Association of Single-Nucleotide Polymorphisms in Interleukin Genes with Microbial Keratitis in a South Indian Population
Abstract
:1. Introduction
2. Materials and Methods
2.1. Study Participants
2.2. SNP Selection and Analysis
2.3. Statistical Analysis
3. Results
3.1. Subject Demographics
3.2. Analysis of Candidate Genes
3.3. Association with Clinical Variables
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Gene | rs ID | Allele/Genotype | Frequency (%) | χ2 Value | Corrected p-Value | OR (95% CI) | |
---|---|---|---|---|---|---|---|
Cases (N = 145) | Controls (N = 189) | ||||||
IL1B | rs16944 | A | 58.6 | 64 | Reference | ||
G | 41.4 | 36 | 1.343 | 0.3107 | 1.26 (0.81, 1.96) | ||
AA | 37.2 | 38.6 | Reference | ||||
AG | 42.8 | 51.3 | 0.364 | 0.5325 | 0.864 (0.538, 1.389) | ||
GG | 20 | 10.1 | 4.397 | 0.036 | 2.063 (1.048, 4.061) | ||
rs1143627 | G | 59.3 | 64.0 | Reference | |||
A | 40.7 | 36.0 | 1.392 | 0.4565 | 0.82 (0.52,1.28) | ||
GG | 37.9 | 38.6 | Reference | ||||
GA | 42.1 | 50.8 | 0.494 | 0.4835 | 0.843 (0.525, 1.356) | ||
AA | 20.0 | 10.6 | 3.683 | 0.069 | 1.925 (0.986, 3.756) | ||
IL6 | rs1800795 | G | 88.3 | 85.2 | Reference | ||
C | 11.7 | 14.8 | 0.67 | 0.4136 | 0.76 (0.40, 1.46) | ||
GG | 80 | 72 | Reference | ||||
GC | 16.6 | 26.5 | 4.257 | 0.046 | 0.563 (0.326, 0.972) | ||
CC | 3.4 | 1.6 | 0.817 | 0.4535 | 1.954 (0.457, 8.352) | ||
CXCL8 (IL8) | rs4073 | A | 64.8 | 59.3 | Reference | ||
T | 35.2 | 40.7 | 0.605 | 0.3147 | 0.79 (0.50, 1.23) | ||
AA | 39.3 | 37.6 | Reference | ||||
AT | 51.7 | 43.9 | 0.245 | 0.6144 | 1.126 (0.705, 1.797) | ||
TT | 9 | 18.5 | 4.333 | 0.041 | 0.463 (0.224, 0.956) | ||
rs2227307 | T | 66.9 | 64.0 | Reference | |||
G | 33.1 | 36.0 | 0.102 | 0.5794 | 0.88 (0.56, 1.39) | ||
TT | 41.4 | 43.4 | Reference | ||||
TG | 51.0 | 41.3 | 1.222 | 0.2777 | 1.297 (0.818, 2.055) | ||
GG | 7.6 | 15.3 | 2.799 | 0.0929 | 0.518 (0.240, 1.119) | ||
rs2227543 | C | 70.3 | 66.1 | Reference | |||
T | 29.7 | 33.9 | 0.046 | 0.4156 | 1.21 (0.76, 1.94) | ||
CC | 46.9 | 46.0 | Reference | ||||
CT | 46.2 | 40.2 | 0.267 | 0.6134 | 1.128 (0.714, 1.781) | ||
TT | 6.9 | 13.8 | 3.054 | 0.0879 | 0.492 (0.222, 1.090) | ||
IL12B | rs2569254 | C | 90 | 85.71 | Reference | ||
T | 10 | 14.29 | 1.634 | 0.204 | 0.641 (0.323, 1.272) | ||
CC | 82.76 | 74.07 | Reference | ||||
CT | 14.48 | 23.28 | 3.995 | 0.0446 | 0.557 (0.314, 0.989) | ||
TT | 2.76 | 2.65 | 0.01 | 0.8092 | 0.933 (0.245, 3.554) | ||
