Literature DB >> 32274456

Autosomal Dominant Tubulointerstitial Kidney Disease-Uromodulin Misclassified as Focal Segmental Glomerulosclerosis or Hereditary Glomerular Disease.

Justin Chun1,2, Minxian Wang1,3, Maris S Wilkins1, Andrea U Knob1, Ava Benjamin1, Lihong Bu4, Martin R Pollak1.   

Abstract

INTRODUCTION: Focal segmental glomerulosclerosis (FSGS) is a histopathologically defined kidney lesion. FSGS can be observed with various underlying causes, including highly penetrant monogenic renal disease. We recently identified pathogenic variants of UMOD, a gene encoding the tubular protein uromodulin, in 8 families with suspected glomerular disease.
METHODS: To validate pathogenic variants of UMOD, we reviewed the clinical and pathology reports of members of 8 families identified to have variants of UMOD. Clinical, laboratory, and pathologic data were collected, and genetic confirmation for UMOD was performed by Sanger sequencing.
RESULTS: Biopsy-proven cases of FSGS were verified in 21% (7 of 34) of patients with UMOD variants. The UMOD variants seen in 7 families were mutations previously reported in autosomal dominant tubulointerstitial kidney disease-uromodulin (ADTKD-UMOD). For one family with 3 generations affected, we identified p.R79G in a noncanonical transcript variant of UMOD co-segregating with disease. Consistent with ADTKD, most patients in our study presented with autosomal dominant inheritance, subnephrotic range proteinuria, minimal hematuria, and renal impairment. Kidney biopsies showed histologic features of glomerular injury consistent with secondary FSGS, including focal sclerosis and partial podocyte foot process effacement.
CONCLUSION: Our study demonstrates that with the use of standard clinical testing and kidney biopsy, clinicians were unable to make the diagnosis of ADTKD-UMOD; patients were often labeled with a clinical diagnosis of FSGS. We show that genetic testing can establish the diagnosis of ADTKD-UMOD with secondary FSGS. Genetic testing in individuals with FSGS histology should not be limited to genes that directly impair podocyte function.
© 2020 International Society of Nephrology. Published by Elsevier Inc.

Entities:  

Keywords:  ADTKD; FSGS; UMOD; UMOD-associated kidney disease; autosomal dominant tubulointerstitial kidney disease; chronic kidney disease; exome sequencing; glomerular disease; uromodulin

Year:  2020        PMID: 32274456      PMCID: PMC7136358          DOI: 10.1016/j.ekir.2019.12.016

Source DB:  PubMed          Journal:  Kidney Int Rep        ISSN: 2468-0249


FSGS is the most common pattern of histologically defined glomerular injury to cause end-stage kidney disease in the United States. Glomerular diseases including FSGS are the third most common cause of end-stage renal disease preceded only by diabetes and hypertension. FSGS can have primary (idiopathic), secondary, and genetic causes. Idiopathic causes of FSGS often present clinically with the nephrotic syndrome (heavy proteinuria, hypoalbuminemia, and peripheral edema and sometimes dyslipidemia and a prothrombotic state). The most characteristic feature on electron microscopy is widespread podocyte foot process effacement. There are many secondary causes of FSGS that are usually a reflection of a response to insults such as viral infections, medication-induced changes, and adaptive responses to reduced nephron mass. Secondary FSGS usually presents clinically with less severity and sometimes an insidious onset with subnephrotic range proteinuria. Often, patients diagnosed with FSGS have no identifiable cause following an extensive workup for secondary causes. Identifying familial causes of FSGS has been an intense area of research. Over the past 2 decades, mutations in numerous genes have been identified that lead to progressive chronic kidney disease (CKD) and adult-onset FSGS through Mendelian or mitochondrial inheritance patterns., The genetic variants encoding proteins associated with FSGS are known to localize to compartments within the glomeruli. Many proteins encoded by genes found to be mutated in FSGS are essential for podocyte structure and/or function. Most monogenic glomerular diseases, such as INF2, ACTN4, TRPC6, ARHGAP24, ANLN, PODXL, and WT1, are thought to have direct effects on podocytes. By contrast, several groups have reported pathogenic variants of COL4A3/A4/A5 in patients with FSGS.7, 8, 9 Malone et al. reported patients with novel variants of COL4A3 or COL4A4 from a cohort of 70 families diagnosed as hereditary FSGS. Defects in the glomerular basement membrane as a result of COL4A mutations were shown to have a pattern of secondary FSGS on the kidney biopsy. In addition, there is evidence for tubular disorders leading to FSGS, such as CLCN5 and SLC12A1, which are mutated in Dent disease and type 1 Bartter syndrome, respectively., More recently, Snoek et al. identified a variant of HNF1B in an adult patient who presented with a picture of FSGS. PAX2 localizes to glomerular parietal epithelial cells and has been associated with FSGS, but how PAX2 mutations affect podocytes or contribute to FSGS remains unclear.14, 15, 16 These studies suggest that podocyte injury and FSGS may be initiated by alterations in kidney cells, such as tubular cells that reside outside of the glomeruli. UMOD encodes uromodulin, formerly known as Tamm-Horsfall glycoprotein, which is the most abundant protein in normal urine. There are more than 100 mutations that have been identified in UMOD. Pathogenic variants have been found to be concentrated in exons 3 and 4, often affecting cysteine residues. Mutations have been thought to contribute to improper folding of uromodulin, leading the unfolded protein response, endoplasmic reticulum stress, and apoptosis. UMOD variants can cause ADTKD, also known as ADTKD-UMOD. ADTKD-UMOD, previously referred to as medullary cystic kidney disease 2 and familial juvenile hyperuricemic nephropathy, is characterized by a family history with autosomal dominant inheritance, bland urine sediment with minimal proteinuria, and a slow progressing kidney disease with end-stage renal disease developing between the ages of 20 and 70.,, Hyperuricemia, early-onset gout, and renal cysts are sometimes present. ADTKD-UMOD is a difficult condition to diagnose, requiring a high clinical suspicion and confirmation by genetic testing. In this study, we describe the association of UMOD variants in a cohort of patients with suspected hereditary glomerulonephritis or familial FSGS. We characterize 8 families previously identified to have pathogenic variants of UMOD by exome sequencing. We confirm by Sanger sequencing that all members had variants of UMOD. Our results underline the importance of genetic testing in diagnosing ADTKD-UMOD correctly. Furthermore, we demonstrated that pathogenic UMOD variants well-established to cause tubular injury can have a phenotypic presentation of FSGS.

