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Autism: Original Article

Prenatal Vitamins, One-carbon Metabolism Gene Variants, and Risk for Autism

Schmidt, Rebecca J.a,b; Hansen, Robin L.b,c; Hartiala, Jaanad; Allayee, Hoomand; Schmidt, Linda C.e; Tancredi, Daniel J.c,f; Tassone, Florab,e; Hertz-Picciotto, Irvaa,b

Author Information
doi: 10.1097/EDE.0b013e31821d0e30


Autism is a neurodevelopmental disorder defined by the presence of impaired social reciprocity, abnormal communication, and restricted interests or repetitive behavior, with symptoms apparent by 3 years of age. Prevalence of autism spectrum disorders is approximately 1 in 110 children in the United States,1 and incidence appears to be rising.2 Although genetic contributions to autism etiology are widely accepted, the rising incidence, inconsistent findings from genetic studies, and less than 100% concordance in monozygotic twins suggest a role for multiple interactions between susceptibility genes and environmental factors.3 A recently reported association linking autism to short intervals between pregnancies suggests that nutritional factors could play a role.4 Additional research demonstrates that valproic acid, which disrupts folate metabolism, can induce autism.5 The neuropathology may originate early in pregnancy5—a time when folate and other B vitamins are known to be critical to neurodevelopment, with potential to prevent up to 70% of neural tube defects.6

The literature suggests that some children with autism have altered B vitamin metabolism and reduced methylation capacity.7 A few studies have reported independent associations between autism and functional gene variants within the B vitamin-dependent folate, methionine, and transmethylation pathways (eFigure,, including variants in 5,10-methylenetetrahydrofolate reductase (MTHFR), dihydrofolate reductase (DHFR), solute carrier family 19, member 1 (SLC19A1, RFC1), 5-methyltetrahydrofolate-homocysteine methyltransferase (MTRR), transcobalamin II (TCN2), and catechol-O-methyltransferase (COMT),8–11 with findings replicated only for MTHFR.9,10 These reports did not address maternal vitamin intake, and only one considered maternal genotypes,11 even though maternal polymorphisms can influence fetal health.12

Our objective was to examine associations between autism and maternal vitamin supplement intake in the preconception and prenatal periods—both alone and in combination with common functional maternal and child gene polymorphisms in folate, methionine, and transmethylation pathways.


Participants, Eligibility and Diagnostic Criteria

Families were recruited through the large, population-based, case-control CHARGE (CHildhood Autism Risks from Genetics and Environment) study.13 Eligible children were between 24 and 60 months of age, living with at least one biologic parent who spoke English or Spanish, born in California, and residing in the catchment areas of a specified group of Regional Centers (primarily in Northern California) that coordinate services for persons with developmental disabilities. Children with autism or with intellectual disability or developmental delay were identified through the state's Department of Developmental Services, provider and clinic referrals, general public outreach, and self referrals. General population controls were identified from state birth files and were frequency-matched to the projected age, sex, and catchment area distribution of the autism cases.

All children were assessed for cognitive function using the Mullen Scales of Early Learning and for adaptive function using the Vineland Adaptive Behavior Scales, as described previously.13 Autism cases were assessed using the Autism Diagnostic Interview-Revised14 and the Autism Diagnostic Observation Schedule-Generic15 to confirm child's diagnostic group. The children recruited from the general population or with developmental delays were screened for evidence of autism spectrum disorder using the Social Communication Questionnaire. Those who scored 15 or above were further evaluated for autism. Assessments were conducted in English or Spanish at the Medical Investigation of Neurodevelopmental Disorders (M.I.N.D.) Institute by trained clinical staff. Final autism case status was defined as meeting criteria on the Communication, Social, and Repetitive Behavior domains of the ADI–R and scoring at or above the total cut off for autistic disorder on the ADOS Module 1 or 2. Autism spectrum disorder was defined using the criteria of Risi et al.16

Study protocols were approved by the University of California Davis Institutional Review Board and the State of California Committee for the Protection of Human Subjects. No data were collected without informed parental consent. Children were included in these analyses if they were the first child within the family recruited into the study, they were born after 1999, and their parents completed the study interview from 2003 through July 2009.

