| Literature DB >> 18366797 |
Hasan Al-Shemari1, Yohan Bossé, Thomas J Hudson, Myrna Cabaluna, Melanie Duval, Mathieu Lemire, Sophie Vallee-Smedja, Saul Frenkiel, Martin Desrosiers.
Abstract
BACKGROUND: Chronic rhinosinusitis (CRS) is increasingly viewed as an inflammatory condition of the sinonasal mucosa interacting with bacteria and/or fungi. However, factors conferring susceptibility to disease remain unknown. Advances in genomics offer powerful tools to explore this disorder. The goal of this study was to evaluate the effect of single nucleotide polymorphisms (SNP) on CRS in a panel of genes related to cysteinyl leukotriene metabolism.Entities:
Mesh:
Substances:
Year: 2008 PMID: 18366797 PMCID: PMC2292155 DOI: 10.1186/1471-2350-9-21
Source DB: PubMed Journal: BMC Med Genet ISSN: 1471-2350 Impact factor: 2.103
Figure 1Arachidonic acid metabolism. Candidate genes selected for genotyping are indicated along the cysteinyl leukotriene metabolic pathway. LO, lipoxygenase pathway; COX, cyclo-oxygenase pathway; ALOX5, arachidonate 5-lipoxygenase; ALOX5AP, arachidonate 5-lipoxygenase-activating protein; LTC4S, leukotriene C4 synthase; CYSLTR1, cysteinyl leukotriene receptor 1; CYSLTR2, cysteinyl leukotriene receptor 2. Cysteinyl leukotriene metabolites are leukotriene B4 (LTB4), leukotriene C4 (LTC4), leukotriene D4 (LTD4), and leukotriene E4 (LTE4).
Association between single nucleotide polymorphisms in leukotriene pathway candidate genes and chronic rhinosinusitis.
| ALOX5AP (13) | rs12430915 | 0.08 | C | 0.200 | 38:378, 26:346 | 0.271 |
| rs4769870 | 0.16 | T | 0.080 | 353:61, 269:61 | 0.170 | |
| rs4076128 | 0.30 | C | 0.439 | 290:124, 255:111 | 0.909 | |
| rs11616333 | 0.05 | G | 0.558 | 22:396, 19:353 | 0.922 | |
| rs4769055 | 0.33 | A | 0.187 | 143:275, 120:252 | 0.561 | |
| rs9578196 | 0.10 | T | 0.408 | 380:38, 326:42 | 0.283 | |
| rs4293222 | 0.37 | C | 0.930 | 161:257, 134:236 | 0.505 | |
| rs12429692 | 0.26 | T | 1.000 | 118:300, 88:284 | 0.144 | |
| rs10162089 | 0.49 | T | 0.828 | 217:197, 184:186 | 0.453 | |
| rs4254165 | 0.28 | C | 0.928 | 302:114, 264:108 | 0.612 | |
| rs4356336 | 0.42 | C | 1.000 | 242:176, 208:154 | 0.902 | |
| rs17612127 | 0.08 | T | 0.847 | 40:376, 21:343 | ||
| rs9506352 | 0.34 | T | 0.300 | 278:138, 242:128 | 0.674 | |
| rs9579648 | 0.15 | C | 0.317 | 68:350, 52:320 | 0.371 | |
| rs9579649 | 0.07 | T | 0.330 | 28:388, 24:348 | 0.875 | |
| rs9315051 | 0.08 | C | 1.000 | 33:385, 26:346 | 0.629 | |
| rs4420371 | 0.25 | C | 0.842 | 107:311, 93:277 | 0.882 | |
| rs4466940 | 0.20 | T | 0.295 | 85:329, 60:256 | 0.604 | |
| rs9578200 | 0.17 | T | 0.014 | 352:66, 307:65 | 0.525 | |
| rs9285076 | 0.22 | T | 0.133 | 326:92, 289:83 | 0.919 | |
| rs9670198 | 0.04 | A | 0.168 | 401:15, 329:13 | 0.887 | |
| rs4319601 | 0.41 | T | 0.064 | 241:163, 209:143 | 0.938 | |
| rs4769063 | 0.13 | T | 1.000 | 365:51, 322:50 | 0.621 | |
| rs4238139 | 0.28 | C | 0.028 | 117:301, 99:265 | 0.805 | |
| ALOX5 (10) | rs3824612 | 0.38 | T | 0.263 | 273:145, 220:152 | 0.074 |
| rs3780894 | 0.17 | C | 0.789 | 85:333, 52:320 | ||
| rs7099684 | 0.19 | A | 0.456 | 82:332, 65:301 | 0.466 | |
| rs7919239 | 0.23 | A | 0.392 | 101:313, 79:293 | 0.293 | |
| rs2115819 | 0.47 | C | 0.414 | 195:219, 152:180 | 0.720 | |
| rs11239523 | 0.16 | C | 0.831 | 71:345, 55:317 | 0.383 | |
| rs4948672 | 0.46 | C | 0.512 | 203:215, 161:211 | 0.137 | |
| rs12264801 | 0.45 | T | 0.028 | 230:188, 202:168 | 0.904 | |
| rs3780901 | 0.33 | C | 0.440 | 143:271, 116:250 | 0.400 | |
| rs2279435 | 0.43 | C | 0.707 | 187:231, 156:216 | 0.428 | |
| rs1565096 | 0.23 | C | 0.094 | 323:95, 283:89 | 0.691 | |
| rs1487562 | 0.21 | T | 0.381 | 97:321, 69:301 | 0.117 | |
