| Literature DB >> 31386236 |
Mohammad Taghikhani1, Shohreh Khatami2, Mohammad Abdi3,4, Mohammad Said Hakhamaneshi4, Mohammad Reza Alaei5, Daniel Zamanfar6, Rahim Vakili7.
Abstract
BACKGROUND: Mucopolysaccharidosis type I (MPSI) is a rare autosomal recessive disorder caused by a deficiency of α-l-iduronidase (IDUA) encoded by the IDUA gene. We examined the mutation spectrum of the IDUA gene to explain the clinical, biochemical, and molecular features in 21 Iranian patients with MPSI.Entities:
Keywords: IDUA; Iranian population; mucopolysaccharidosis type I; mutation analysis
Mesh:
Substances:
Year: 2019 PMID: 31386236 PMCID: PMC6805319 DOI: 10.1002/jcla.22963
Source DB: PubMed Journal: J Clin Lab Anal ISSN: 0887-8013 Impact factor: 2.352
Primer sequence and reaction condition
| Product name | Primer sequence | Annealing temperature | Product size (bp) |
|---|---|---|---|
| Exon 1 | F 5 > 3: GCGTTCTTCTGAGCGCTTT | 59°C | 576 |
| R 5 > 3: GAGGACCCACCCACAAACA | |||
| Exon 2 | F 5 > 3: TTTTATTAGTCACTGAACGCACG | 60°C | 333 |
| R 5 > 3: CCTCCCATCTGTGCCTCTGT | |||
| Exon 3_4 | F 5 > 3: CAGCCTGGAGCATGGAG | 58°C | 511 |
| R 5 > 3: GCGTGATAGGGGTGCAAC | |||
| Exon 5_6 | F 5 > 3: TCACCTTGCACCCTCCCTCC | 62°C | 536 |
| R 5 > 3: TGAGGGCGCAGAACACCG | |||
| Exon 7 | F 5 > 3: TGCGGCTGGACTACATCTC | 59°C | 442 |
| R 5 > 3: AGGTTCTGATGCTGCGC | |||
| Exon 8 | F 5 > 3: CCACCTTCCTCCCGAGAC | 59°C | 387 |
| R 5 > 3: GCTGGAGGAAGTGCGCT | |||
| Exon 9 | F 5 > 3: TCCTTCACCAAGGGGAGG | 58°C | 400 |
| R 5 > 3: CTGACACTCAGGCCTCGG | |||
| Exon 10 | F 5 > 3: GGTGACCCTGCGGCTG | 60°C | 421 |
| R 5 > 3: TCCTCAGGGTTCTCCAGG | |||
| Exon 11_12 | F 5 > 3: GTGTGGGTGGGAGGTGGA | 58°C | 459 |
| R 5 > 3: CATGGGTGAAGGGGTCG | |||
| Exon 13_14 | F 5 > 3: GCCTGCTCCCACCTTTGA | 60°C | 592 |
| R 5 > 3: AGGGGGCGTTGGTACCA |
Figure 1Modeling the three‐dimensional structure of the IDUA base on PDB 3W81: The wild‐type amino acids at position 109, 157, 257, and 301 of IDUA protein are illustrated (A). A close‐up view of nonmutated and mutated amino acid: p.Y109H (B), p.S157P (C), p.D257H (D), and p.D301E (E)
Clinical characteristics of the studied subjects
| Patients | Age (y) | Sex | Consanguinity | Diagnostic age (y) | Weight (kg) | Height (cm) | Mental retardation | Facial dysmorphic features | Multiple dysostosis | Joint stiffness | HM/HSM | Hernia | Chronic rhinorrhea | Deafness | Corneal opacity | Cardiac manifestations | Hydrocephalus |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 5.2 | F | − | 0.6 | 15 | 75 | − | − | + | + | + | − | − | − | − | MS | − |
| 2 | 4.2 | M | + | 0.9 | 11 | 65 | − | − | ± | + | ± | − | − | − | − | − | − |
| 3 | 1.5 | M | + | 0.2 | 7.5 | 72 | − | − | − | − | − | − | + | − | − | − | − |
| 4 | 7.2 | F | + | 0.3 | 23 | 112 | − | − | + | + | + | − | − | − | − | − | − |
| 5 | 10.5 | F | + | 1.2 | 10.5 | 87 | + | + | + | + | + | + | + | + | − | MS/AI | + |
| 6 | 13.0 | M | + | 0.9 | 15 | 102 | + | + | + | + | + | + | + | + | − | − | + |
| 7 | 12.9 | F | + | 0.7 | 14.2 | 97 | + | + | + | + | + | + | + | + | − | − | + |
| 8 | 1.3 | F | + | 0.7 | 7.0 | 70 | − | − | − | − | − | + | + | − | − | − | − |
| 9 | 1.2 | F | + | 0.7 | 6.8 | 69 | − | − | − | − | + | + | + | − | − | − | − |
| 10 | 7.8 | M | − | 0.6 | 9.0 | 74 | + | + | + | + | + | + | + | + | − | − | + |
| 11 | 6.2 | F | − | 0.5 | 14.5 | 100 | + | + | + | + | + | + | + | + | + | − | − |
| 12 | 10.1 | F | + | 0.9 | 26 | 108 | − | + | − | − | + | + | − | − | − | − | − |
| 13 | 1.6 | M | − | 0.8 | 7.2 | 71 | + | + | − | − | + | + | + | − | − | − | − |
| 14 | 8.5 | M | + | 0.7 | 9.5 | 73 | − | + | − | − | + | + | − | − | − | − | − |
| 15 | 4.2 | M | − | 0.7 | 10.1 | 60 | + | + | − | − | + | + | − | − | − | − | − |
| 16 | 5.5 | M | + | 0.6 | 11.0 | 66 | + | + | − | − | + | + | − | − | − | − | − |
| 17 | 3.0 | M | + | 0.9 | 9.0 | 66 | + | + | − | − | + | + | − | − | − | − | − |
| 18 | 9.2 | M | + | 1.3 | 20 | 89 | + | + | − | − | + | + | − | − | − | − | − |
| 19 | 2.2 | M | + | 0.5 | 8.0 | 7.6 | + | + | − | − | + | + | − | − | − | − | − |
| 20 | 12.5 | F | − | 1.3 | 23 | 80 | − | + | − | − | − | + | − | − | − | − | − |
| 21 | 2.8 | F | + | 0.8 | 7.5 | 80 | + | + | + | + | + | + | + | + | + | MS | + |
Abbreviations: −, absent; +, present; AI, aortic insufficiency; F, female; HM, hepatomegaly; HSM, hepatosplenomegaly; M, male; MS, mitral stenosis.