Methods

Samples and Clinical Data From Human Subjects

Institutional Review Board approval was obtained from the Beth Israel Deaconess Medical Center (Boston, MA). Using a subset of patient data and samples from our previous study, 8 families with UMOD mutations were analyzed for clinical correlation. All families included in this study had an autosomal dominant inheritance pattern. Clinical information was obtained from questionnaires, telephone interviews, electronic mail communications, physician reports, and kidney biopsy data. Inclusion criterion for this study was UMOD mutation–confirmed Sanger sequencing in our cohort of patients with suspected FSGS and/or FSGS reported on kidney biopsy. The biopsy reports reviewed contained the description of FSGS and/or podocyte foot process effacement but with no features of immune deposition or proliferative diseases. Human genomic DNA was isolated with standard methods using the Oragene self-collection kit (DNA Genotek, Kanata, Ontario, Canada) for saliva samples and the QIAamp DNA Blood Midi Kit (Qiagen, Hilden, Germany) for blood samples.

Sanger Sequencing

The disease-causing variants of UMOD were verified using Sanger sequencing. Exon-flanking primers were used to sequence both strands of all affected and randomly selected unaffected patients. HotStarTaq DNA Polymerase (Qiagen) and a C100 Thermal Cycler (Bio-Rad, Hercules, CA) was used to generate polymerase chain reaction products that were sequenced by GENEWIZ. Primer sequences are listed in Table 1. Sequence chromatograms were analyzed using SnapGene Viewer 4.1.
Table 1

Primer sequences for UMOD used in this study

FamilyForward primerReverse primer
FGCM, FGCO, FGGRTGCCCACCACATTGACACATTTCTGTCCACAGGATGGTGC
FGDC, FGJFACTCACAGTGCCATCCATCCAACCCTGAAGCTGGGCTTTT
FGJDAGCCTCTTGCCGGCTTTAATGAGTGTCACCTGGCGTACTG
FGITGGATGAGGACTGTGGGGAGAGGATGGATGGCACTGTGAGT
Primer sequences for UMOD used in this study

Statistics and Circle Pedigree

Fisher’s exact test was used to access the significance of the enrichment of rare variant between case and control families; the test was performed by the exact2x2 library of R (Version 3.5.1; R Foundation for Statistical Computing, Vienna, Austria, https://www.R-project.org). The circle pedigrees were plotted by in-house Python and JavaScript scripts based on D3.js. The source code is freely available from author’s github at https://github.com/wavefancy/CircularPedigreeTree.

Results

Mutations in UMOD Are Associated With Familial CKD of Seemingly Glomerular Origin

