Analysis of apolipoprotein E genetic polymorphism in a large ethnic Hakka population in southern China

Abstract

There is currently no data about the genetic variations of APOE in Hakka population in China. The aim of this study was to analyze the allelic and genotypic frequencies of APOE gene polymorphisms in a large ethnic Hakka population in southern China. The APOE genes of 6,907 subjects were genotyped by the gene chip platform. The allele and genotype frequencies were analyzed. Results showed that the ∊3 allele had the greatest frequency (0.804) followed by ∊2 (0.102), and ∊4 (0.094), while genotype ∊3/∊3 accounted for 65.43% followed by ∊2/∊3 (15.85%), ∊3/∊4 (14.13%), ∊2/∊4 (3.01%), ∊4/∊4 (0.84%), and ∊2/∊2 (0.74%) in all subjects. The frequencies of the ∊4 allele in Chinese populations were lower than Mongolian and Javanese, while the frequencies of the ∊2 allele were higher and ∊4 allele lower than Japanese, Koreans, and Iranian compared with the geographically neighboring countries. The frequencies of ∊2 and ∊4 alleles in Hakka population were similar to the Vietnamese, Chinese-Shanghai, Chinese-Kunming Han and Chinese-Northeast, and French. The frequency of ∊2 in Hakka population was higher than Chinese-Dehong Dai and Chinese-Jinangsu Han. The low frequency of the APOE ∊4 allele may suggest a low genetic risk of Hakka population for cardiovascular disease, Alzheimer’s disease, and other diseases.

Keywords:
Apolipoprotein E; genetic polymorphism; Hakka; southern China; genotyping

Introduction

Apolipoprotein E (ApoE) is a multifunctional protein that plays an important role in lipoprotein metabolism, and is involved in the metabolism of very low density lipoproteins (VLDL) and chylomicrons (Blum, 2016). There are three major isoforms of human ApoE including E2 (OMIM 107741.0001), E3 (OMIM 107741.0015), and E4 (OMIM 107741.0016), as identified by isoelectric focusing. The gene coding for ApoE is APOE (OMIM 107741), which is located on chromosome 19 in band 19q13.32 (Mahley, 1988; Siest et al., 1995). The polymorphisms in the fourth exon of APOE gene determine three common alleles (∊2, ∊3 and ∊4) coding for three major isoforms of ApoE (Martin et al., 2000; Kantarci et al., 2004; Kumar et al., 2017).

The E2, E3, and E4 isoforms differ in amino acid sequence at two sites, residue 112 (called site A) and residue 158 (called site B). At sites A/B, ApoE2, ApoE3, and ApoE4 contain cysteine/cysteine, cysteine/arginine, and arginine/arginine, respectively, which are encoded by ∊2, ∊3, and ∊4, respectively (Weisgraber et al., 1981; Rall Jr et al., 1982a). By different combinations of these three alleles, six genotypes (∊2/∊2, ∊2/∊3, ∊2/∊4, ∊3/∊3, ∊3/∊4, and ∊4/∊4) are formed (Svobodová et al., 2007b; Yousuf et al., 2015). Some studies pointed out that the ∊3 allele is the most frequent in all human groups, while APOE ∊3/∊3 is the most common genotype in most population (Corbo and Scacchi, 1999; Al-Dabbagh et al., 2009; Achourirassas et al., 2016; Jairani et al., 2016; Monge-Argilés et al., 2016; Tanyanyiwa et al., 2016).

Meizhou is a city covering the northeast of Guangdong Province, which connects to Fujian, Guangdong, and Jiangxi provinces, with an area of 15,876 km² and a population of 5.44 million. The vast majority of the residents living in this area are Hakka. Hakka is an intriguing Han Chinese population that mainly inhabits southern China and that migrated south originally from the Reaches of Yellow River (Li, 1997). There is currently no data about the genetic variations of APOE gene in the Hakka population.

Material and Methods

Subjects

For this study, 6,907 Chinese Hakka subjects were included through February 2016 to August 2017. Subjects visited Meizhou People’s Hospital (Huangtang Hospital), Meizhou Hospital Affiliated to Sun Yat-sen University located in Guangdong province in China. The present study was performed in accordance with the ethical standards laid down in the updated version of the 1964 Declaration of Helsinki and approved by Human Ethics Committees of Meizhou People’s Hospital. All the patients had signed the informed consent.

