# Association of theNOTCH4 Gene Polymorphism rs204993 with Schizophrenia in the Chinese Han Population

Authors: Bao Zhang; Qian Rui Fan; Wen Hao Li; Ning Lu; Dong Ke Fu; Yan Jie Kang; Na Wang; Teng Li; Xiao Peng Wen; Da Xu Li
Journal: BioMed Research International
 (2015)

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## Abstract

NOTCH4 regulates signaling pathways associated with neuronal maturation, a process involved in the development and patterning of the central nervous system. TheNOTCH4 gene has also been identified as a possible susceptibility gene for schizophrenia (SCZ). The objective of this study was to examine the relationship between NOTCH4polymorphisms and SCZ in the Chinese Han population. The rs2071287 and rs204993 polymorphisms of the NOTCH4 gene were analyzed in 443 patients with SCZ and 628 controls of Han Chinese descent. Single SNP allele-, genotype-, and gender-specific associations were analyzed using different models (i.e., additive, dominant, and recessive models). This association study revealed that the rs204993 polymorphism is significantly associated with susceptibility for SCZ and that the AA genotype of rs204993 is associated with a higher risk for SCZ (P=0.027; OR = 1.460; 95% CI, 1.043–2.054). Our data are consistent with those obtained in previous studies that suggested that rs204993 is associated with SCZ and that the AA genotype of rs204993 demonstrates a higher risk. Further large-scale association analyses in Han Chinese populations are warranted.


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## Body

## 1. Introduction

Schizophrenia (SCZ) is a chronic, severe psychotic mental disorder characterized by both positive (e.g., delusions, hallucinations, and thought disorders) and negative symptoms (e.g., social withdrawal, apathy, and cognitive impairment) [1]. As a serious neurological disability, SCZ affects approximately 1% of the general population worldwide and is regarded as a major public health problem, ranking ninth in terms of global disease burden [2]. Based on evidence from family-based, twin and adoption studies, which have implicated numerous genes in the etiology of SCZ, the disorder is currently understood as a polygenic neurodevelopment disorder caused by the interplay between environmental factors and genetics [3]. Although genome-wide association studies (GWAS) and candidate gene approaches to SCZ have produced many positive results [4, 5], only a small proportion of the genes have been consistently studied across multiple different populations. Therefore, the exploration of the true etiology and genetic mechanisms underlying the associations between genes and SCZ in various genetically independent populations is necessary.TheNOTCH4 (neurogenic locus notch homolog protein 4) gene, located at the centromeric end of the HLA class III region, has been implicated in SCZ based on evidence from several genetic studies [6]. Some evidence has suggested thatNOTCH4polymorphisms, including microsatellite and SNPs (e.g., rs3132935, rs3131296, and rs3809842), have been described [7–10]. More recently, a GWAS study identified rs2071287 of theNOTCH4 gene as the most statistically significant marker, which was confirmed through a follow-up analysis in a Japanese population [11]. Furthermore, rs2071287 and rs3131296, which display very strong LD with each other, were identified as the SNPs that are most likely to be functionally relevant to SCZ etiology, suggesting that it is necessary to determine the association of rs2071287 with SCZ [12, 13]. Another SNP, rs204993, was found to be significantly associated with SCZ through a family-based association study of 218 Taiwan nuclear families [14]. To date, few studies have investigated the association ofNOTCH4 with SCZ in the Chinese population, particularly regarding the SNPs rs2071287 and rs204993. Moreover, a genetic model describing the importance of theNOTCH4gene in SCZ has not yet been elucidated.Therefore, we performed a case-control study to examine the possibility ofNOTCH4polymorphisms being associated with SCZ in the Chinese Han population and to determine the inheritance models for the association study.


