Genetic Variants in Folate and Cobalamin Metabolism-Related Genes in Nonsyndromic Cleft Lip and/or Palate

The aim of this study was to evaluate the association of the polymorphisms in TCN2 (rs1801198) gene and in MTRR (rs1801394) gene with nonsyndromic cleft lip and/or palate (NSCL/P) in a Brazilian population. Genomic DNA was extracted from buccal cells. The polymorphisms in TCN2 (rs1801198) and MTRR (rs1801394) genes were genotyped by carrying out real-time PCR and Taqman assay. Chi-square test was used to determine the association between genotype and allele frequencies with NSCL/P and NSCL/P subgroups (cleft lip only, cleft lip and palate, and cleft palate only). Eight hundred and sixty seven unrelated individuals (401 cases with NSCL/P and 466 individuals without cleft) were evaluated. Genotype distributions of TCN2 and MTRR polymorphisms were in Hardy-Weinberg equilibrium. The TCN2 polymorphic genotype GG was identified in 16.7% of the NSCL/P group and in 14.1% of the non-cleft group (p>0.05). Similarly, the frequency of MTRR genotype (GG) was similar in NSCL/P group (15.5%) and control group (17.8%) (p>0.05). Multivariate analysis showed an association between MTRR and the subgroup that the mother smoked during pregnancy (p=0.039). Our findings did not demonstrate an association between TCN2 polymorphisms and NSCL/P, however suggests an association between MTRR and NSCL/P etiology

cleft lip and/or palate; vitamin B12; folic acid; MTRR gene; TCN2 gene; genetic polymorphisms; subphenotypes

Resumo

O objetivo desse estudo foi avaliar a associação entre os polimorfismos no gene TCN2 (rs1801198) e no gene MTRR (rs1801394) com fissura de lábio e/ou palato não sindrômica (NSFL/P) em uma população brasileira. DNA genômico foi extraído de células bucais. Os polimorfismos nos genes TCN2 (rs1801198) e MTRR (rs1801394) foram genotipados através do PCR em tempo real pelo método Taqman. O teste do qui-quadrado foi utilizado para determinar a associação entre a frequência alélica e genotípica e NSFL/P e nos subtipos (fissura de lábio, fissura de lábio com palato e fissura de palato). Oitocentos e sessenta e sete indivíduos não aparentados (401 casos com NSFL/P e 466 indivíduos sem fissura) foram avaliados. A distribuição dos genótipos dos polimorfismos de TCN2 e MTRR estavam em equilíbrio de Hardy-Weinberg. O genótipo polimórfico GG do gene TCN2 foi identificado em 16,7% do grupo com NSFL/P e em 14,1% do grupo sem fissura (p>0,05). Da mesma forma, a freqüência do genótipo GG do gene MTRR foi bastante semelhante entre o grupo com NSFL/P (15,5%) e o grupo controle (17,8%). A análise multivariada mostrou associação entre o gene MTRR e o subgrupo que apresentou tabagismo materno durante a gestação (p=0,039). Nossos resultados mostraram que não há associação entre os polimorfismos nos genes TCN2 e NSFL/P, entretanto sugerem uma associação entre MTRR e a etiologia de NSFL/P.

Introduction

Nonsyndromic cleft lip and/or palate (NSCL/P) is one of the most common congenital anomalies in humans and has an impact in the oral health. NSCL/P is a multifactorial condition and many factors, such as ethnical background, geographic origin, socioeconomic status, genetics and environmental factors are involved ¹.

Environmental factors, such as vitamin supplementation at preconception period, have been shown to contribute in the prevention of many birth defects, especially NSCL/P ². Folate (folic acid) and cobalamin (vitamin B12) participate in the methylation cycle and act as cofactors in DNA and RNA biosynthesis, playing an essential role in cell differentiation and tissue growth as well as during embryogenesis ³. Studies using animal models have demonstrated a specific involvement of folate and cobalamin during palatogenesis ⁴.

Transcobalamin II is a protein responsible for cobalamin transporting to the cells at tissues (^{5 6 7 8}) and it is encoded by TCN2 gene. Metabolically, just after cellular uptake, cobalamin participates as a cofactor in so many biochemical pathways, including that responsible by homocysteine (Hcy) metabolism, involving methionine, a recognized methyl donor ⁹. This reaction is regulated by two enzymes, methionine synthase (MTR) and methionine synthase reductase (MTRR), encoded by the MTRR gene ¹⁰.