DNA extraction

Blood samples were stored in 2-mL vacuum tubes containing ethylenediaminetetraacetic acid (EDTA) from each participant. Genomic DNA was extracted from the samples using QIAamp DNA Blood Mini Kit (Qiagen, Germany) according to the manufacturer’s instructions. DNA concentration and purity were quantified using Nanodrop 2000^TM Spectrophotometer (ThermoFisher Scientific, Waltham, MA), and only good quality DNA (A260/280 ratio > 1.7) was stored at -80 °C up to the day of analysis.

Polymerase chain reaction and genotyping

The single nucleotide polymorphisms of APOE gene rs429358 and rs7412 were genotyped using a commercially available kit (Sinochips Bioscience Co., Ltd, Zhuhai, Guangdong, China). PCR assays was performed according to the following protocol: 50 °C for 2 min, pre-denaturation at 95 °C for 15 min, followed by 45 cycles at 94 °C for 30 s and 65 °C for 45 s. The amplified products were revealed using an APOE Gene typing Detection kit (gene chip assay) (Sinochips Bioscience Co., Ltd, Zhuhai, China).

Statistical analysis

Frequencies of the ∊2, ∊3 and ∊4 alleles were calculated by gene counting, e.g., the frequency of ∊2=(2* APOE ∊2/∊2 + APOE ∊2/∊3 + APOE ∊2/∊4)/ total number of alleles.

SPSS statistical software version 19.0 was used for data analysis. The data are reported as the means ± SD. Chi-square and Fisher’s exact tests were used to compare the allele and genotype frequencies. Descriptive analysis was used to compare allele frequencies between the Hakka population and published data of other ethnic groups. A value of p < 0.05 was considered as statistically significant.

Results

A total of 6,907 subjects, 4,366 (63.21%) men and 2,541 (36.79%) women, were recruited in the study. The sample age ranged from 1 to 101 (64.06 ± 14.68) years, with means of 63.48 ± 14.62 in men and 65.06 ± 14.74 in women. Most of them came from southern China including seven areas of Meizhou city, Guangdong Province and some regions of Jiangxi Province, all of them are Hakka. The geographical position of Meizhou city is shown in Figure 1.

Figure 1
Geographical position of Meizhou in Guangdong Province of China.

In this study, the genotype ∊3/∊3 accounted for 65.43% followed by ∊2/∊3 (15.85%), ∊3/∊4 (14.13%), ∊2/∊4 (3.01%), ∊4/∊4 (0.84%), and ∊2/∊2 (0.74%) in all subjects; ∊3 had the greatest allele frequency (80.42%) followed by ∊2 (10.17%) and ∊4 (9.41%). The results as showed in Table 1.

Table 1
Allele and genotype frequencies of APOE in 6907 participants in Hakka population.

APOE	Male (n=4366)			Female (n=2541)			Combined (n=6907)
	n	Frequency	%	n	Frequency	%	n	Frequency	%
Allele
∊2	899	0.103		506	0.100		1405	0.102
∊3	7016	0.803		4093	0.805		11109	0.804
∊4	817	0.094		483	0.095		1300	0.094
Genotype
∊2/∊2	29		0.66	22		0.87	51		0.74
∊2/∊3	710		16.26	385		15.15	1095		15.85
∊2/∊4	131		3.00	77		3.03	208		3.01
∊3/∊3	2851		65.30	1668		65.64	4519		65.43
∊3/∊4	604		13.83	372		14.64	976		14.13
∊4/∊4	41		0.94	17		0.67	58		0.84

Discussion

ApoE is one of the important apolipoproteins in plasma, which is mainly synthesized, secreted, and metabolized in the liver (Schneider et al., 1981; Rall Jr et al., 1982b). It is involved in the transport, storage, and metabolism of lipids, and has the effects of repairing tissues, inhibiting platelet aggregation, and regulating immunity (van den Elzen et al., 2005). Studies have found that APOE gene polymorphisms are closely associated with coronary heart disease, hyperlipidemia, cerebral infarction, Alzheimer’s disease, multiple sclerosis, chronic hepatitis, and other diseases (Ghiselli et al., 1981; Corder et al., 1993; Faivre et al., 2005; Price et al., 2006; Rovin et al., 2007; Kathiresan et al., 2008). ApoE4 is associated with decreased longevity, increased plasma total and LDL cholesterol, and increased prevalence of cardiovascular disease and Alzheimer’s disease. Different populations have different frequencies of genetic polymorphisms of APOE (Gerdes et al., 1996).