rs730691 | T | 49.7 | 53.4 | Reference | |||
C | 50.3 | 46.6 | 0.471 | 0.493 | 1.164 (0.755, 1.795) | ||
TT | 28.3 | 25.4 | Reference | ||||
TC | 42.8 | 57.1 | 7.973 | 0.005 | 0.451 (0.260, 0.784) | ||
CC | 29 | 17.5 | 1.601 | 0.2128 | 0.671 (0.362, 1.245) |
Gene | rs ID | Allele/Genotype | Frequency (%) | χ2 Value | Corrected p-Value | OR (95% CI) | |
---|---|---|---|---|---|---|---|
MK Only Cases (N = 81) | Controls (N = 189) | ||||||
IL1B | rs16944 | A | 58 | 64 | Reference | ||
G | 42 | 36 | 0.77 | 0.408 | 1.32 (0.77, 2.24) | ||
AA | 38.3 | 38.6 | Reference | ||||
AG | 39.5 | 51.3 | 0.62 | 0.380 | 0.76 (0.43, 1.36) | ||
GG | 22.2 | 10.1 | 3.34 | 0.036 | 2.20 (1.02, 4.75) | ||
rs1143627 | G | 58.6 | 64.0 | Reference | |||
A | 41.4 | 36.0 | 0.36 | 0.486 | 1.22 (0.72, 2.09) | ||
GG | 39.5 | 38.6 | Reference | ||||
GA | 38.3 | 50.8 | 0.78 | 0.318 | 0.74 (0.41, 1.32) | ||
AA | 22.2 | 10.6 | 2.80 | 0.069 | 2.05 (0.96, 4.39) | ||
IL6 | rs10499563 | T | 81.5 | 81.5 | Reference | ||
C | 18.5 | 18.5 | 0.03 | 1.000 | 1.00 (0.51, 1.95) | ||
TT | 67.9 | 64.6 | Reference | ||||
TC | 27.2 | 33.9 | 0.60 | 0.350 | 0.76 (0.43, 1.36) | ||
CC | 4.9 | 1.6 | 2.10 | 0.093 | 2.95 (0.64, 13.66) | ||
CXCL2 (IL8) | rs4073 | A | 66.7 | 59.3 | Reference | ||
T | 33.3 | 40.7 | 1.02 | 0.397 | 0.73 (0.42, 1.26) | ||
AA | 40.7 | 37.6 | Reference | ||||
AT | 50.6 | 43.9 | 0.02 | 0.811 | 1.00 (0.56, 1.75) | ||
TT | 8.6 | 18.5 | 2.70 | 0.062 | 0.43 (0.17, 1.07) | ||
rs2227307 | T | 67.9 | 64 | Reference | |||
G | 32.1 | 36 | 0.22 | 0.584 | 0.84 (0.48, 1.46) | ||
TT | 42.0 | 43.4 | Reference | ||||
TG | 51.9 | 41.3 | 0.63 | 0.346 | 1.3 (0.75, 2.25) | ||
GG | 6.2 | 15.3 | 2.21 | 0.086 | 0.42 (0.15, 1.17) | ||
IL12B | rs2569254 | C | 91.4 | 85.7 | Reference | ||
T | 8.6 | 14.3 | 1.17 | 0.189 | 0.57 (0.24, 1.36) | ||
CC | 85.2 | 74.1 | Reference | ||||
CT | 12.3 | 23.3 | 3.63 | 0.045 | 0.46 (0.22, 0.97) | ||
TT | 2.5 | 2.7 | 0.03 | 0.600 | 0.81 (0.15, 4.29) | ||
rs730691 | T | 53.1 | 53.4 | Reference | |||
C | 46.9 | 46.6 | 0.01 | 0.999 | 1.01 (0.6, 1.71) | ||
TT | 32.1 | 25.4 | Reference | ||||
TC | 40.7 | 57.1 | 2.79 | 0.007 | 0.56 (0.31, 1.05) | ||
CC | 27.2 | 17.5 | 0.15 | 0.137 | 1.23 (0.6, 2.53) | ||
SK only cases (N = 65) | Controls (N = 189) | ||||||
IL6 | rs1554606 | G | 82.8 | 82 | Reference | ||
T | 17.2 | 18 | 0 | 1.000 | 0.95 (0.45, 2.0) | ||
GG | 71.9 | 66.7 | Reference | ||||
GT | 20.3 | 30.7 | 1.51 | 0.164 | 0.61 (0.31, 1.22) | ||