In our recent exome sequencing analysis of 662 exomes of individuals with suspected or biopsy-proven FSGS and 622 control participants, we identified rare coding variants of UMOD, a gene encoding the tubular protein uromodulin, in 8 families but in only 1 control (P < 0.003; odds ratio: 12.8; 95% confidence interval: 2.0–281). UMOD variants were the likely cause of disease in 5.4% of families in which variants of known kidney disease genes were identified, and could explain 2% of families with FSGS we studied. Co-segregation of the rare variants associated with the disease was confirmed using Sanger sequencing. All affected members of these families inherited the suspicious UMOD variant (highlighted in red), whereas most unaffected members (highlighted in green) did not (Figure 1). UMOD variants were found in 9 members of these families who did not have overt kidney disease. Most of these individuals were from the youngest generations of these families, consistent with incomplete, age-related, penetrance. Our clinical data are not complete enough to define this age-related penetrance quantitatively. The variants of 3 families were in-frame deletions, whereas the presumed pathogenic variants of 5 of the families were point mutations (Figure 2 and Table 2). The in-frame deletions VCPEG (93–97) for families FGCM, FGCO, and FGGR were known pathogenic variants for ADTKD-UMOD. The mutated residues at positions p.C106F, p.W202S, and p.C315F have been previously demonstrated to be associated with medullary cystic kidney disease 2 and familial juvenile hyperuricemic nephropathy (Figure 3a).23, 24, 25 The UMOD variants were present in exons 3 and 4, regions frequently reported to have mutations. In addition, we identified an unreported point mutation, p.R79G, for family FGLV found in a noncanonical variant of uromodulin (ENST00000574195.1) with a 161 amino acid protein encoded by 3 of 4 exons (Figure 3b, Table 2). There was limited information for the in silico prediction scores for p.R79G in the noncanonical transcript variant with only a low CADD_PHRED (combined annotation-dependent depletion) score of 0.566 (Table 3). Nonetheless, the Sanger sequencing confirmed UMOD variants co-segregated with disease within our cohort of families providing further evidence that the UMOD variants are pathogenic mutations (Figure 1). The combination of large family sizes, majority of variants of affected individuals previously reported to be associated with kidney diseases, and multiple in silico predictions for the protein-damaging point mutations (Polyphen-2, SIFT, M-CAP, LRT, META_SVM, GERP++ RS; Table 3) support that the variants identified in these case families are pathogenic.
Figure 1

Pedigrees for 8 families with uromodulin (UMOD) variants. Pedigrees for families FGCM, FGIT, FGCO, FGLV, FGGR, FGDC, FGJF, and FGJD. Affected individuals with impaired kidney function are indicated in filled circles (female) and squares (male), and unfilled circles and squares for family members not on renal replacement therapy, but with otherwise unknown or unaffected status. Individuals who had exome sequencing of samples are indicated with a red outline. Sanger sequencing showing wild-type (REF, reference alleles) sequence and mutation (ALT, alternative alleles) are highlighted in green and red, respectively.

Figure 2

Uromodulin (UMOD) variants in 8 families. Chromatograms of unaffected wild-type (WT) and UMOD variants for representative affecteds for FGCM, FGCO, and FGGR (in-frame deletions), and FGDC, FGJF, FGJD, and FGIT (missense mutation; codon for mutation underlined). ALT, alternative; C, cysteine; F, phenylalanine; G, glycine; R, arginine; REF, reference; S, serine; W, tryptophan.

Table 2

Rare variant list for the UMOD gene

FamilyPOS_HG19REFALTHGVSpHGVSc
FGJD20359574CAENSP00000306279.4: p.Cys315PheENST00000302509.4: c.944G>T
FGIT20360018CGENSP00000306279.4: p.Trp202SerENST00000302509.4: c.605G>C
FGDCFGJF20360306CAENSP00000306279.4: p.Cys106PheENST00000302509.4: c.317G>T
FGCMFGCOFGGR20360333CCTTCGGGGCAGACAGGAGGCGGENSP00000306279.4: p.Val93_Gly97delinsAlaAlaSerCysENST00000302509.4: c.278_289delinsCCGCCTCCT
FGLV20361045GCENSP00000460845.1: p.Arg79GlyENST00000574195.1: c.235C>G
G48055 (control)20348046AGCAENSP00000306279.4: p.Cys582GlyENST00000302509.4: c.1743_1744delinsTG

ALT, alternative nucleotide(s); HG19, human genome assembly from Genome Reference Consortium; HGVSc, the Human Genome Variation Society notation for coding sequence name; HGVSp, the Human Genome Variation Society notation for protein sequence name; POS, genomic position; REF, reference nucleotide(s).

Transcripts: Ensembl transcripts available at www.ensembl.org.

Figure 3

Schematic representation for the relative locations of uromodulin (UMOD) variants. (a) UMOD transcript ENST00000302509.4 displaying exons 1 to 11 of with the locations of 4 mutations. The location of in-frame deletions and missense substitutions are indicated by single-letter amino acid codes. The mutations in the present study were found in exons 3 and 4. An open reading frame predicts a 640–amino acid protein for uromodulin. The protein domains of UMOD include 3 epidermal growth factor-like domains denoted by I, II, and III, cysteine-rich region containing the domain of 8 cysteines (D8C). The in-frame deletions and the missense mutations found in the present study are indicated. (b) UMOD transcript ENST00000574195.1 displaying exons 1 to 4 for family FGLV with the location of one newly identified mutation. The open reading frame encoded by exons 1 to 3 predicts a 161–amino acid protein for uromodulin. The predicted protein domains for this transcript include 2 epidermal growth factor-like domains denoted by I and II.