## 2. Materials and Methods

### 2.1. Subjects

The case-control samples included 443 SCZ cases (224 females and 219 males, mean age:36.1±10.2 years) and 628 healthy controls (358 females and 270 males, mean age: 35.7±9.7 years). The subjects were all original northern Han Chinese recruited from The First Affiliated Hospital of Xi’an Jiaotong University. The available information (i.e., personal history, hospital record, and family-history report) was analyzed based on The Fourth Edition of the Diagnostic and Statistical Manual of Mental Disorders (DSM-IV) to obtain a consensus diagnosis agreed on by at least two experienced senior psychiatrists. After undergoing physical examinations, subjects with substance-induced psychotic disorders, learning disabilities, head injuries, and other symptomatic psychoses were excluded from the present study. Moreover, the controls were confirmed to not have any mental illness and were matched with the patients in age, sex, and educational level. Informed consent was obtained from all of the participants. The study was approved by the Xi’an Jiaotong University School of Medicine and The First Affiliated Hospital of Xi’an Jiaotong University.


### 2.2. SNP Genotyping

Two SNPs, rs2071287 and rs204993, showed significant associations with SCZ in previous manuscripts [11, 14]. They were located in the intron and 3′ untranslated region of theNOTCH4 gene and detected in the present study. Genomic DNA was extracted from the peripheral blood leukocytes of all of the subjects based on the manufacturer’s recommendations (Omega, Bio-tek, GA, USA). All of the SNPs were genotyped by the SNPscan technique (Genesky Biotechnologies Inc., Shanghai, China) according to a previous study [15]. Five percent of the samples with high DNA quality were randomly repeated to guarantee the genotyping quality. The average genotype call rate for all of the markers was 96.5%.


### 2.3. Statistical Analysis

TheG∗Power program was used to calculate the statistical power of our sample size according to Cohen’s method [16]. The sample size exhibited >80% power for the detection of significant (P<0.05) associations at an effect size index of 0.1 (corresponding to a “weak” gene effect).Hardy-Weinberg equilibrium (HWE) was detected for the SNP genotypes by the Chi-square test, which was also used to calculate the differences in the genotype and allele frequencies between the cases and controls. We performed logistic regression analyses to identify SCZ-associated SNPs by their odds ratios (OR), 95% confidence intervals (CIs), and correspondingP values. Furthermore, single SNP analyses were performed using multiple inheritance models, namely, additive, dominant, and recessive models, similarly to an earlier study [15]. Moreover, stratified analyses were conducted to detect whether differences in gender and genetics influenced such associations. All of the statistical analyses were conducted using PLINK (version 1.07). Differences were considered significant when the P value was 0.05.


## 2.1. Subjects

The case-control samples included 443 SCZ cases (224 females and 219 males, mean age:36.1±10.2 years) and 628 healthy controls (358 females and 270 males, mean age: 35.7±9.7 years). The subjects were all original northern Han Chinese recruited from The First Affiliated Hospital of Xi’an Jiaotong University. The available information (i.e., personal history, hospital record, and family-history report) was analyzed based on The Fourth Edition of the Diagnostic and Statistical Manual of Mental Disorders (DSM-IV) to obtain a consensus diagnosis agreed on by at least two experienced senior psychiatrists. After undergoing physical examinations, subjects with substance-induced psychotic disorders, learning disabilities, head injuries, and other symptomatic psychoses were excluded from the present study. Moreover, the controls were confirmed to not have any mental illness and were matched with the patients in age, sex, and educational level. Informed consent was obtained from all of the participants. The study was approved by the Xi’an Jiaotong University School of Medicine and The First Affiliated Hospital of Xi’an Jiaotong University.


## 2.2. SNP Genotyping

Two SNPs, rs2071287 and rs204993, showed significant associations with SCZ in previous manuscripts [11, 14]. They were located in the intron and 3′ untranslated region of theNOTCH4 gene and detected in the present study. Genomic DNA was extracted from the peripheral blood leukocytes of all of the subjects based on the manufacturer’s recommendations (Omega, Bio-tek, GA, USA). All of the SNPs were genotyped by the SNPscan technique (Genesky Biotechnologies Inc., Shanghai, China) according to a previous study [15]. Five percent of the samples with high DNA quality were randomly repeated to guarantee the genotyping quality. The average genotype call rate for all of the markers was 96.5%.