Data Collection

Mothers were asked in telephone interviews whether they consumed prenatal vitamins, multivitamins, selected nutrient-specific vitamins, cereals, and other supplements at any time during the period 3 months before conception through pregnancy and the breast-feeding period. If they had, mothers were further asked the brand, dose, and frequency of consumption, and in which months they consumed the item (eAppendix, When given, the brand of the vitamin was used to check the appropriateness of the vitamin category. The periconceptional period was defined as the period 3 months before pregnancy through the first month of pregnancy.

Genotyping Methods

Blood was collected from all family members as part of the study protocol, and genomic DNA was isolated from peripheral blood leukocytes using standard procedures (Puregene kit; Gentra Inc). MTHFR 677C>T (rs1801133), MTHFR A1298C (rs1801131), COMT 472G>A (rs4680), MTRR A66G (rs1801394), BHMT G716A (rs3733890), TCN2 C776G (rs1801198), CBS rs234715, MTR 2756A>G (rs1805087), FOLR1 rs2071010, and FOLR2 rs2298444 variants were genotyped in maternal, paternal, and child samples using the TaqMan system from Applied Biosystems, Inc. (ABI, Foster City, CA). Selection of these common, functional, one-carbon metabolism gene variants was based on previous findings for associations with higher homocysteine levels, neural tube defects, and autism, and the availability of a genotyping assay through ABI's “Assays on Demand” database. Maternal and child MTHFR 677C>T, COMT 472G>A, MTRR A66G, BHMT G716A, FOLR2 rs229844, CBS rs234715, and TCN2 C776G variants were selected for evaluation of interaction effects based on previous literature and adequate numbers for stratification.

Statistical Analysis

We constructed logistic regression models adjusted for confounding variables to estimate odds ratios (ORs) and 95% confidence intervals (CIs) for vitamin intake and maternal and infant genotypes using SAS, version 9.2 software (SAS Institute Inc., Cary, NC). We examined the following variables as potential confounders of the association between prenatal vitamin intake and autism: child's sex, birth year, parent-reported race/ethnicity, family history of mental health conditions, paternal age at child's birth, maternal age at child's birth, education, prepregnancy body mass index (BMI) category, cereal intake from 3 months before through the first month of pregnancy, cigarette smoking, alcohol consumption, and residence with a smoker during the period 3 months before pregnancy to delivery. We retained covariates causing a 10% or greater change in the estimated log of the exposure odds ratio. Only maternal education and the child's year of birth met this criterion. We used stratified analyses and interaction terms to examine effect modification by child sex and race/ethnicity, and maternal age, education, and prepregnancy BMI categories. We also examined effect modification for vitamin intake by genotype. Population structure bias was assessed for each gene variant using case trios and parents of typically developing children in a hybrid log-linear model by adding an interaction term between case status and mating-type parameters, and by testing the improvement in fit with both a 5-degrees-of-freedom likelihood-ratio-test and a more sensitive 1-degree-of-freedom test-for-trend across mating-type parameters.17 To ensure that the results represented the study base, we used survey research methods to estimate the logistic regression models, with participants assigned weights equal to the inverse of the estimated response probability in strata defined by the entry case group and demographic factors.18 Sensitivity analyses assessed the impact of missing data, using multiple imputation through the Markov Chain Monte Carlo algorithm.19


Participant Characteristics

Of the families contacted and deemed eligible, 26% of children from the general population and 30% of children from the autism pool were enrolled. Of the participants who met the inclusion criteria, 278 children met diagnostic criteria for typical development, 288 met the criteria for autism, and an additional 144 met the criteria for autism spectrum disorder. Children with autism differed somewhat from typically developing children in racial distribution, with a higher percentage of Asian and a lower percentage of mixed or other (Table 1). Mothers of children with autism were sociodemographically similar to mothers of typically developing children (Table 1).

