | |
| P560H; Asn566Lys; Ala569Val; Ala569Glu; Leu571Pro; Val578Met; Aal588Val | Exon 14 | |
| Asn611Thr; Gly613Ser; Ser615Leu; Ser615Trp; Gln617Arg; Leu623Pro; Ser628Trp; Gly630Val; His637Tyr; Asn640Ser; Arg642His; Arg642Cys | Exon 15 | |
| Val647Met; Thr649Met; Thr649Arg; Arg655Cys; Arg655His; Arg655Leu; Val659Met; M672I; Val677Met; Val677Leu | Exon 16 | |
| Leu700Pro; Ser710X | Exon 17 | |
| Ala728Thr; Gly729Val; Gly731Arg; Gly741Arg* | Exon 18 | |
| Gly800Trp; Gly800Arg | Exon 20 | |
| Asp841Gly; Trp844X | Exon 21 | |
| Leu849His; Leu850Pro; Arg852Cys; Arg852Ser; Leu859Pro*; Arg861Cys*; Arg861His; G867S; Arg871His | Exon 22 | |
| Arg896Gln; Arg904Gln; Arg913Gln* | Exon 23 | |
| Arg919Cys; Arg928Cys* | Exon 24 | |
| Arg955Gln; Arg958Gly; Arg964Gln; S967F; Ser976Phe; Arg977X | Exon 25 | |
| Gly980Arg; Cys985Tyr; Cys994Tyr*; Arg1009Gln; Asn1014Lys; Val1015Met; Thr1026Ile | Exon 26 | |
| Insertion/Deletion | c.234delG | Exon 1 |
| c.346-353delACTGATGG | Exon 2 | |
| c.492-496delTACGGinsA | ||
| c.486-490delTACGGinsA | Exon 3 | |
| c.806insTTGGCGTGGTCTCGGTCA | Exon 6 | |
| IVS7-1G > A g.7427_7438del/insCCGAAAATTTT | Ivs7,ex8 | |
| c.965-1 969delGCGGACinsACCGAAA | Exon 8 | |
| c.976-977delGT | ||
| c.1384delG | Exon 11 | |
| c.2454-2461delCAAGGCCC | Exon 21 | |
| c.2850-2851delAG | Exon 24 | |
| c.2877-2878del | ||
| c.2883-2884delAG | ||
| c.2969insGCT | Exon 26 | |
| Single nucleotide variant | c.506-1G > A | Intron 3 |
| c.965-2_965-1dup | Exon 7 | |
| c.1095+4A > G | Exon 8 | |
| c.1670-8C > T | Exon 14 | |
| IVS16-2A > G | Ivs16,ex17 | |
| c.2883+1G > T | Exon 24 | |
X, stop codon; dup, duplication; * Minor allele frequency >3%.
FIGURE 3The most common missense mutations in the SLC12A3 gene. (A) A schematic diagram has shown that the most common missense mutations, including Thr60Met, Asp486Asn, Gly741Arg, Leu859Pro, Arg861Cys, Arg913Gln, Arg928Cys and Cys994Tyr, are located in exons 1, 12, 18, 22, 23, 24 and 26 of the SLC12A3 gene. (B) Topological analyses have indicated that all these missense mutations result in the changes of cytoplasmic topological domain but not in helical transmembrane. (C) The changes of SLC12A3 protein structure with each missense mutation are predicted respectively by using the AlphaFold (Jumper et al., 2021).