Dear Editor,
Major mood disorders, which primarily include bipolar disorder (BD) and major depressive disorder (MDD), are among the most common psychiatric disorders and are recognized as leading causes of morbidity worldwide. Family, twin and adoption studies have consistently indicated moderate-to-strong genetic contributions to the risk of major mood disorders.1 Genetic association and genome-wide association studies (GWAS) suggest that there is some degree of overlap for some specific disorders but also specific genetic diversity.2 DAOA (D-amino acid oxidase activator), a gene located on human chromosome 13q33.2, plays a crucial role in the central nervous system through binding with DAO (encoding D-amino acid oxidase). Convergent lines of biological evidence suggest that DAOA is an attractive candidate gene for major mood disorders.2,3 Multiple studies have been conducted to characterize the association of DAOA with major mood disorders in diverse populations, but inconsistent results have been reported.4 The inconsistent associations of SNPs in DAOA with major mood disorders may be explained by various study assertions, ethnic heterogeneity, and insufficient statistical power. Here, we collected all available genetic and phenotypic data from diverse samples (including GWASs and candidate gene studies) to perform a systematic meta-analysis of seven SNPs across the DAOA gene locus (65,087 subjects and 1022 nuclear families) and further investigate the functional consequence of risk SNP rs2391191 on cis-regulation of DAOA expression and binding affinity to transcription factor TCF4.
Genetic association studies of the DAOA gene with major mood disorders have primarily focused on the following seven single-nucleotide polymorphisms (SNPs): rs2391191, rs3918342, rs1421292, rs3916965, rs778294, rs947267, and rs1935062. The genomic information of the seven SNPs is summarized elsewhere (the online version of this article, which contains supplementary materials). In total, our meta-analysis included 27 independent samples consisting of 29,003 cases of mood disorder and 36,084 healthy subjects, as well as 1022 nuclear families. Meta-analysis using the fixed-effect model showed that rs2391191 (risk allele: A) was significantly associated with major mood disorders in both Caucasian (P = 4.32E-04, OR = 0.952, 95% CI = 0.926–0.978) and overall samples (P = 1.79E-04, OR = 0.957, 95% CI = 0.934–0.980), but not in Asian populations (P = 0.308, OR = 0.975, 95% CI = 0.928–1.024). Similar analyses were performed for rs3916965 (risk allele: A), rs3918342 (risk allele: T), rs1421292 (risk allele: A), rs778294 (risk allele: A), rs947267 (risk allele: C), and rs1935062 (risk allele: C). Our meta-analyses revealed no significant association between each of the six SNPs and BD, MDD or major mood disorders in any population (Caucasian, Asian or combined) (all P > 0.05). More detailed descriptions of meta-analytic results for each SNP can be found in the online version of this article, which contains supplementary materials.
As expected, the frequency of the risk allele (A) of rs2391191 differed dramatically between Caucasian and Asian populations. In detail, the A allele appeared to be the minor allele in Caucasian populations, but the major allele in Asian populations. More interestingly, rs2391191 was fixed for the ancestral allele (G allele) in some African populations. Furthermore, an obvious difference in A allele frequency of rs2391191 was observed between Caucasian and Asian populations (see the online version of this article, which contains supplementary materials). Collectively, the dramatic differences in allelic frequency strongly suggested that rs2391191 might have experienced recent positive selection in human populations, thus leading to differential association with major mood disorders in different populations.
Given that rs2391191 is located in a potential enhancer region, we conducted functional analysis of this SNP. Brief bioinformatics analysis using RegulomeDB (http://www.regulomedb.org/) revealed that this locus is located in a putative binding site of the common transcription factor TCF4 (Fig. 1a). The change from G to A at rs2391191 may influence the binding affinity of TCF4, resulting in different DAOA expression levels (Fig. 1b). To verify the functional consequences of rs2391191, we performed an electrophoretic mobility shift assay (EMSA) with nuclear protein extracts from 293T cells and labeled double-stranded oligo probes containing either the rs2391191 A allele or G allele. As shown in Fig. 1c, the predicted binding sequence containing the G allele had a higher binding affinity than that containing the A allele. In addition, the shifted band was significantly abolished by 100x or 200x excess unlabeled probes (Fig. 1c). These findings suggested that TCF4 might preferentially bind to the G allele rather than the A allele, consistent with the previous prediction.
To validate the effects of rs2391191 on DAOA gene expression in vivo, we checked BrainEAC, a well-characterized expression database based on ten distinct brain regions from 134 European individuals free of neurodegenerative disorders.5 Among the ten brain regions investigated, rs2391191 was significantly associated with DAOA expression (Affymetrix ID: t3524289) in both the substantia nigra (SNIG, P = 0.020) and temporal cortex (TCTX, P = 0.021), with the risk allele A having lower expression (Fig. 1d), suggesting tissue-specific regulation of rs2391191 on DAOA expression. Taken together, our data support a cis-regulatory effect on DAOA expression by which disease-associated SNPs underpin the pathogenesis of major mood disorders. However, further studies are necessary to investigate whether the expression levels of DAOA are changed in subjects with major mood disorders compared with the levels in healthy subjects.
