10.6084/m9.figshare.3503126.v1
Zhuxiang Zhao
Zhuxiang
Zhao
Yumin Zhou
Yumin
Zhou
Yujun Li
Yujun
Li
Changbin Jiang
Changbin
Jiang
Dongxing Zhao
Dongxing
Zhao
Ziwen Zhao
Ziwen
Zhao
Zhaohui Liu
Zhaohui
Liu
Pixin Ran
Pixin
Ran
An efficient method to genotype the polymorphisms of cholinergic nicotinic receptor subunit genes and their associations with COPD onset risk
Taylor & Francis Group
2016
cholinergic nicotinic receptor
chronic obstructive pulmonary disease
high-resolution melting
polymorphism
2016-07-27 15:43:35
Dataset
https://tandf.figshare.com/articles/dataset/An_efficient_method_to_genotype_the_polymorphisms_of_cholinergic_nicotinic_receptor_subunit_genes_and_their_associations_with_COPD_onset_risk/3503126
<p><b>Background:</b> Single-nucleotide polymorphisms (SNPs) in the cholinergic nicotinic receptor subunit genes on chromosome 15q25.1, including <i>CHRNA3</i>, <i>CHRNB4</i> and <i>CHRNA5</i>, are well-established biomarkers of chronic obstructive pulmonary disease (COPD) and lung cancer. Thus, there is great demand for a rapid, easy and inexpensive method to detect these variations for purpose of risk prediction in large populations. <b>Aim of the Study:</b> The aim of this study was to establish an accurate and efficient method for genotyping <i>CHRN</i> SNPs and testing their association with age at onset of COPD in Chinese population as well as the clinical stage in COPD patients. <b>Materials and Methods:</b> We designed a method to specifically genotype 5 SNPs of <i>CHRN</i> genes based on a modified high-resolution melt (HRM) method and then validated the genotyping results by direct sequencing of 120 samples. We further used the HRM method to genotype these 5 SNPs in 1,013 COPD patients. <b>Results:</b> Requiring little time, few material costs and only a simplified protocol, the modified HRM method could accurately distinguish the genotypes of <i>CHRN</i> SNPs, demonstrating kappa coefficients >0.96 based on the results from direct sequencing. Furthermore, the data showed that the GG genotype of SNP rs56218866 was associated with a significantly earlier age of COPD onset than A (AA+AG) genotypes (61.0 ± 8.93 vs. 67.8 ± 9.88; <i>P</i> = 0.031), which was not found for the other SNPs. No significant association was observed between the COPD stages and any of the above SNPs. <b>Conclusion:</b> A simple, rapid and efficient HRM method was introduced for <i>CHRN</i> SNP genotyping and a suggestion that the SNP rs56218866A>G is associated with early-onset COPD in a Chinese population was found.</p>