## 2.3. Statistical Analysis

TheG∗Power program was used to calculate the statistical power of our sample size according to Cohen’s method [16]. The sample size exhibited >80% power for the detection of significant (P<0.05) associations at an effect size index of 0.1 (corresponding to a “weak” gene effect).Hardy-Weinberg equilibrium (HWE) was detected for the SNP genotypes by the Chi-square test, which was also used to calculate the differences in the genotype and allele frequencies between the cases and controls. We performed logistic regression analyses to identify SCZ-associated SNPs by their odds ratios (OR), 95% confidence intervals (CIs), and correspondingP values. Furthermore, single SNP analyses were performed using multiple inheritance models, namely, additive, dominant, and recessive models, similarly to an earlier study [15]. Moreover, stratified analyses were conducted to detect whether differences in gender and genetics influenced such associations. All of the statistical analyses were conducted using PLINK (version 1.07). Differences were considered significant when the P value was 0.05.


## 3. Results

For the study, 443 eligible individuals with schizophrenia and 628 healthy controls were enrolled. Two SNPs (rs2071287 and rs204993) in theNOCTH4 gene were genotyped and analysed.


### 3.1. Hardy-Weinberg Equilibria of Two Variants

None of the rs2071287 or rs204993 SNPs showed deviation from Hardy-Weinberg equilibria in the control population (P=0.18, and P=0.79, resp.).


### 3.2. Association with the Two Variants

The allele and genotype frequencies of the two SNPs (rs2071287 and rs204993) are shown in Table1. The estimated risks associated with these polymorphisms in the SCZ patients and the healthy controls were tested according to three models (i.e., dominant, recessive, and addictive models), also illustrated in Table 1. Considering all the subjects, the allele frequencies of rs2071287 and rs204993 for the patients with SCZ were not significantly different from those of the control group. However, notably, genotype association analysis for rs204993 suggested a significant association with SCZ under a recessive model, and the AA genotype of rs204993 was associated with a higher risk of SCZ (P=0.027; OR = 1.460; 95% CI, 1.043–2.054).Table 1
Analysis of the allele and genotype frequencies of a single SNP association.
Makers
Allele freq. (%)
P valuea
OR(95% CI)
Genotype(N)
HWEP value
Model
OR(95% CI)
P valuea
Rs204993
G
A
GG
AG
AA
SCZ
41.3
58.7
0.223
1.115   (0.936–1.329)
78
210
155
0.182
Add
1.121 (0.937–1.342)
0.213
CTR
38.7
61.3
80
326
222
Dom
1.016 (0.788–1.311)
0.903
Rec
1.464 (1.043–2.054)
0.027
Rs2071287
A
G
AA
AG
GG
SCZ
38.0
62.0
0.530
1.059  (0.886–1.264)
68
201
174
0.794
Add
1.058 (0.887–1.263)
0.532
CTR
36.7
63.3
83
295
250
Dom
1.022 (0.797–1.311)
0.861
Rec
1.191 (0.842–1.682)
0.324
SCZ: schizophrenia; CTR: control; CI: confidence interval; OR: odds ratio.
SignificantP values and HWE P values are shown in italic bold font.
a
P values of the normal Chi-square statistics.
Add: addictive model; Dom: dominant model; Rec: recessive model.


### 3.3. Association with the Two Variants of the Gender-Specific Analyses

To examine whether gender would play a role in the association, we analyzed our data by separating males and females on the basis of results above (Table2). Furthermore, we found that rs204993 showed marginally significant genotypic (P=0.084; OR = 1.561; 95% CI, 0.939–2.596) associations with SCZ in males, but not in females.Table 2
Analysis of sex-specific allele and genotype associations.
Markers  and sex
Allele freq.  (%)
P valuea
OR (95% CI)
Genotype (N)
Model
OR (95% CI)
P valuea
rs204993
G
A
GG
AG
AA
F
SCZ
41.1
58.9
0.366
1.118(0.878–1.422)
40
104
80
Add
1.120 (0.878–1.429)
0.362
CTR
38.4
61.6
48
179
131
Dom
1.039 (0.734–1.471)
0.830
Rec
3.242 (0.589–17.85)
0.145
M
SCZ
41.6
89.7
0.432
1.109(0.857–1.433)
38
106
75
Add
1.118 (0.856–1.461)
0.414
CTR
39.1
89.6
32
147
91
Dom
0.976 (0.670–1.422)
0.899
Rec
1.561 (0.939–2.596)
0.084
rs2071287
T
C
TT
TC
CC
F
SCZ
39.3
60.7
0.098
1.229(0.962–1.569)
36
104
84
Add
1.222 (0.960–1.555)
0.104
CTR
34.5
65.5
45
157
156
Dom
1.287 (0.915–1.812)
0.148
Rec
1.332 (0.829–2.14)
0.236
M
SCZ
36.8
63.2
0.358
1.885(0.683–1.148)
32
97
90
Add
0.884 (0.680–1.148)
0.355
CTR
39.6
60.4
44
138
94
Dom
0.766 (0.530–1.106)
0.154
Rec
1.045 (0.629–1.737)
0.866
SCZ: schizophrenia; CTR: control; CI: confidence interval; OR: odds ratio.
a
P values of the normal Chi-square statistics.
Add: addictive model; Dom: dominant model; Rec: recessive model.


