| Literature DB >> 36012602 |
Saima Suleman1,2, Gagan Chhabra1, Rubab Raza1,3, Arslan Hamid4, Javed Anver Qureshi2, Nihal Ahmad1,5.
Abstract
Psoriasis is an immune-mediated chronic and painful disease characterized by red raised patches of inflamed skin that may have desquamation, silvery-white scales, itching and cracks. The susceptibility of developing psoriasis depends on multiple factors, with a complex interplay between genetic and environmental factors. Studies have suggested an association between autosomal dominant CARD14 (caspase recruitment domain-containing protein 14) gain-of-function mutations with the pathophysiology of psoriasis. In this study, non-synonymous single-nucleotide polymorphisms (nsSNPs) of CARD14 gene were assessed to determine their association with psoriasis in Pakistani population. A total of 123 subjects (63 patients with psoriasis and 60 normal controls) were included in this study. DNA was extracted from blood, and PCR analysis was performed followed by Sanger sequencing for 18 CARD14 specific nsSNPs (14 previously reported and the 4 most pathogenic nsSNPs identified using bioinformatics analysis). Among the 18 tested SNPs, only 2 nsSNP, rs2066965 (R547S) and rs34367357 (V585I), were found to be associated with psoriasis. Furthermore, rs2066965 heterozygous genotype was found to be more prevalent in patients with joint pain. Additionally, the 3D structure of CARD14 protein was predicted using alpha-fold2. NMSim web server was used to perform coarse grind simulations of wild-type CARD14 and two mutated structures. R547S increases protein flexibility, whereas V353I is shown to promote CARD14-induced NF-kappa B activation. This study confirms the association between two CARD14 nsSNPs, rs2066965 and rs34367357 with psoriasis in a Pakistani population, and could be helpful in identifying the role of CARD14 gene variants as potential genetic markers in patients with psoriasis.Entities:
Keywords: CARD14; SNPs; Sanger sequencing; psoriasis
Mesh:
Substances:
Year: 2022 PMID: 36012602 PMCID: PMC9409305 DOI: 10.3390/ijms23169336
Source DB: PubMed Journal: Int J Mol Sci ISSN: 1422-0067 Impact factor: 6.208
Figure 1Clinical presentation of psoriasis patients. (a) A positive correlation of 0.37 between BMI and PASI score of the patients was observed. (b) The proportion of male and female patients that reported joint pain, (c) Bar chart showing the severity of psoriasis (PASI scores) in both genders.
Figure 2Sorting of nsSNPs using six different algorithms: (a) SIFT, (b) Polyphen2, (c) Reval, (d) CADD, (e) Meta LR, (f) Mutation assessor.
List of CARD14 nsSNPs genotyped in this study.
| Sr. No. | nsSNPs ID | Alleles | Amino Acid |
|---|---|---|---|
| 1 | rs146214639 | T/G | L150R |
| 2 | rs1598639617 | T/C | L124P |
| 3 | rs1598639659 | G/C | C127S |
| 4 | rs1598639974 | A/C | Q157P |
| 5 | rs281875215 | G/A | G117S |
| 6 | rs1567872320 | G/A | E138K |
| 7 | rs281875212 | G/A | E142K |
| 8 | rs281875213 | A/G | E142G |
| 9 | rs387907240 | T/C | L156P |
| 10 | rs281875216 | C/A | H171N |
| 11 | rs2066964 | G/C | R547S |
| 12 | rs34367357 | G/A | V585I |
| 13 | rs200102454 | C/T | T591M |
| 14 | rs281875220 | T/A | I593N |
| 15 | rs201285077 | C/T | S602L |
| 16 | rs117918077 | C/T | R682W |
| 17 | rs1567903243 | C/A | S802R |
| 18 | rs11652075 | C/T | R820W |
Figure 3Distribution of different genotypes in the psoriatic patients. (a) Bar chart shows the distribution of rs2066964 genotypes in the psoriatic patients in different BMI categories. (b) Bar chart shows the distribution of rs34367357 genotypes in the psoriatic patients in different BMI categories. (c) Bar chart shows the distribution of rs2066964 genotypes in the psoriatic patients with and without joint pains. (d) Bar chart shows the distribution of rs34367357 genotypes in the psoriatic patients with and without joint pains. (e) Bar chart shows the distribution of rs2066964 genotypes in the psoriatic patients in different PASI score categories. (f) Bar chart shows the distribution of rs34367357 genotypes in the psoriatic patients in different PASI score categories.
Figure 4Structural analysis of CARD14 protein. (a) CARD14 protein 3D structure predicted using Alpha-Fold2. InterPro predicted five domains in the CARD14 structure, including CARD domain (Blue), coiled-coil domain (Gray), inhibitory domain (Red), PDZ domain (Cyan), and guanlate kinase-like domain (Yellow). (b) Position of R547S (rs2066965) and V585I (rs34367357) in CARD14 3D structure. The R547S is located in the inhibitory domain of CARD14, while V585I is present in the PDZ domain.
Figure 5Dynamic impact of substitutions in the CARD14 protein structure. (a) Plot of root mean square deviation (RMSD). (b) Plot of root mean square fluctuation (RMSF). (c) Plot of radius of gyration (Rg). (d) Plot of solvent surface accessible area (SASA).