In most populations, ∊3/∊3 is the commonest genotype while ∊3 is the commonest allele. In this study, genotype ∊3/∊3 accounted for 65.43% followed by ∊2/∊3 (15.85%), ∊3/∊4 (14.13%), ∊2/∊4 (3.01%), ∊4/∊4 (0.84%), and ∊2/∊2 (0.74%) in all subjects. ∊3 allele had the greatest allele frequency (80.42%) followed by ∊2 (10.17%) and ∊4 (9.41%). This was consistent with previous research on other populations.

We compared the allele frequencies estimated here for APOE ∊2, ∊3, and ∊4 allele with respect to previously published reports in other ethnic populations (Table 2). Comparison of our results with the geographically neighboring countries showed that the frequencies of ∊4 allele in Chinese populations were lower than in Javanese (Svobodova et al., 2007a,b) populations, while the frequencies of the ∊2 allele were higher and of the ∊4 allele lower than in Japanese (Hallman et al., 1991; Gerdes et al., 1992) and Koreans (Hong et al., 1997). In addition, the analysis showed that the frequencies of ∊2 and ∊4 allele in Hakka population were similar to the Vietnamese (Nghiem et al., 2004), Chinese-Shanghai (Yang et al., 2003), Chinese-Kunming Han (Tang et al., 2005), Chinese-Northeast (Zhou et al., 2005), and French (Boerwinkle et al., 1986; Gueguen et al., 1989; Bailleul et al., 1993).

Table 2
Distribution of APOE (∊2, ∊3, ∊4) allele frequencies among major study populations.

Populations	Total Number	Alleles frequency of APOE			References
		∊2	∊3	∊4
Asians
Chinese
Chinese-Hakka	6907	0.102	0.804	0.094	This work
Chinese-Shanghai	266	0.098	0.786	0.116	Yang et al., 2003
Chinese-Dehong Dai	171	0.064	0.889	0.047	Tang et al., 2005
Chinese- Jinangsu Han	168	0.071	0.863	0.066	Liang et al., 2009
Chinese-Kunming Han	71	0.092	0.852	0.056	Tang et al., 2005
Chinese-Northeast	69	0.096	0.824	0.081	Zhou et al., 2005
Indian	4450	0.039	0.887	0.073	Thelma et al., 2001
Japanese	1097	0.048	0.851	0.101	Hallmann et al., 1991; Gerdes et al., 1992
Mongolian	744	0.037	0.808	0.155	Svobodová et al., 2007a
Vietnamese	348	0.090	0.790	0.120	Nghiem et al., 2004
Malay	223	0.140	0.620	0.240	Gajra et al., 1994a
Javanese	197	0.060	0.770	0.170	Gajra et al., 1994b
Koreans	145	0.020	0.870	0.110	Hong et al., 1997
Iranian	129	0.027	0.912	0.061	Raygani et al., 2005
Europeans
Dutch	2318	0.085	0.752	0.163	Smit et al., 1988; Knjiff et al., 1993
Finnish	2245	0.044	0.748	0.208	Lehtimäki et al., 1990; Salo et al., 1993; Hallman et al., 1991
Germans	1211	0.083	0.784	0.133	Kolovou et al., 2009
Italians	2000	0.060	0.849	0.091	Corbo et al., 1995
Spanish	1286	0.052	0.856	0.091	Valveny et al., 2010; Gerdes et al., 1992; Lucotte et al., 1997; Muros and Rodríguez-Ferrer, 1996
French	1228	0.108	0.771	0.121	Bailleul et al., 1993; Gueguen et al., 1989; Boerwinkle et al., 1986
Belgians	189	0.069	0.762	0.169	Engelborghs et al., 2003
UK	734	0.089	0.767	0.144	Corbo et al., 1995; Lucotte et al., 1997
Greeks	551	0.054	0.878	0.068	Marios et al., 1995; Sklavounou et al., 2010
Danish	466	0.085	0.741	0.174	Gerdes et al., 1992
Swedish	407	0.077	0.740	0.190	Roussos et al., 2004
Turks	90	0.063	0.868	0.069	Brega et al., 1998
Africans
Nigeria	1562	0.064	0.684	0.252	Kamboh et al., 2015
Algerian	732	0.050	0.846	0.104	Boulenouar et al., 2013
Sub-Saharans	470	0.116	0.706	0.178	Zekraoui et al., 1997
Nigerians	365	0.027	0.677	0.296	Sepehrnia et al., 1989
Khoi San	247	0.077	0.553	0.370	Sandholzer et al., 1995
North Americans
American- whites	702	0.082	0.778	0.140	Djoussé et al., 2004
South Americans
Brazil	2010	0.063	0.797	0.140	Fuzikawa et al., 2007; França et al., 2004; Brito et al., 2011; Souza et al., 2003
Venezuela	1841	0.055	0.834	0.111	Molero et al., 2001; Arráiz et al., 2010
Colombia	1001	0.075	0.814	0.111	Velez-Pardo et al., 2015