## 3.1. Hardy-Weinberg Equilibria of Two Variants

None of the rs2071287 or rs204993 SNPs showed deviation from Hardy-Weinberg equilibria in the control population (P=0.18, and P=0.79, resp.).


## 3.2. Association with the Two Variants

The allele and genotype frequencies of the two SNPs (rs2071287 and rs204993) are shown in Table1. The estimated risks associated with these polymorphisms in the SCZ patients and the healthy controls were tested according to three models (i.e., dominant, recessive, and addictive models), also illustrated in Table 1. Considering all the subjects, the allele frequencies of rs2071287 and rs204993 for the patients with SCZ were not significantly different from those of the control group. However, notably, genotype association analysis for rs204993 suggested a significant association with SCZ under a recessive model, and the AA genotype of rs204993 was associated with a higher risk of SCZ (P=0.027; OR = 1.460; 95% CI, 1.043–2.054).Table 1
Analysis of the allele and genotype frequencies of a single SNP association.
Makers
Allele freq. (%)
P valuea
OR(95% CI)
Genotype(N)
HWEP value
Model
OR(95% CI)
P valuea
Rs204993
G
A
GG
AG
AA
SCZ
41.3
58.7
0.223
1.115   (0.936–1.329)
78
210
155
0.182
Add
1.121 (0.937–1.342)
0.213
CTR
38.7
61.3
80
326
222
Dom
1.016 (0.788–1.311)
0.903
Rec
1.464 (1.043–2.054)
0.027
Rs2071287
A
G
AA
AG
GG
SCZ
38.0
62.0
0.530
1.059  (0.886–1.264)
68
201
174
0.794
Add
1.058 (0.887–1.263)
0.532
CTR
36.7
63.3
83
295
250
Dom
1.022 (0.797–1.311)
0.861
Rec
1.191 (0.842–1.682)
0.324
SCZ: schizophrenia; CTR: control; CI: confidence interval; OR: odds ratio.
SignificantP values and HWE P values are shown in italic bold font.
a
P values of the normal Chi-square statistics.
Add: addictive model; Dom: dominant model; Rec: recessive model.


## 3.3. Association with the Two Variants of the Gender-Specific Analyses

To examine whether gender would play a role in the association, we analyzed our data by separating males and females on the basis of results above (Table2). Furthermore, we found that rs204993 showed marginally significant genotypic (P=0.084; OR = 1.561; 95% CI, 0.939–2.596) associations with SCZ in males, but not in females.Table 2
Analysis of sex-specific allele and genotype associations.
Markers  and sex
Allele freq.  (%)
P valuea
OR (95% CI)
Genotype (N)
Model
OR (95% CI)
P valuea
rs204993
G
A
GG
AG
AA
F
SCZ
41.1
58.9
0.366
1.118(0.878–1.422)
40
104
80
Add
1.120 (0.878–1.429)
0.362
CTR
38.4
61.6
48
179
131
Dom
1.039 (0.734–1.471)
0.830
Rec
3.242 (0.589–17.85)
0.145
M
SCZ
41.6
89.7
0.432
1.109(0.857–1.433)
38
106
75
Add
1.118 (0.856–1.461)
0.414
CTR
39.1
89.6
32
147
91
Dom
0.976 (0.670–1.422)
0.899
Rec
1.561 (0.939–2.596)
0.084
rs2071287
T
C
TT
TC
CC
F
SCZ
39.3
60.7
0.098
1.229(0.962–1.569)
36
104
84
Add
1.222 (0.960–1.555)
0.104
CTR
34.5
65.5
45
157
156
Dom
1.287 (0.915–1.812)
0.148
Rec
1.332 (0.829–2.14)
0.236
M
SCZ
36.8
63.2
0.358
1.885(0.683–1.148)
32
97
90
Add
0.884 (0.680–1.148)
0.355
CTR
39.6
60.4
44
138
94
Dom
0.766 (0.530–1.106)
0.154
Rec
1.045 (0.629–1.737)
0.866
SCZ: schizophrenia; CTR: control; CI: confidence interval; OR: odds ratio.
a
P values of the normal Chi-square statistics.
Add: addictive model; Dom: dominant model; Rec: recessive model.