Characteristics of Children With Autism and With Typical Development (and Their Mothers) in the Childhood Autism Risks From Genetics and the Environment (CHARGE) Study, California, 2003–2009

We obtained biologic samples and genotyped 232 families (83%) of children with typical development and 238 families (83%) of children with autism. Genotyped families closely resembled all eligible families for both cases and controls, including their vitamin intake (Table 1).

Maternal Prenatal Vitamin Intake

Maternal prenatal vitamin consumption for the 3 months before pregnancy through delivery was reported for 269 children (97%) with typical development and 276 children (96%) with autism. The percentage of mothers who reported consuming prenatal vitamins increased after the first month of pregnancy, and by the end of the first trimester, approximately 90% of mothers with children in both groups reported consuming prenatal vitamins (Figure). Mothers of children with autism were less likely to report having consumed prenatal vitamins than mothers of typically developing children during all months examined, especially during the 3 months before and the first month of pregnancy (Figure). After adjustment for maternal education and child's birth year, prenatal vitamin use during that period was associated with lower risk for autism in unweighted (OR 0.62; 95% CI 0.42–0.93) and weighted analyses (Table 2). No associations were observed for intake during months 2 through 9 of pregnancy. Increased frequency of prenatal vitamin intake during the periconceptional period was associated with further reductions in autism risk (2-sided test for trend, P = 0.002) (Table 2). Reported use of ordinary multivitamins around the time of conception was not associated with decreased risk of autism compared with those taking no vitamins (1.1 [0.57–2.3]) (Table 2).

Intake of prenatal vitamin supplements by month. Vertical bars represent the 95% confidence interval on the percentage of mothers of children with autism and mothers of typically developing children reporting prenatal vitamin intake for each month for the period 3 months before and during pregnancy.
Associations Between Maternal Periconceptionial Vitamin Intake and Risk for Autism

Non-Hispanic white, college-educated mothers, and those not born in Mexico were more likely to report taking prenatal vitamins and multivitamins during the 3 months before and first month of pregnancy (eTable 1, Adjusted ORs for reported periconceptional prenatal vitamin intake varied little by maternal education and race/ethnicity (data available upon request). Women who are not planning a pregnancy are unlikely to take prenatal supplements before conceiving. We therefore conducted an analysis restricted to women who intended to become pregnant (66% of all women), finding similar results (0.53 [0.32–0.87]). Age of the child (representing the interval between exposure event and recall) had little influence on the OR: for mothers with children less than the age of 4 years at the time of interview, OR = 0.63 (CI = 0.39–1.0), and for those with children age 4 and older, OR = 0.69 (0.35–1.4). Sensitivity analyses with imputed values for missing prenatal vitamin intake showed the association was robust and held even when people with missing data were intentionally assigned such that no association was present in this group.

Interaction Effects Between Relevant Genotypes and Periconceptional Prenatal Vitamin Intake

All polymorphisms had genotype distributions consistent with expected Hardy-Weinberg equilibrium proportions (P > 0.05) among control families. We found no evidence for population structure bias by either the 5- or 1-degree-of-freedom test for any of the variants. Genotyping success rates were above 95% for mothers and children in both diagnostic groups (data not shown). Allele frequencies for MTHFR 677T (35%), COMT 472A (46%), MTRR 66G (52%), BHMT 716A (32%), FOLR2 rs2298444 (16%), CBS rs234715 (24%), and TCN2 776G (47%) in non-Hispanic white parents of typically developing children were similar to those reported in other white populations (32%–37%,9,10,20 43%–52%,20 44%–55%,20 28%–34%,20 0%–22%,20 22%–30%,20 and 45%,20 respectively).