Table 3

In silico prediction scores of clinical pathogenicity for UMOD variants

FamilyNucleotide changeGnomAD_ genomes_AFCLIN_SIGPolyPhen-2SIFTMetaSVMM-CAPLRTGERP++_RSCADD_ PHRED
FGJDc.944G>T0NADDDDD4.6432
FGITc.605G>C0NADDDDD5.1332
FGDCFGJFc.317G>T0Likely pathogenicDDDDD5.4528
FGCMFGCOFGGRc.278_289delinsCCGCCTCCT0PathogenicNANANANANANA20.4
FGLVc.235C>G0NANANANANANANA0.566
G48055 (control)c.1743_1744delinsTG0NANANANANANANANA

CLIN_SIG, Clinvar database annotation signature; D, deleterious; GnomAD_genomes_AF, variant frequency in GnomAD database; NA, not applicable.

Prediction tools for predicting deleteriousness of single nucleotide variants or insertion/deletion variants: PolyPhen-2, Polymorphism Phenotyping v2; SIFT, Sorting Tolerant From Intolerant; M-CAP, Mendelian Clinically Applicable Pathogenicity; LRT, likelihood ratio test; GERP++RS, Genomic Evolutionary Rate Profiling rejected substitution; and CADD, Combined Annotation Dependent Depletion.

Pedigrees for 8 families with uromodulin (UMOD) variants. Pedigrees for families FGCM, FGIT, FGCO, FGLV, FGGR, FGDC, FGJF, and FGJD. Affected individuals with impaired kidney function are indicated in filled circles (female) and squares (male), and unfilled circles and squares for family members not on renal replacement therapy, but with otherwise unknown or unaffected status. Individuals who had exome sequencing of samples are indicated with a red outline. Sanger sequencing showing wild-type (REF, reference alleles) sequence and mutation (ALT, alternative alleles) are highlighted in green and red, respectively. Uromodulin (UMOD) variants in 8 families. Chromatograms of unaffected wild-type (WT) and UMOD variants for representative affecteds for FGCM, FGCO, and FGGR (in-frame deletions), and FGDC, FGJF, FGJD, and FGIT (missense mutation; codon for mutation underlined). ALT, alternative; C, cysteine; F, phenylalanine; G, glycine; R, arginine; REF, reference; S, serine; W, tryptophan. Rare variant list for the UMOD gene ALT, alternative nucleotide(s); HG19, human genome assembly from Genome Reference Consortium; HGVSc, the Human Genome Variation Society notation for coding sequence name; HGVSp, the Human Genome Variation Society notation for protein sequence name; POS, genomic position; REF, reference nucleotide(s). Transcripts: Ensembl transcripts available at www.ensembl.org. Schematic representation for the relative locations of uromodulin (UMOD) variants. (a) UMOD transcript ENST00000302509.4 displaying exons 1 to 11 of with the locations of 4 mutations. The location of in-frame deletions and missense substitutions are indicated by single-letter amino acid codes. The mutations in the present study were found in exons 3 and 4. An open reading frame predicts a 640–amino acid protein for uromodulin. The protein domains of UMOD include 3 epidermal growth factor-like domains denoted by I, II, and III, cysteine-rich region containing the domain of 8 cysteines (D8C). The in-frame deletions and the missense mutations found in the present study are indicated. (b) UMOD transcript ENST00000574195.1 displaying exons 1 to 4 for family FGLV with the location of one newly identified mutation. The open reading frame encoded by exons 1 to 3 predicts a 161–amino acid protein for uromodulin. The predicted protein domains for this transcript include 2 epidermal growth factor-like domains denoted by I and II. In silico prediction scores of clinical pathogenicity for UMOD variants CLIN_SIG, Clinvar database annotation signature; D, deleterious; GnomAD_genomes_AF, variant frequency in GnomAD database; NA, not applicable. Prediction tools for predicting deleteriousness of single nucleotide variants or insertion/deletion variants: PolyPhen-2, Polymorphism Phenotyping v2; SIFT, Sorting Tolerant From Intolerant; M-CAP, Mendelian Clinically Applicable Pathogenicity; LRT, likelihood ratio test; GERP++RS, Genomic Evolutionary Rate Profiling rejected substitution; and CADD, Combined Annotation Dependent Depletion.

Nonclassical Clinical Presentation for UMOD-Associated Kidney Disease

The identification of known variants of UMOD in our cohort with suspected FSGS, hereditary glomerulonephritis, and/or nephrotic syndrome raised the possibility that the UMOD variants contributed to secondary FSGS. In our study cohort, patients with UMOD gene mutation did not have the usual clinical characteristics associated with UMOD nephropathy, such as reports of gout, documented hyperuricemia, or medullary cysts on renal ultrasonography. Analysis of patient demographics revealed a male-to-female ratio of 1 to 1 for affected individuals with UMOD variants (17 male and 17 female individuals, Table 4). The age for development of end-stage renal disease ranged from 21 to 68 years. The age of diagnosis for the affected individuals was usually by the time they had reached end-stage renal disease in their third to sixth decade of life but earlier in some individuals (ages 20, 29, and 16 for FGIT11, FGIT234, and FGJD11, respectively). Consistent with the diagnosis of ADTKD-UMOD, urine sediment was typically bland with minimal or no proteinuria (Table 4). In most affected individuals, the amount of albuminuria was < 1 g/d.
Table 4

