NLRP1 and NLRP3 polymorphisms in mesothelioma patients and asbestos exposed individuals a population-based autopsy study from North East Italy

NRLP1 (rs12150220, rs9889625, rs9900356, rs6502867, rs2670660) and NLRP3 (rs35829419, rs10754558) polymorphisms have been analyzed in 69 subjects with documented asbestos exposure and death for malignant pleural mesothelioma and 59 patients with documented asbestos exposure but death for other causes, all from a North East Italy. No association was found between NLRP1 and NLRP3 polymorphisms and susceptibility to develop mesothelioma using the general, dominant or recessive models. Also haplotype analysis did not reveal any significant association with mesothelioma. Our findings, being controversial with respect to another study on Italian patients, do suggest the need of further studies to unravel the contribution of NLRP1 and NLRP3 in susceptibility to mesothelioma. Electronic supplementary material The online version of this article (doi:10.1186/s13027-015-0022-0) contains supplementary material, which is available to authorized users.

With the aim of replicating Girardelli et al. [8] results, we analyzed NRLP1 and NLRP3 polymorphisms in subjects exposed to asbestos from North East Italy.
We collected 128 subjects deceased during the period 1980-2000, of which 69 with documented asbestos exposure and death for MPM (AEM) and 59 patients with documented asbestos exposure but death for causes different from MPM and other asbestos related diseases (AENM), used as controls. All subjects were characterized based on information available in medical records and the MPM diagnosis was performed by histologic examination. For the AENM group objective signs confirming asbestos exposure were the presence of hyaline plaque at autopsy (≥2°) at pleural level, presence of asbestos bodies (AB) in routine lung sections and (for most cases) counts of AB, expressed as number of AB per gram of dry lung tissue, ≥10.000/g.
Genomic DNA of AEM and AENM was extracted from formalin-fixed and paraffin-embedded archived autopsy heart tissue slices (about 40-50 slices with a thickness of 5-7 μm were cut from the same paraffin block) using the QIAsymphony DSP DNA mini kit (QIAGEN, Hilden, Germany) and eluted in 50ul of TE buffer.
Quantitative and qualitative evaluation of extracted DNA was performed using NanoDrop ND-1000 (Termo Scientific, Wilmington, USA); electrophoresis on agarose gel allowed us to verify the degree of DNA degradation.
We genotyped two NLRP3 polymorphisms (rs35829419, cSNP and rs10754558, Tag SNP) and five NLRP1 polymorphisms (rs12150220, cSNP; rs9889625, Tag SNP; rs9900 356, Tag SNP; rs6502867, Tag SNP; rs2670660, Tag SNP) using the following Taqman genotyping assays: NLRP3 C__25648615_10, C__26052028_10; NLRP1 C___1600653_10, C___1274455_10, C__29796119_10, C__29222211_20 and C___1600689_10. Allelic specific PCR reactions have been run on ABI 7500 real time instrument (Life Technologies, Foster City, CA). SDS software (Life Technologies) allowed allelic discrimination and genotyping. Table 1 summarizes the distribution of NLRP1 and NLRP3 polymorphisms genotype counts among the AEM and AENM groups (a graphic representation is also provided as Additional file 1: Figure S1). All markers were in Hardy-Weinberg Equilibrium (HWE) in both AEM and AENM groups with the exception of NLRP1 rs9900356 SNP in AEM group and NLRP3 rs35829419, which was not in HWE in AENM and AEM.
No association was found between NLRP1 and NLRP3 polymorphisms and susceptibility to develop mesothelioma using the general, dominant or recessive models. Moreover, we evaluated the formation of haplotypes in NLRP1 and NLRP3 genes. We detected two blocks for NLRP1: Haplo1 (rs9900356, rs6502867 and rs9889625; D' = 1) and Haplo2 (rs12150220 and rs2670660; D' = 0.83). The two NLRP3 SNPs also formed a haplotype (D' = 1). We estimated the haplotype frequencies of the NLRP1 and NLRP3 polymorphisms in AEM and AENM individuals and no association with susceptibility to the disease was found; haplotype distributions are in Additional file 2: Table S1; Additional file 3: Figure S2, reports the haploblocks found for NLRP1 and NRLP3 SNPs.
So the association (for both rs12150220 SNP and rs12150220-rs2670660 haplotype) with susceptibility to mesothelioma reported by Girardelli et al. [8] has not been replicated in our study, also performed in Italian patients and controls (our samples were from Monfalcone, an industrial area with endemic exposition to asbestos).
However, in the study of Girardelli et al. NLRP1 and NRLP3 polymorphisms have been evaluated in patients with mesothelioma and controls living in a geographic area known to be at risk of asbestos exposure, while in our study both mesothelioma patients and controls had documented asbestos exposure (see Additional file 4: Table S2 for details), so our genetic analysis has been performed on more homogeneous cohorts.
Girardelli et al. [8] et al. hypothesized a role for NLRP1 inflammasome in the context of mesothelioma on the basis of NLRP1 lung expression (alveolar macrophages and epithelial cells), a location where this innate immune protein could act as sensor of asbestos fibres. The authors suggested a possible functional role for NLRP1 functional SNP rs12150220, indicating the presence of the T allele as able to imbalance NLRP1 production. Since no functional data are already available in the literature for rs12150220 variation, we performed an in silico search with SIFT and Polyphen softwares able to predict an eventual detrimental effect of the SNP: both SIFT (0.16) and Polyphen (0.415) predictive values indicate no damaging effect for NLRP1 rs12150220 SNP. Being aware of the limitations of in silico