Interactions were observed for autism between a report of no periconceptional maternal prenatal vitamin intake and both maternal MTHFR 677 TT (test for interaction P = 0.04) and CBS rs234715 GT + TT (test for interaction P = 0.05) genotypes, with combined ORs of 4.5 (CI = 1.4–14.6) and 2.6 (1.2–5.4), respectively (Table 3). The child variants for both of these genes were not associated with increased risk for autism, and child MTHFR 677 TT tended toward an inverse association. However, children with the COMT 472 AA genotype were at increased risk for autism if their mothers reported having taken periconceptional prenatal supplements (OR = 1.8 [CI = 0.99–3.5]), and were at substantially higher risk if their mothers did not (7.2 [2.3–22.4]; test for interaction P = 0.05) (Table 3). Interaction effects were not statistically significant for other gene variants, although risk for autism associated with most maternal gene variants tended to be higher than predicted by additive or multiplicative interaction models when mothers did not report taking prenatal vitamins during the periconceptional period (Table 3).

Maternal and Child Genotypes by Maternal Periconceptionial Prenatal Vitamin Intake and Risk for Autism

Results were similar when we expanded analyses to include families of an additional 141 children with autism spectrum disorder and in weighted analyses (eTables 2–4, The decreased risk associated with prenatal vitamins and the interaction effects with maternal MTHFR 677 and child COMT 472 were similar, although attenuated, when analyses were restricted to non-Hispanic white families (eTables 5,


In this population-based case-control study, reported maternal periconceptional prenatal vitamin intake was associated with reduced risk for autism. In addition, the combination of specific gene variants within one-carbon metabolism pathways and a report of no periconceptional prenatal vitamin intake was associated with significantly greater risk for autism in the child compared with either exposure alone.

Maternal Prenatal Vitamin Intake

We know of no previous studies that have linked the reported maternal intake of prenatal vitamins to a lower risk of autism. The apparent protective relationship was strong and robust to sensitivity analysis and adjustment for confounders. Moreover, findings did not differ when limited to women with planned pregnancies. Nonetheless, confounding from other unmeasured factors is possible.

No association was observed for reported multivitamin intake during the same period. We had lower power, however, to evaluate multivitamin intake during this period, as only 17%–18% of women reported taking them; these women did not differ sociodemographically from those who reported prenatal vitamins (eTable 1, In support of a causal interpretation, prenatal vitamins typically contain more iron, vitamins B6 and B12 and twice as much folic acid (800 μg) as multivitamins (400 μg), to ensure levels adequate to protect against neural tube defects. Our findings could therefore reflect the higher concentrations of certain nutrients in prenatal vitamins, which might be needed to substantially reduce risk.

Folate and other B vitamins are critical to neurodevelopment. Cohort studies have shown that mothers who took folic acid-containing supplements before/during the first trimester have children with fewer behavioral problems at 18 months of age,21 improved scores on verbal, verbal-executive function, social competence, and attention measures at 4 years,22 and reduced hyperactivity and peer problems at 8 years.23 Iron or B vitamins other than folic acid are also essential for neurodevelopment, and are present at higher levels in prenatal vitamins as compared with multivitamins. These too could have contributed to the observed associations in our data and other findings in relation to neurocognitive and behavioral deficits.

With about 90% of mothers reporting prenatal vitamin supplementation by the third month of pregnancy, the power to distinguish exposure differences later in pregnancy was limited. Still, the periconceptional period aligns with evidence placing origins of at least some autism cases around the time of embryonic neural tube closure,5 completed by 4 weeks postconception in humans. During the critical window beforehand, preimplantation mammalian embryos undergo extensive DNA demethylation, followed by reestablishment of methylation patterns after implantation.24 Folate and other dietary methyl donors (betaine, choline, vitamin B12, and methionine) are vital for methylation of DNA, proteins, phospholipids, and neurotransmitters (eFigure, Animal studies demonstrate that supplementing the periconceptional maternal diet with methyl donors alters epigenetic regulation of gene expression in their offspring in a manner that affects their long-term health.25 Moreover, a recent study provides direct evidence that maternal periconceptional folic acid increases methylation in specific gene regions of the child.26 Children with autism and their mothers have impaired methylation capacity compared with children who are typically developing and their mothers,10,11 and epigenetic mechanisms could contribute to the etiology of autism spectrum disorders.27 Periconceptional folic acid and other B vitamins may protect against neural tube defects,28 and possibly autism, through methylation mechanisms. Iron deficiency during critical periods of neurodevelopment can also lead to altered gene transcription and long-lasting changes in brain structure and function, with cognitive and behavioral consequences.29 Thus, the specific time period in which we observed a protective effect has plausible biologic links to autism.