| rs2291427 | 0.30 | T | 0.870 | 298:120, 257:115 | 0.498 | |
| rs7393696 | 0.38 | A | 0.394 | 256:154, 207:135 | 0.591 | |
| rs7089063 | 0.24 | A | 0.478 | 112:304, 61:233 | 0.059 | |
| CYSLTR2 (13) | rs2406939 | 0.36 | C | 0.948 | 152:266, 130:242 | 0.678 |
| rs11617224 | 0.11 | C | 1.000 | 375:43, 329:41 | 0.719 | |
| rs6420296 | 0.08 | C | 1.000 | 389:29, 337:33 | 0.303 | |
| rs7335898 | 0.06 | G | 0.790 | 28:390, 18:336 | 0.345 | |
| rs9285169 | 0.09 | T | 0.136 | 43:373, 26:334 | 0.129 | |
| rs9595961 | 0.48 | C | 0.994 | 203:215, 175:195 | 0.722 | |
| rs17072059 | 0.04 | T | 0.784 | 407:11, 353:17 | 0.137 | |
| rs7330127 | 0.44 | A | 1.000 | 189:229, 155:207 | 0.501 | |
| rs2407249 | 0.21 | C | 0.129 | 88:330, 74:298 | 0.687 | |
| rs9568087 | 0.29 | A | 0.315 | 299:117, 254:108 | 0.600 | |
| rs12184704 | 0.07 | C | 0.057 | 33:385, 21:339 | 0.259 | |
| CYSLTR1 (X)* | rs321090 | 0.23 | C | 0.605 | 247:60, 207:81 | |
| rs321007 | 0.30 | C | 0.916 | 224:84, 192:96 | 0.107 | |
| rs321006 | 0.13 | T | 0.423 | 42:266, 37:252 | 0.764 | |
| LTC4S (5) | rs730012 | 0.29 | C | 0.403 | 126:292, 103:269 | 0.448 |
| rs2291418 | 0.04 | T | 0.316 | 399:15, 347:19 | 0.284 | |
| rs166624 | 0.17 | A | 1.000 | 77:341, 56:316 | 0.207 |
HWE, Hardy-Weinberg equilibrium; MAF, minor allele frequency.
*Hardy-Weinberg and association tests were specifically calculated for the X chromosome using the method implemented in Haploview 3.32.
**Number of allele A observed in cases : number of allele B observed in cases, number of allele A observed in controls : number of allele B observed in controls.
Characteristics of the subjects
| n | 206 | 200 |
| Age (years) | 52.3 ± 13.0 | 48.8 ± 15.0 |
| Male: Female ratio | 1.10 | 0.79 |
| Ethnic group (%) | ||
| White | 85.2 | 89.5 |
| Middle East | 4.9 | 4.4 |
| Jewish | 5.4 | 1.1 |
| Asian | 1.5 | 1.1 |
| First Nation | 1.5 | 0.6 |
| Black | 1.0 | 0.6 |
| Hispanic | 0.5 | 1.1 |
| Pacific Islander | 0.0 | 1.7 |
Values are means ± SD for age.
Figure 2Genetic association of SNPs in the leukotriene pathway genes with chronic rhinosinusitis. Each subfigure presents the result of one gene. The top line indicates the gene name and symbol. The upper part of each subfigure shows the exon-intron structure of the gene and the localization of the genotyped SNPs. The coding exons are shown in black and the untranslated regions are shown in grey. The lower part of each subfigure illustrated the association results for chronic rhinosinusitis. The x-axis shows the localization of the gene and SNPs on build 36. The y-axis shows the p values on a log scale. The lower and upper dash lines represent p value thresholds of 0.05 and 0.0012, respectively. The gene structure for CYSLTR2 was taken from Fukai et al. [38]. The upper and lower parts of each subfigure are shown on the same scale.
Figure 3Linkage disequilibrium (LD) plots surrounding genes involved in the leukotriene pathway. The LD plots were generated by Haploview 3.32. [25]. Gene symbols are indicated at the top of each graph. The upper part of each graph illustrated the HapMap info track including the location of the gene on build 34. The white horizontal bar below the info track illustrated the location of SNPs on a physical scale. The color of squares illustrate the strength of pairwise r2 values on a black and white scale where black indicates perfect LD (r2 = 1.00) and white indicates perfect equilibrium (r2 = 0). The r2 LD value is also indicated within each square. Blocks are defined using the Gabriel et al. [39] definition. Failed and monomorphic SNPs as well as SNPs not in Hardy-Weinberg equilibrium are not illustrated.