In summary, we found a promising SNP, rs2391191, showing significant association with major mood disorders in Caucasian populations, but not in Asian populations. The ORs for rs2391191 in Caucasian populations (for BD: 0.966; for MDD: 0.949; for major mood disorders: 0.952) are comparable with those of other risk genes for major mood disorders reported in previous large-scale meta-analyses.6 Moreover, the functional assay demonstrated that rs2391191 can influence transcription factor TCF4-binding affinity and predict DAOA expression in the substantia nigra and temporal cortex. Our findings confirmed that DAOA is a risk gene for major mood disorders and might provide a better understanding of the potential biological mechanism underlying major mood disorders.
There are, however, limitations to the interpretation of our results. First, the sample size is still insufficient to reach a more definitive conclusion, and we are not able to include some recent samples from the GWAS data, because the statistical results are not available yet.7,8 Second, our study only focused on seven SNPs in/near the DAOA gene, and further studies should focus on other DAOA SNPs, even rare variants, to evaluate the association between DAOA variation and major mood disorders. Third, stratified analysis based on gender, disease onset age, comorbidity, impairment in brain morphology, and subtypes of disease could not be performed in this study due to insufficient information. Finally, DAOA may exert its function by interacting with other genetic risk components, which calls for conjoint analysis with other candidate genes.
References
Merikangas, K. et al. Lifetime and 12-month prevalence of bipolar spectrum disorder in the national comorbidity survey replication. Arch. Gen. Psychiatry 64, 543–552 (2007).
Gatt, J. M., Burton, K. L. O., Williams, L. M. & Schofield, P. R. Specific and common genes implicated across major mental disorders: A review of meta-analysis studies. J. Psychiatr. Res. 60, 1–13 (2015).
Jagannath, V., Gerstenberg, M., Correll, C. U., Walitza, S. & Grnblatt, E. A systematic meta-analysis of the association of Neuregulin 1 (NRG1), d-amino acid oxidase (DAO), and DAO activator (DAOA)/G72 polymorphisms with schizophrenia. J. Neural Transm. 125, 1–14 (2018).
Sklar, P., Ripke, S. & Scott, L. J. Large-scale genome-wide association analysis of bipolar disorder identifies a new susceptibility locus near ODZ4. Nat. Genet. 43, 977–983 (2011).
Ramasamy, A. et al. Genetic variability in the regulation of gene expression in ten regions of the human brain. Nat. Neurosci. 17, 1418–1428 (2014).
Chang, H. et al. The protocadherin 17 gene affects cognition, personality, amygdala structure and function, synapse development and risk of major mood disorders. Mol. Psychiatry, https://doi.org/10.1038/mp.2016.231 (2017).
Bipolar, D., Schizophrenia Working Group of the Psychiatric Genomics Consortium. Electronic address, d. r. v. e. & Bipolar, D., Schizophrenia Working Group of the Psychiatric Genomics, C. Genomic dissection of bipolar disorder and schizophrenia, including 28 subphenotypes. Cell 173, 1705–1715 e1716 (2018).
Wray, N. R. et al. Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression. Nat. Genet. 50, 668–681 (2018).
Acknowledgements
We thank members of the Psychiatric Genomics Consortium and CONVERGE, who shared the GWAS data. We thank Erin L. Heinzen (Institute for Genomic Medicine & Department of Pathology and Cell Biology, Columbia University, New York, USA) and Andre Franke (Institute for Clinical Molecular Biology, Christian-Albrechts-University Kiel, Kiel, Germany) for their assistance in eQTL analysis. This work was supported by the Application and Basic Research Program from the Science and Technology Department of Sichuan Province, China (No. 2016JY0113), the Key R&D Projects of Sichuan Province, China (No. 2018SZ0061) and the Fundamental Research Funds for the Central Universities of China (No. 2682016CX099 and No. 2682018CX38).
Author information
Authors and Affiliations
Corresponding authors
Ethics declarations
Competing interests
The authors declare no competing interests.
Supplementary information
Rights and permissions
Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.
About this article
Cite this article
Yang, Z., Zhang, S., Zhang, F. et al. Allelic frequency differences of DAOA variants between Caucasians and Asians and their association with major mood disorders. Sig Transduct Target Ther 4, 39 (2019). https://doi.org/10.1038/s41392-019-0066-5
Received:
Revised:
Accepted:
Published:
DOI: https://doi.org/10.1038/s41392-019-0066-5
This article is cited by
-
Neuroimaging Genomics a Predictor of Major Depressive Disorder (MDD)
Molecular Neurobiology (2024)