Interaction Effects Between Genotypes and Periconceptional Prenatal Vitamin Intake

Our data suggest gene-by-environment interaction in autism etiology. All maternal gene variants that were associated with greater autism risk in the child in the absence of periconceptional prenatal vitamin supplementation are known to confer less efficient one-carbon metabolism and higher homocysteine levels. The MTHFR enzyme regulates folate availability and the MTHFR 677 TT genotype is associated with 60% reduced enzyme activity, inefficient folate metabolism, decreased blood folate, elevated plasma homocysteine levels, and reduced methylation capacity, particularly in individuals with low levels of B vitamins.30 With vitamin B6 as a cofactor, the CBS enzyme catalyzes a reaction that permanently removes homocysteine from the methionine pathway by diverting it to the transsulfuration pathway (eFigure, CBS gene mutations associated with decreased CBS activity also lead to elevated plasma homocysteine. FOLR2 helps transport folate (and folate derivatives) into cells and TCN2 facilitates transport of cobalamin (vitamin B12). MTRR and BHMT assist the folate/B12-dependent and choline/betaine-dependent conversions of homocysteine to methionine (eFigure, Maternal gene variants in folate-related pathways and maternal homocysteine levels correlate with fetal homocysteine.31 Supplemental folic acid and vitamin B12 can reduce homocysteine levels and eliminate differences in risk for neural tube defects otherwise observed across genotypes, including MTHFR 677 TT, CBS rs234715, and MTRR 66 GG.32–34 Thus, the increased risk for autism in children whose mothers had these genotypes and reported consuming no prenatal vitamins in periconception has mechanistic support.

The interaction effect between reported maternal periconceptional prenatal vitamin intake and child COMT 472 AA genotype suggests that the maternal-fetal environment could magnify effects of a child susceptibility gene involved in methylation. Sufficient levels of folate and other B vitamins are required for the methionine cycle to provide methyl groups for methylation reactions, including those of COMT (eFigure, High levels of homocysteine and S-adenosyl-L-homocysteine inhibit COMT activity and other methyltransferase reactions,35 and can be lowered by supplemental folic acid and vitamins B12 and B6. COMT degrades catecholamine neurotransmitters by catalyzing the transfer of a methyl group to them from S-adenosylmethionine. Though COMT's role in development is not well understood, animal experiments show that COMT activity initiates and peaks during early embryogenesis and the development of the sympathetic nervous system.36 Structural and functional brain differences have been described across COMT genotypes, particularly in the hippocampal and prefrontal cortex,37 brain regions that are implicated in autism pathology and where COMT plays a key role in dopamine degradation.38 Excess extracellular dopamine can be neurotoxic38 and can inhibit expression of brain-derived neurotrophic factor,39 which is essential for normal neuronal development and has been implicated in autism pathology.40 The common COMT 472G>A (val158met) gene variant alters the enzyme's thermostability and reduces its activity 3- to 4-fold.41 The low-activity genotype has been inconsistently associated with obsessive-compulsive disorder, and other psychiatric conditions.42 Our findings suggest that child COMT 472G>A confers genetic susceptibility to autism, especially in combination with certain nutrient environments.