Phenotype information for 8 families with UMOD variants

FamilyIndividualSexAge at diagnosisAge of ESRDHematuriaProteinuria (ACR or mg/d)SCr (mg/dl)Working diagnosisBiopsy findings c/w FSGS
FGCM111MU58NegPos (1100)UHereditary GNU
FGCM112M5555NegPosUESRD NYDU
FGCM113M2540UPosUHereditary GNU
FGCM115F3239PosPos11.2ESRD NYDU
FGCM117FU50UPos (278)1.9Hereditary GNGlobal and segmental sclerosis
FGCM118M34UUPosUHereditary GNU
FGCM1141MU57UUUESRD NYDU
FGCM1151MU36NegUUESRD NYDU
FGCO122F4047UUUESRD from HTNU
FGCO1111F4142NegU1Hereditary GNU
FGGR111M5455PosPos (130.7)1.6Hereditary GNU
FGGR114M4049NegPos (84.5)1.5FSGSFSGS
FGGR151M4452NegPos (>303)3.2FSGSFSGS
FGGR152MU50NegPos (>629)UNS NYDU
FGGR311M57N/ANegU4Hereditary GNU
FGDC111FU45UPosUFSGSFSGS
FGDC112F4046NegPos1.1FSGSFSGS
FGIT1MU45NegNegUHereditary GNU
FGIT11F2021NegPos (175 mg/d)1.6Hereditary TINEffaced FPs
FGIT12M38N/ANegPos (165.5)2.4CKD NYDNone
FGIT21F3768NegPos (72)1.4Hereditary GNU
FGIT22M3645NegNeg1Hereditary GNU
FGIT234F2935UNeg3.2HTN relatedNone
FGJD1FU69UUUHTN relatedU
FGJD11M1636NegNeg7.9FSGSFSGSa
FGJF3FU40NegNeg1.9FSGSU
FGJF11FU51NegNeg1.7FSGSFSGS
FGJF13FU40NegNegUFSGSNone
FGJF32F3436NegPos (700 mg/d)2.5FSGSFSGS
FGLV115FU60PosPos (298.8)3.5Hereditary GNU
FGLV116FU51NegNeg1.9ESRD NYDU
FGLV1121M4752NegPosUESRD NYDU
FGLV1133M3742PosNeg2.4ESRD NYDU
FGLV1153FU40NegPos (30.9)1.2ESRD NYDU

ACR, albumin-to-creatinine ratio in mg/g; CKD, chronic kidney disease; c/w, consistent with; ESRD, end-stage renal disease; F, female; FPs, foot processes; FSGS, focal segmental glomerulosclerosis; GN, glomerulonephritis; IgAN, IgA nephropathy; M, male; Neg, negative; none, no findings consistent with FSGS; NS, nephrotic syndrome; NYD, not yet determined; Pos, positive; SCr, serum creatinine; TIN, tubulointerstitial nephritis; U, unknown.

Insufficient material for native kidneys; based on biopsies of 2 allografts showing FSGS (suspected FSGS recurrence).

Phenotype information for 8 families with UMOD variants ACR, albumin-to-creatinine ratio in mg/g; CKD, chronic kidney disease; c/w, consistent with; ESRD, end-stage renal disease; F, female; FPs, foot processes; FSGS, focal segmental glomerulosclerosis; GN, glomerulonephritis; IgAN, IgA nephropathy; M, male; Neg, negative; none, no findings consistent with FSGS; NS, nephrotic syndrome; NYD, not yet determined; Pos, positive; SCr, serum creatinine; TIN, tubulointerstitial nephritis; U, unknown. Insufficient material for native kidneys; based on biopsies of 2 allografts showing FSGS (suspected FSGS recurrence).

Kidney Biopsy From a UMOD Cys106Phe Individual

Because UMOD encodes uromodulin, a protein localized to the thick ascending limb of the Loop of Henle, we reasoned that glomerular changes observed in the setting of defective uromodulin is most likely a secondary process. A representative biopsy from patient FGJF32 is shown in Figure 4. Light microscopy showed segmental sclerosis, with one glomerulus noted as being globally sclerosed and another that was unremarkable. There was severe and widespread tubular atrophy and interstitial fibrosis (data not shown), consistent with a chronic process as seen with both (primary) FSGS and ADTKD-UMOD. Electron microscopy showed localized segmental fusion of foot processes and microvillous transformation of visceral epithelial cells.
Figure 4

Family FGJF proband (FGJF32) biopsy showing focal segmental glomerulosclerosis (FSGS). Glomerulus stained with (a) periodic acid–Schiff and (b) hematoxylin and eosin showing focal segmental sclerosis. Localized podocyte foot process changes. Extensive tubular atrophy and interstitial fibrosis were present in other regions (not shown here). Bar = 30 μm. (c) Electron microscopy from FGJF32 showing segments of glomerular tufts with segmental collapse and sclerosis of capillary loops. Segmental fusion of foot processes and microvillous transformation of visceral epithelial cells. No evidence of immune complex deposition or inflammation or cell proliferation. Bar = 1 μm.