TT | 7.8 | 2.6 | 1.51 | 0.090 | 2.74 (0.76, 9.9) |
IL10 Haplotype | Case (Frequency %) | Control (Frequency %) | χ2 Value | Corrected p-Value | Odds Ratio (95% CI) |
---|---|---|---|---|---|
MK vs. controls | |||||
TATATTTCTC | 7.11 (4.4) | 1.92 (0.5) | 12.029 | 0.000527 | 10.216 (2.045–51.021) |
TGCGTGCTGC | 14.13 (8.7) | 13.91 (3.7) | 7.711 | 0.005502 | 2.862 (1.325–6.183) |
MK vs. SK | |||||
TGCGTGCTGC | 14.13 (8.7) | 2.00 (1.6) | 8.169 | 0.004273 | 6.818 (1.518–30.619) |
Gene | rs ID | Geno-Type | Outcome Measure | Frequency (%) | χ2 Value | Corrected p-Value | OR (95% CI) | |
---|---|---|---|---|---|---|---|---|
≤Median vs. >Median | Cases | Controls | ||||||
IL1B | rs16944 | AA | Severity | 65.4 | 88.4 | Reference | ||
GG | 34.6 | 11.6 | 3.968 | 0.046 | 4.02 (1.17, 13.82) | |||
IL12B | rs2569254 | CC | Mode of wear | 23.1 | 58.7 | Reference | ||
CT | 76.9 | 41.3 | 4.158 | 0.041 | 4.74 (1.19, 18.94) | |||
CC | Hospital admission | 35.7 | 74.6 | Reference | ||||
CT | 64.3 | 25.4 | 6.359 | 0.012 | 5.29 (1.56, 18.0) | |||
CC | Photophobia | 21.4 | 61.2 | Reference | ||||
CT | 78.6 | 38.8 | 5.864 | 0.015 | 5.78 (1.47, 22.71) | |||
rs730691 | TT | Mode of wear | 66.7 | 92.7 | Reference | |||
TC | 33.3 | 7.3 | 6.902 | 0.009 | 6.37 (1.69, 23.99) | |||
TT | Blurred vision | 33.3 | 60.3 | Reference | ||||
TC | 66.7 | 39.7 | 3.942 | 0.047 | 3.04 (1.12, 8.26) | |||
TT | Discharge | 90.9 | 59.6 | Reference | ||||
TC | 9.1 | 40.4 | 5.798 | 0.016 | 0.19 (0.04, 0.87) | |||
TT | Anterior chamber reaction | 70.0 | 93.0 | Reference | ||||
TC | 30.0 | 7.0 | 5.036 | 0.025 | 5.68 (1.41, 22.93) |
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Konda, N.; Chakrabarti, S.; Garg, P.; Willcox, M.D.P. Association of Single-Nucleotide Polymorphisms in Interleukin Genes with Microbial Keratitis in a South Indian Population. Pathogens 2022, 11, 1387. https://doi.org/10.3390/pathogens11111387
Konda N, Chakrabarti S, Garg P, Willcox MDP. Association of Single-Nucleotide Polymorphisms in Interleukin Genes with Microbial Keratitis in a South Indian Population. Pathogens. 2022; 11(11):1387. https://doi.org/10.3390/pathogens11111387
Chicago/Turabian StyleKonda, Nagaraju, Subhabrata Chakrabarti, Prashant Garg, and Mark D. P. Willcox. 2022. "Association of Single-Nucleotide Polymorphisms in Interleukin Genes with Microbial Keratitis in a South Indian Population" Pathogens 11, no. 11: 1387. https://doi.org/10.3390/pathogens11111387