Because COMT is located in a region that is susceptible to copy number variation and that has been associated with autism,43COMT 472G>A could be in linkage disequilibrium with other genetic variants that are responsible for the observed interaction effect. The fact that the other selected child gene variants were not associated with increased risk may imply a stronger role for maternal than child one-carbon metabolism. Findings recently reported by James and colleagues11 implicating genetic and metabolic alterations within the same pathways for mothers of autistic children, support this notion. The reason for the association with the child MTHFR 677 TT variant to be shifted in the opposite direction remains unclear; if not due to chance, any advantage to the child would likely occur through alternate mechanisms, as the reduced OR was independent of reported maternal vitamin intake.

Study Strengths and Limitations

Typical development and all autism diagnoses were clinically confirmed. Numerous known or suspected potential confounders were assessed. A large sample size allowed investigation of gene-by-environment interaction effects. Genotyping success rates were high, genotype frequencies did not deviate from HWE proportions, and tests provided evidence against population structure bias that can result from population stratification in case-control genetic studies.17

The retrospective reporting of vitamin and supplement information (whereby mothers were asked, after the child's developmental status was known, to recall a period several years before the interview) raises the issues of recall accuracy and bias. The percentage of mothers of typically developing children taking prenatal vitamins 3 months prior to pregnancy in our study (37%), resembled percentages reported for women of child-bearing age in the United States (33%).44 In addition, the differences we observed among racial groups and by maternal education levels were similar to those previously described,44 lending general support to the validity and accuracy of prenatal vitamin use reported by our study population. Although a slightly greater proportion of typically developing children were missing data on maternal periconceptional prenatal vitamin intake, sensitivity analyses demonstrated that our findings were robust.

A scenario in which recall bias explained part of the association between prenatal vitamins and autism would involve case mothers underreporting or control mothers overreporting their intake of prenatal vitamins during the months before pregnancy and the first month of pregnancy. The literature on recall bias indicates that mothers of control children are more likely to underreport exposures during pregnancy than mothers of cases, although these reports focus on exposures generally deemed harmful.45 Use of over-the-counter medications and multivitamins during pregnancy, including initiation and duration of use, are recalled equivalently and accurately for up to 5 years by mothers of case and control children.45,46 Notably, the association was similar (slightly stronger) for women recalling the information for a more recent versus less recent pregnancy. Although differential recall across case status cannot be ruled out, the interactions we observed with genotypes are difficult to attribute to recall bias, as this would imply that recall differences between cases and controls occurred primarily in those with high-risk genotypes.

Our study did not collect complete diet information for the pregnancy, precluding a full assessment of nutrient intake. Having this information might have provided valuable information for discriminating between specific nutrient effects, and it could have allowed control for possible confounding effects of diet.

We recognize that two gene-by-environment interaction results were based on cell sizes as small as 4. Our COMT result was especially surprising, given that the expected number of children with the AA genotype whose mothers reported taking no prenatal vitamins during the periconceptionial period was 12; similarly the expected number of children whose mothers reported taking no prenatal vitamins and had the MTHFR 677 TT genotype was 8.5. One explanation is that the combination of no supplementation with the high-risk genotypes could be relatively incompatible with typical development in the child, depending on other modifying factors.

In summary our data suggest that supplementation with prenatal vitamins before pregnancy and during the first month of pregnancy might protect against autism, particularly in genetically susceptible individuals. Additionally, COMT genotype may contribute to an elevated risk for autism, especially in offspring of unsupplemented mothers. This evidence for gene-by-environment interaction effects in autism etiology could help explain variations in previous findings across genetic studies. Whether similar interactions exist for susceptibility genes in other pathways, particularly those epigenetically regulated through methylation, remains to be explored. More research is warranted to replicate the findings, explicate potential mechanisms, and explore interactions with other autism candidate genes.


We acknowledge the investigators and staff of the Childhood Autism Risk from Genetics and Environment (CHARGE) Study for their valuable contributions. We also express our gratitude to the families participating in the CHARGE Study.


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