Family FGJF proband (FGJF32) biopsy showing focal segmental glomerulosclerosis (FSGS). Glomerulus stained with (a) periodic acid–Schiff and (b) hematoxylin and eosin showing focal segmental sclerosis. Localized podocyte foot process changes. Extensive tubular atrophy and interstitial fibrosis were present in other regions (not shown here). Bar = 30 μm. (c) Electron microscopy from FGJF32 showing segments of glomerular tufts with segmental collapse and sclerosis of capillary loops. Segmental fusion of foot processes and microvillous transformation of visceral epithelial cells. No evidence of immune complex deposition or inflammation or cell proliferation. Bar = 1 μm.

Discussion

ADTKD-UMOD is an underrecognized genetic kidney disease., To the best of our knowledge, no previous studies have reported UMOD variants causing FSGS. Our work highlights the possibility that some patients diagnosed with FSGS or hereditary glomerulonephritis may have an underlying UMOD mutation as the etiology for their suspected glomerular disease. The actual prevalence for ADTKD-UMOD is difficult to determine because the condition is often not suspected and underdiagnosed. Recently, Gast et al. examined patients with stages 3 to 5 CKD and found that ADTKD-UMOD was the most common form of inherited kidney disease following autosomal dominant polycystic kidney disease. Groopman et al. identified 66 distinct monogenic disorders in their 2 cohorts totaling 3315 patients with CKD, of which 3% was explained by mutations in UMOD. Similarly, affected members of the 8 families investigated in our study were initially assumed to have FSGS or hereditary glomerulonephritis. In retrospect, it is not surprising that some patients with ADTKD-UMOD are classified as FSGS because ADTKD-UMOD has no specific clinical or histopathological features by conventional kidney biopsy. Trimarchi et al. showed a link between mucin-1 (MUC1) gene mutation for a case of secondary FSGS. As noted earlier, there is evidence for mutations in genes that cause tubular disease (e.g., CLCN5, SLC12A1, HNF1B) initially presenting with a clinical phenotype labeled as FSGS.,, We expect mutations in MUC1, UMOD, and other genes encoding tubular proteins to be more frequently identified in many patients with CKD with seemingly glomerular origin. Most mutations in the UMOD gene identified in our study were previously reported to be pathogenic. The mutations p.C315F, p.W202S, and p.C106F are predicted to be pathogenic variants with a probably deleterious effect as predicted by numerous in silico prediction algorithms (Table 3). The GERP++_RS and CADD_PHRED scores were 4.64 and 32, respectively. Mutations p.W202S and p.C106F have been reported previously. p.C315F has not been reported, but a mutation at the same position, the C315R, was reported in affected families with glomerulocystic kidney disease, and C315Y were previously reported as pathogenic., The position is in a conserved and functional important region of the UMOD gene., p.Val93_Gly97delinsAlaAlaSerCys has been reported multiple times as pathogenic.,, Interestingly, we identified a rare transcript (ENST00000574195.1) with mutation of p.R79G for family FGLV. This variant of the noncanonical transcript has not been reported in the GnomAD database, which sequenced 125,748 whole exomes and 15,708 whole genomes. The mutated residue was present in the coding region for ENST00000574195.1, whereas the canonical transcript (ENST00000302509.4) did not have an amino acid change, as the nucleotide was present in an intron. The mutation is likely a pathogenic variant, as the variant co-segregates with the disease in a large family (FGLV). Nonetheless, future work will be needed to determine the expression and function of this truncated transcript. A limitation of our study was the incomplete availability of clinical data of interest, including laboratory studies and diagnostic imaging. Certainly, a more comprehensive collection of uric acid levels and kidney ultrasounds may have provided evidence for ADTKD-UMOD. Future studies could analyze original patient samples for quantification of percentage of foot process effacement from electron micrographs and tissue staining for uromodulin to assess for abnormalities in protein localization or expression. If kidney biopsy samples were available for our affected family members, we predict uromodulin staining for patients with UMOD pathogenic variants would have shown a granular or endoplasmic staining pattern. Additional staining of tissue for uromodulin in patients with possible ADTKD-UMOD could help guide clinicians to consider genetic testing. The high rate of UMOD variants found in patients given a histopathological diagnosis of FSGS or suspected glomerular disease was unexpected. It remains unclear if tubular injury in patients with UMOD precedes glomerular changes or if there is crosstalk between the tubular compartment and glomeruli. Uromodulin is exclusively produced in the thick ascending limb of the Loop of Henle. Future work will need to investigate how genetic mutations in UMOD, a gene encoding the thick ascending limb protein uromodulin, cause injury to podocytes and how glomeruli adapt to injury originating from the tubules. Trudu et al. demonstrated that UMOD gene variants may increase uromodulin expression to induce salt-sensitive hypertension leading to kidney damage. In the case of IgA nephropathy with FSGS, there may be immune-mediated mechanisms of podocyte injury leading to segmental sclerosis. It is also possible that injured tubular-mediated production of proinflammatory and profibrotic cytokines can lead to podocyte cell death. Future avenues of research will be to characterize podocyte injury induced by cellular mediators arising from the tubules, mesangial cells, or endothelial cells. Will genetic testing alter disease management for patients with ADTKD-UMOD? If UMOD pathologic variants are identified in patients who were initially diagnosed with FSGS, such patients should be reclassified as ADTKD-UMOD with FSGS. Furthermore, potential therapies that can delay the progression of ADTKD-UMOD would be the appropriate therapy, rather than the immunosuppressive agents often used in FSGS. Family members who are potential allograft donors should undergo a genetic evaluation for UMOD to determine donor eligibility status and be made ineligible as a donor if they carry one of the UMOD variants. Genetic counseling can be of help in discussing interpretation and implications of test results with family members. Last, Nafar et al. have suggested that uromodulin can potentially be a biomarker for FSGS. It may be possible to avoid genetic testing of patients with a high suspicion for ADTKD-UMOD by reviewing, and if needed, reinvestigating patients with suspected ADTKD-UMOD with staining of kidney biopsy specimens for uromodulin. Immunohistochemistry may provide clues such as abnormalities in uromodulin staining, for example, coarsely granular cytoplasmic staining or perinuclear positivity in flattened tubular epithelial cells in the Loop of Henle epithelium for patients with UMOD mutations.,, It is well recognized that the term FSGS can been applied to a wide range of conditions, begging the question as to whether or not it has any useful meaning for diagnostics. The etiology and pathogenesis in a patient with FSGS histology cannot be determined solely by assessing features of lesions by microscopy. It is quite clear that the descriptor FSGS should be confined to use as a description of histology, rather than as a clinical disease designation. Genetic testing would avoid misdiagnosis of ADTKD-UMOD as a glomerular injury (e.g., FSGS) and establish the correct molecular and clinical diagnosis. We favor including UMOD in standard genetic testing panels used in the diagnosis of FSGS. The probability that a specific UMOD variant found is causally related to disease depends on multiple factors: presence or absence of other candidate variants, evidence of tubulo-interstitial disease, and presence or absence of nephrotic symptoms. Avoiding the term FSGS as a clinical diagnosis could prevent incomplete evaluation and encourage clinicians to consider genetic testing to establish a molecular diagnosis. We note that one affected individual was suspected to have recurrent FSGS in a kidney allograft (Table 4). This label of recurrent disease in UMOD-associated ADTKD suggests that either the variant was not causally related to disease, or the process affecting the allograft was not recurrence. This highlights the occasional difficulties in making a genetic diagnosis consistent with all clinical findings. Our study reinforces the need to carefully evaluate the clinical presentation, patient bloodwork, and kidney biopsy results before stopping with a diagnosis of FSGS. Should FSGS be thought of as something equivalent to interstitial fibrosis/tubular atrophy? During the secondary workup for causes of FSGS, genetic testing for mutations in UMOD may provide a higher yield for identifying the cause for FSGS. Patients with suspected UMOD and a family history with affected first-degree relatives or multiple affected relatives should have noninvasive genetic testing done before consideration of a kidney biopsy. Because kidney biopsies are seldom performed in the pediatric population and are an expensive procedure carrying risks, consideration of genetic testing in individuals and families, such as the ones analyzed in this study, may be highly informative. As genetic testing and exome sequencing are now readily available and affordable, we anticipate that molecular testing for such cases will be more mainstreamed with foreseeable point of care testing in the near future. We propose genetic testing of UMOD in patients with any family history showing chronic changes on kidney biopsy even if clinical data show absence of hyperuricemia or gout. With unidentified causes of biopsy-proven FSGS and suspected secondary FSGS, we recommend taking a more thorough clinical history for gout, family history for gout or kidney disease, and checking urate levels. If there is a strong family history of FSGS of unclear etiology, one should consider genetic testing for UMOD.