Polymorphisms in TCN2 and MTRR might alter cell metabolism during embryonic development. A previous study has proposed that TCN2 776C>G polymorphism may be functionally associated with NSCL/P ¹¹. The G allele is associated with lower circulating concentrations of transcobalamin ¹². In addition, other studies suggested that MTRR 66A>G polymorphism is a risk factor for neural tube defects ¹³ and NSCL/P ¹⁴. This variant leads to the amino acid change of isoleucine to methionine at position 22 ¹⁵. The G allele produces an enzyme with less affinity for the substrate ¹⁶. Although some studies have evaluated the association between periconception use of multi-vitamin with NSCL/P ^{17 18} only few have investigated the folate and cobalamin pathway polymorphisms in the etiology of NSCL/P.

Therefore, it is possible that polymorphisms in TCN2 and MTRR genes are involved in the NSCL/P etiology. We may hypothesize that these polymorphisms act alone or in a gene/gene interaction or gene/environmental interaction. Thus, the present study aimed to evaluate the association between NSCL/P with polymorphisms in TCN2 and MTRR genes and to evaluate the interaction between these two polymorphisms with environmental factors.

Material and Methods

Subjects

The NSCL/P group was ascertained through a public hospital specialized on orofacial cleft rehabilitation (Hospital Nossa Senhora do Loreto), Rio de Janeiro State, Brazil. Syndromic cleft were excluded. Also, to reduce possible etiological heterogeneity, we excluded those patients with clefts with additional unspecified multiple malformations.

The non-cleft group consisted of unrelated subjects, with no familiar history of NSCL/P that sought for a dental treatment at the Pediatric dentistry Clinic at Federal University of Rio de Janeiro (UFRJ). Both institutions are located in the city of Rio de Janeiro, geographically positioned at southeast of Brazil. Both institutions are located within 10 km of each other, in the same city of Rio de Janeiro. The control group was selected to ensure it matched the cleft group in age, gender, and geographic distribution.

The examiners collected all data from individuals born with or without clefts since September/2009 to September/2011. All individuals or parents/legal guardians answered a questionnaire about demographic characteristics; positive family history of cleft and mothers habits (smoke and alcohol ingestion during pregnancy).

Local Research and Ethics Committee (Protocol Number 113/09) approved this study. All participating individuals or parents/legal guardians allowed participation in this study by signing an informed consent.

Determination of Cleft Types

The determination of cleft types was based on clinical examination. Cases were classified in cleft lip only, cleft lip and palate and cleft palate only. Based on cleft laterality, cases were also divided in left, right or bilateral.

DNA Samples and Genotyping

Genomic DNA was extracted from oral cells by the previously reported method ¹⁹. Genetic polymorphisms in the TCN2 gene (rs1801198) and in the MTRR gene (rs1801394) were genotyped by real-time polymerase chain reactions using the Taqman method by Agilent Technologies (Stratagene Mx3005P). All reagents and assays were supplied from Applied Biosystems (Foster City, CA, USA). Markers informations are included in Table 1.

Table 1
Details on the studied genetic markers

• Note: ^aRef. seq.:TCN2:c.M60396.1; MTRR:c.NM_002454.1.^b In bold letters are minor allele count ^c Obtained from ENTREZ SNP database (http://www.ncbi.nlm.nih.gov/sites/entrez).

Statistical Analysis

Data were analyzed using the Statistical Package for the Social Sciences (SPSS - 16.0; SPSS Inc., Chicago, IL. USA)). In addition, NSCL/P group were analyzed not only as a total group, but also in stratified subgroups: cleft type (cleft lip only, clef lip and palate, and cleft palate only), mothers' smoking and drinking behavior during gestational period; cleft side and cleft completeness. Chi-square determined if NSCL/P or cleft types was preferentially associated with TCN2 or MTRR genotypes and alleles. The binary logistic regression was adjusted for genotype, ethnic groups and mothers' habits (smoke and alcohol ingestion). Gene-gene interactions were also ascertained with binary logistic regression analysis. Differences were considered significant when p≤0.05. Moreover, the standard chi-square test was used to test for deviation from Hardy-Weinberg equilibrium.

Results

Of 867 individuals included in this study, 401 were NSCL/P (case group) and 466 were non-cleft individuals (control group). The cleft lip and palate was the most common cleft type (67.3%). The characteristics of the studied population are summarized in Table 2. Based on the maternal habits, 18.7% and 13.5% of mothers, respectively, into case group (NSCL/P) and control group (non-cleft individuals) smoked during gestational period. A significant difference was observed (p=0.037) between groups. Alcohol consumption during pregnancy was not different between groups (p=0.080).

Table 2
Characteristics of the groups

• Note: *Note: Student test,** chi-square test p≤0.05; bold forms indicated statistical significance.