## 4. Discussion

TheNOTCH4 gene located on 6p21.3 encodes a member of the NOTCH family, the members of which play a pivotal role in deciding cell fate, particularly during the neurodevelopmental process to promote proliferative signaling [14, 17–19]. In particular, NOTCH4 regulates the signaling of the maturation of neurons and glia from neural stem cells [13, 20, 21]. As an important neurodevelopment-related gene, transcripts ofNOTCH4 can be detected in the developing nervous system [22], which makesNOTCH4 a potential candidate gene for neurodevelopment disorders, such as SCZ [23]. Previous studies identifiedNOTCH4 polymorphisms implicated in the risk of SCZ. In this study, two SNPs of theNOTCH4 gene were detected to confirm their association with SCZ in the Han Chinese population. We found that the allele and genotype distributions of rs2071287 demonstrated insignificant associations. Notably, the genotype distribution of the rs204993 polymorphism demonstrated a significant association with SCZ under a recessive model (P=0.027).However, a previous GWAS study, as well as a follow-up analysis, revealed that rs2071287 was associated with SCZ in the Japanese population [11, 24]. In contrast, our results are consistent with other studies that reported an insignificant association between the rs2071287 polymorphism and SCZ [25, 26]. The rs2071287 frequency of the “A” allele differs considerably (0.31 for Japanese, 0.36 for Bulgarian, and 0.38 for Chinese Han), which suggests that subjects from different ethnic backgrounds may exhibit SCZ-related genetic heterogeneity. Hence, our findings suggest that this SNP may represent a risk for SCZ under certain ethnic backgrounds rather than universally.A family-based association study preliminarily showed an association between rs204993 and SCZ. Consistent with this finding, the present case-control study suggested thatNOTCH4 rs204993 is significantly associated with SCZ. The rs204993 polymorphism of theNOTCH4 gene is located in the 3′UTR region. And rs204993 “A” allele is the major allele in the study population, suggesting this polymorphism may be in LD with another potentially functional SNP that affects NOTCH4 expression. Furthermore, rs204993 has also been mapped to the adjacent gene PBX2, which is also located within the SCZ-related region in the major histocompatibility complex (MHC) [27].Based on the available findings, because family-based and case-control association studies have demonstrated significant associations between rs204993 and SCZ, we can only predict that rs204993 associates with SCZ as it is in LD with another functional SNP which may have an effect on gene expression. We hypothesize that further functional exploration (such asin vitro andin vivoexperimentation) of this polymorphism could lead to an important understanding of the genetic pathophysiology of schizophrenia.This study has several limitations that need to be addressed. First, the relatively small sample size of our experimental study limits the interpretation of the results for the Chinese Han population. However, the observation of a statistically significant association is encouraging. Furthermore, this study was performed at a single center, which may potentially limit the generalizability of the findings. Moreover, other SNPs in the candidate region/gene in addition to the reported risk-related SNP may account for the association with schizophrenia detected in different populations. Despite these limitations, our current study provides useful data for a future meta-analysis of these psychosis markers.In summary, our data support an association betweenNOTCH4 and SCZ. However, further studies using larger numbers of samples of different ethnic groups should be performed to determine the validity of such relationships.



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*Source: 408096-2015-10-28.xml*