Disclosure

All the authors declared no competing interests.
  45 in total

1.  D³: Data-Driven Documents.

Authors:  Michael Bostock; Vadim Ogievetsky; Jeffrey Heer
Journal:  IEEE Trans Vis Comput Graph       Date:  2011-12       Impact factor: 4.579

2.  Integration of Genetic Testing and Pathology for the Diagnosis of Adults with FSGS.

Authors:  Tony Yao; Khalil Udwan; Rohan John; Akanchaya Rana; Amirreza Haghighi; Lizhen Xu; Saidah Hack; Heather N Reich; Michelle Adrienne Hladunewich; Daniel C Cattran; Andrew D Paterson; York Pei; Moumita Barua
Journal:  Clin J Am Soc Nephrol       Date:  2019-01-15       Impact factor: 8.237

3.  Single-nucleotide evolutionary constraint scores highlight disease-causing mutations.

Authors:  Gregory M Cooper; David L Goode; Sarah B Ng; Arend Sidow; Michael J Bamshad; Jay Shendure; Deborah A Nickerson
Journal:  Nat Methods       Date:  2010-04       Impact factor: 28.547

4.  Phenotype and outcome in hereditary tubulointerstitial nephritis secondary to UMOD mutations.

Authors:  Guillaume Bollée; Karin Dahan; Martin Flamant; Vincent Morinière; Audrey Pawtowski; Laurence Heidet; Didier Lacombe; Olivier Devuyst; Yves Pirson; Corinne Antignac; Bertrand Knebelmann
Journal:  Clin J Am Soc Nephrol       Date:  2011-08-25       Impact factor: 8.237

Review 5.  Focal Segmental Glomerulosclerosis.