Genotype distributions for both polymorphisms were in Hardy-Weinberg equilibrium. There were no significant differences in the allele and genotype distribution of TCN2 between non-cleft and NSCL/P groups. A lack of association was also observed for cleft types (Table 3). MTRR polymorphism distribution between non-cleft and NSCL/P groups is presented in the Table 4. Alleles distributions were not associated with NSCL/P for in both studied genes (p>0.05).

Table 3
Frequency of TCN2 allele and genotype distribution among NSCL/P and non-clefts groups

Table 4
Frequency of MTRR allele and genotype distribution among NSCL/P and non-clefts groups

In the logistic regression analysis adjusted for genotypes and mother smoking during pregnancy, MTRR AG genotype was significantly associated (p=0.030) demonstrating an increased risk for NSCL/P (OR=1.439, 95% CI 1.035-2.000).

During logistic regression analysis gene-gene interaction was not observed (p=0.258).

Discussion

A recent meta-analysis reported that folic acid, alone or in combination with vitamins and minerals, reduces birth defects but there are no evidences regarding the effects on NSCL/P prevention ²⁰. In addition a previous study demonstrated that folate-related gene polymorphisms could be risk factors for NSCL/P²¹. Our study analyzed the association of polymorphisms of folate-related gene (TCN2 and MTRR) with NSCL/P in a Brazilian population.

It was not found an association between TCN2 (776C>G) and NSCL/P. Martinelli et al. ¹¹ investigated the association between NSCL/P and TCN2 (776C>G) gene in a case-parent triad and they suggested that this polymorphism might be functionally related with NSCL/P. On the other hand, later studies tried to replicate their findings, but could not confirm this association ^{10 23}.

This inconsistency on different results maybe explained by the ethnical background differences. New studies are necessary to evaluate this association in different populations. In our Brazilian sample group from the southeast of the country, there was no association between TCN2 gene (776 C>G) and NSCL/P types, neither gene-environmental interaction.

Previous studies investigated MTRR gene (66A>G) polymorphism and reported a negative association with NSCL/P ^{10 11 22 23}, although a recent study with Ukrainian individuals observed that the MTRR was associated with the NSCL/P risk ¹⁴. We found a borderline association when we analyzed the MTRR genotypes distribution in NSCL/P versus non-cleft group (p=0.06). It is important to highlight that in our subgroup analysis (according to the cleft type), there was a borderline association only for cleft lip and palate group. This could be explained by the fact that cleft lip with or without palate has a different etiological background than cleft palate only. Our results lead us to hypothesize that MTRR (66A>G) polymorphism plays a role in the specific NSCL/P type, the cleft lip with palate phenotype, in which this gene acts with a small effect in clefting establishment.

The logistic regression analysis suggested that smoke during pregnancy could interact with MTRR. Chemical components found in tobacco smoke possibly alter the ability of the cell to store and metabolize folate ²⁴. For this reason, current smoking status affects dietary nutrient intake as well as plasma folate levels ²⁵. Considering that women have a decreased folate and vitamin B12 serum concentrations during pregnancy, we hypothesize that women smokers in gestational period that carrier the polymorphic variant in MTRR gene need more vitamin supplementation.

The results of this study suggest that further investigations should be performed in order to confirm the involvement of MTRR in the etiology of NSCL/P, maybe by looking for other polymorphic loci on MTRR gene. In addition, we recommend that, in the future, the data about mother supplementation during pregnancy should be collected. The absence of these data is an obvious limitation of our study. However, the set of results obtained on this direction will bring some conclusion regarding the knowledge about the MTRR involvement in NSCL/P etiology.

In conclusion, the present study did not confirm that the polymorphism rs1801198 in TCN2 is associated with NSCL/P. However our results suggested that the polymorphism rs1801394 in MTRR may be associated with the NSCL/P in a southeast Brazilian population, mainly cleft lip and palate type.

Acknowledgements

The authors are grateful to volunteers (subjects and their parents or guardians) of this study and the Nossa Senhora do Loreto Hospital, Ilha do Governador, Rio de Janeiro, Brazil and Professor Ronir Raggio Luiz (Institute of Public Health Studies, Federal University of Rio de Janeiro, Rio de Janeiro, RJ, Brazil). Funding resources from FDECIT-MS, FAPERJ and CNPq (Brazilian funding agencies) and individual fellowships from CNPq (ECK), CAPES (MWZ), UFF (TCSV) and FAPERJ (JMG)supported this work.

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Publication Dates

• Publication in this collection
  Nov-Dec 2015

History

• Received
  26 Mar 2015
• Accepted
  08 Nov 2015