Comparing our results with other Chinese populations, the frequencies of the ∊2 and ∊4 alleles in the Hakka population were highly similar to the Chinese-Shanghai, Chinese-Kunming Han, and Chinese-Northeast, while the frequency of ∊2 in the Hakka population was higher than Chinese-Dehong Dai (Tang et al., 2005) and Chinese-Jiangsu Han (Liang et al., 2009) (Figure 2). This suggests that the risk of some diseases in the Hakka population of Southern China may be different from those of other populations. Since ∊4 polymorphism is associated with increased risk of cardiovascular disease, Alzheimer’s disease, and other diseases, our findings suggest a low genetic risk in the Hakka population for these diseases.

Figure 2
Distribution of APOE frequencies of ∊2 and ∊4 allele among major study populations.

In some reports, the subjects were relatively few and the results did not represent the actual gene frequencies of that region and population. Here, the Apolipoprotein E genetic polymorphism was analyzed in a large ethnic Hakka population in southern China, and is the first performed on a large sample of the population of this area. Our sample size is one of the largest of all studies, and thus should more accurately assess the APOE gene allele and genotype frequencies of the Hakka population in southern China. Our next step is to increase the sample size of the study. A number of investigations have demonstrated that carriers of ∊4 allele are characterized by a lower life expectancy (Hyman et al., 1996; Gerdes et al., 2015). Thus, we are going to investigate the APOE gene polymorphisms in people living in Jiaoling, which is considered the hometown of longevity in China.

Conclusions

The frequencies of the ∊4 allele in Chinese populations were lower than in Mongolians and Javanese, while the frequencies of the ∊2 allele were higher and of the ∊4 allele lower than in Japanese and Koreans, which are geographically neighboring countries. The frequencies of the ∊2 and ∊4 alleles in the Hakka population were similar to the Vietnamese, Chinese-Shanghai, Chinese-Kunming Han and Chinese-Northeast, and French, while the frequency of ∊2 in the Hakka population was higher than Chinese-Dehong Dai and Chinese-Jinangsu Han. Our findings suggest a low genetic risk in the Hakka population for some diseases.

Acknowledgments

The authors would like to thank the colleagues of the Department of Neurology, Clinical Core Laboratory and the Center for Precision Medicine, Meizhou People’s Hospital (Huangtang Hospital), Meizhou Hospital Affiliated to Sun Yat-sen University for their helpful comments on the manuscript. This study was financially supported by National Major Scientific and Technological Special Project for “Significant New Drugs Development” during the Thirteenth Five-year Plan Period (Grant No.: 2015ZX09102025001 to PZ), The National Key Research and Development Program of China (Grant No.: 2016YFD0500405 to PZ), The National Key Research and Development Program of China (Grant No.: 2017YFD0501705 to PZ), Natural Science Foundation of Guangdong Province, China (Grant No.: 2014A030307042 to PZ), Medical Scientific Research Foundation of Guangdong Province, China (Grant No.: A2016306 to PZ), Natural Science Foundation of Guangdong Province, China (Grant No.: 2016A030307031 to PZ), Key Scientific and Technological Project of Meizhou People’s Hospital (Huangtang Hospital), Meizhou Hospital Affiliated to Sun Yat-sen University, Guangdong Province, China (Grant No.: MPHKSTP-20170102 to PZ) and Key Scientific and Technological Project of Meizhou People’s Hospital, Guangdong Province, China (Grant No.: MPHKSTP-20170101 to ZZ).

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• Associate Editor: Jorge Lopez-Camelo

Publication Dates

• Publication in this collection
  29 Nov 2018
• Date of issue
  Oct-Dec 2018

History

• Received
  04 Oct 2017
• Accepted
  18 Feb 2018