Figure 2Spectrum of variants found in the present study: the numbered boxes represent each exon, and the vertical bars show the positions of the respective variants. The novel variants found out in this study are underlined
Mutation spectrum in the Iranian population, allele frequencies and mutation characteristics
| Mutation name | Systemic name | Allele frequency | Relative frequency (%) | Mutation type |
| Reference |
|---|---|---|---|---|---|---|
| p.Y109H | c.413T > C | 5/32 | 15.625 | Missense | g.18641T > C | Novel |
| p.S157P | c.557T > C | 4/32 | 12.5 | Missense | g.18969 T > C | Novel |
| p.G84R | c.338G > C | 4/32 | 12.5 | Missense | g.5904 G > C |
|
| p.D257H | c.877G > C | 3/32 | 9.375 | Missense | g.19882 G > C | Novel |
| p.D301E | c.991G > C | 3/32 | 9.375 | Missense | g.20096 G > C | Novel |
| p.H33Q | c.187T > G | 6/32 | 18.75 | Missense | g. 5187T > G |
|
| p.N181N | c.631T > C | 1/32 | 3.125 | Silent | g.19521T > C |
|
| p.N297N | c.979C > T | 3/32 | 9.375 | Silent | g.20084 C > T |
|
| p.A8A | c.112C > A | 1/32 | 3.125 | Silent | g. 5112C > A |
|
| p.A20A | c.148G > A | 2/32 | 6.25 | Silent | g.5148G > A |
|
In silico analysis of novel mutations using PolyPhen2 software, calculated HumDiv, and HumVar scores
| Mutation name | cDNA | In silico analysis | Classification | |
|---|---|---|---|---|
| HumVar score | HumDiv score | |||
| p.Y109H | c.413T > C | 0.989 | 1.0 | Probably damaging |
| p.S157P | c.557T > C | 0.772 | 0.989 | Possibly damaging |
| p.D257H | c.877G > C | 0.998 | 1.0 | Probably damaging |
| p.D301E | c.991G > C | 1.0 | 1.0 | Probably damaging |
Spectrum of genotypes, their frequencies, genotype‐phenotype correlations, and biochemical findings in studied subjects
| Number of patients | Genotype | Clinical phenotype | Qualitative urinary GAG | Quantitative urinary GAG (mg/gCr) | IDUA activity (μmol/spot.20h) |
|---|---|---|---|---|---|
| P1 | p.D257A | H | + | 11.14 | 1.02 |
| P2 | p.S157P | HS | ++ | 14.22 | 7.06 |
| P3 | p.Y109H | HS | + | 10.80 | 0.76 |
| P4 | p.D257A | H | ++ | 13.27 | 1.27 |
| P5 | p.D257G | H | ++ | 14.80 | 1.69 |
| P6 | p.D301E | H | + | 11.54 | 1.3 |
| P7 | p.G84R | HS | +++ | 10.11 | 0.86 |
| P8 | p.G84R | HS | + | 6.7 | 1.06 |
| P9 | p.Y109H | HS | + | 7.21 | 0.97 |
| P10 | p.G84R | HS | ± | 7.8 | 2.08 |
| P11 | p.D301E | H | + | 7.82 | 1.04 |
| P12 | p.Y109H | HS | + | 7.4 | 1.01 |
| P13 | p.S157P | S | + | 7.4 | 0.75 |
| P14 | p.Y109H | HS | ± | 6.4 | 0.6 |
| P15 | p.G84R | HS | ++++ | 7.42 | 0.23 |
| P16 | p.D301E | H | ++ | 8.5 | 0.89 |
| P17 | p.Y109H | HS | + | 7.8 | 0.76 |
| P18 | p.S157P | S | ± | 7.7 | 1.67 |
| P19 | p.S157P | S | ± | 8.4 | 3.72 |
| P20 | – | S | + | 7.6 | 2.3 |
| P21 | – | H | +++ | 10.5 | 0.98 |
Abbreviations: H, Hurler; HS, Hurler‐Scheie; S, Scheie.