Authors:  Avi Z Rosenberg; Jeffrey B Kopp
Journal:  Clin J Am Soc Nephrol       Date:  2017-02-27       Impact factor: 8.237

6.  Elevated urinary CRELD2 is associated with endoplasmic reticulum stress-mediated kidney disease.

Authors:  Yeawon Kim; Sun-Ji Park; Scott R Manson; Carlos Af Molina; Kendrah Kidd; Heather Thiessen-Philbrook; Rebecca J Perry; Helen Liapis; Stanislav Kmoch; Chirag R Parikh; Anthony J Bleyer; Ying Maggie Chen
Journal:  JCI Insight       Date:  2017-12-07

7.  Cells of renin lineage are progenitors of podocytes and parietal epithelial cells in experimental glomerular disease.

Authors:  Jeffrey W Pippin; Matthew A Sparks; Sean T Glenn; Sandra Buitrago; Thomas M Coffman; Jeremy S Duffield; Kenneth W Gross; Stuart J Shankland
Journal:  Am J Pathol       Date:  2013-06-14       Impact factor: 4.307

8.  ClinVar: improving access to variant interpretations and supporting evidence.

Authors:  Melissa J Landrum; Jennifer M Lee; Mark Benson; Garth R Brown; Chen Chao; Shanmuga Chitipiralla; Baoshan Gu; Jennifer Hart; Douglas Hoffman; Wonhee Jang; Karen Karapetyan; Kenneth Katz; Chunlei Liu; Zenith Maddipatla; Adriana Malheiro; Kurt McDaniel; Michael Ovetsky; George Riley; George Zhou; J Bradley Holmes; Brandi L Kattman; Donna R Maglott
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

9.  Allelism of MCKD, FJHN and GCKD caused by impairment of uromodulin export dynamics.

Authors:  Luca Rampoldi; Gianluca Caridi; Daniela Santon; Francesca Boaretto; Ilenia Bernascone; Giuseppe Lamorte; Regina Tardanico; Monica Dagnino; Giacomo Colussi; Francesco Scolari; Gian Marco Ghiggeri; Antonio Amoroso; Giorgio Casari
Journal:  Hum Mol Genet       Date:  2003-10-21       Impact factor: 6.150

10.  Common noncoding UMOD gene variants induce salt-sensitive hypertension and kidney damage by increasing uromodulin expression.

Authors:  Olivier Devuyst; Luca Rampoldi; Matteo Trudu; Sylvie Janas; Chiara Lanzani; Huguette Debaix; Céline Schaeffer; Masami Ikehata; Lorena Citterio; Sylvie Demaretz; Francesco Trevisani; Giuseppe Ristagno; Bob Glaudemans; Kamel Laghmani; Giacomo Dell'Antonio; Johannes Loffing; Maria P Rastaldi; Paolo Manunta
Journal:  Nat Med       Date:  2013-11-03       Impact factor: 53.440

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  3 in total

1.  Upregulation of C/EBP Homologous Protein induced by ER Stress Mediates Epithelial to Myofibroblast Transformation in ADTKD-UMOD.

Authors:  Dan Wang; Yagui Qiu; Jinjin Fan; Yuanying Liu; Wenfang Chen; Zhijian Li; Wei Chen; Xin Wang
Journal:  Int J Med Sci       Date:  2022-01-24       Impact factor: 3.738

2.  Genomics Integration Into Nephrology Practice.

Authors:  Filippo Pinto E Vairo; Carri Prochnow; Jennifer L Kemppainen; Emily C Lisi; Joan M Steyermark; Teresa M Kruisselbrink; Pavel N Pichurin; Rhadika Dhamija; Megan M Hager; Sam Albadri; Lynn D Cornell; Konstantinos N Lazaridis; Eric W Klee; Sarah R Senum; Mireille El Ters; Hatem Amer; Linnea M Baudhuin; Ann M Moyer; Mira T Keddis; Ladan Zand; David J Sas; Stephen B Erickson; Fernando C Fervenza; John C Lieske; Peter C Harris; Marie C Hogan
Journal:  Kidney Med       Date:  2021-06-29

3.  An accessible insight into genetic findings for transplantation recipients with suspected genetic kidney disease.

Authors:  Zhigang Wang; Hongen Xu; Tianchao Xiang; Danhua Liu; Fei Xu; Lixiang Zhao; Yonghua Feng; Linan Xu; Jialu Liu; Ye Fang; Huanfei Liu; Ruijun Li; Xinxin Hu; Jingyuan Guan; Longshan Liu; Guiwen Feng; Qian Shen; Hong Xu; Dmitrij Frishman; Wenxue Tang; Jiancheng Guo; Jia Rao; Wenjun Shang
Journal:  NPJ Genom Med       Date:  2021-07-02       Impact factor: 8.617

  3 in total

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