1
|
Kondkar AA, Azad TA, Sultan T, Khatlani T, Alshehri AA, Radhakrishnan R, Lobo GP, Alsirhy E, Almobarak FA, Osman EA, Al-Obeidan SA. APOE ε2-Carriers Are Associated with an Increased Risk of Primary Angle-Closure Glaucoma in Patients of Saudi Origin. Int J Mol Sci 2024; 25:4571. [PMID: 38674156 PMCID: PMC11050284 DOI: 10.3390/ijms25084571] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2024] [Revised: 04/18/2024] [Accepted: 04/18/2024] [Indexed: 04/28/2024] Open
Abstract
This study investigated the association between apolipoprotein E (APOE) gene polymorphisms (rs429358 and rs7412) and primary angle-closure glaucoma (PACG) and pseudoexfoliation glaucoma (PXG) in a Saudi cohort. Genotyping of 437 DNA samples (251 controls, 92 PACG, 94 PXG) was conducted using PCR-based Sanger sequencing. The results showed no significant differences in the allele and genotype frequencies of rs429358 and rs7412 between the PACG/PXG cases and controls. Haplotype analysis revealed ε3 as predominant, followed by ε4 and ε2 alleles, with no significant variance in PACG/PXG. However, APOE genotype analysis indicated a significant association between ε2-carriers and PACG (odds ratio = 4.82, 95% CI 1.52-15.26, p = 0.007), whereas no notable association was observed with PXG. Logistic regression confirmed ε2-carriers as a significant predictor for PACG (p = 0.008), while age emerged as significant for PXG (p < 0.001). These findings suggest a potential role of ε2-carriers in PACG risk within the Saudi cohort. Further validation and larger-scale investigations are essential to elucidate the precise role of APOE in PACG pathogenesis and progression.
Collapse
Affiliation(s)
- Altaf A. Kondkar
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
- King Saud University Medical City, King Saud University, Riyadh 11411, Saudi Arabia
| | - Taif A. Azad
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
| | - Tahira Sultan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
| | - Tanvir Khatlani
- Department of Blood and Cancer Research, King Abdullah International Medical Research Center, King Saud Bin Abdulaziz University of Health Sciences, Ministry of National Guard Health Affairs, Riyadh 11426, Saudi Arabia
| | - Abdulaziz A. Alshehri
- Department of Ophthalmology, Imam Abdulrahman Alfaisal Hospital, Riyadh 14723, Saudi Arabia
| | - Rakesh Radhakrishnan
- Department of Ophthalmology and Visual Neurosciences, University of Minnesota, Minneapolis, MN 55347, USA; (R.R.)
| | - Glenn P. Lobo
- Department of Ophthalmology and Visual Neurosciences, University of Minnesota, Minneapolis, MN 55347, USA; (R.R.)
| | - Ehab Alsirhy
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
| | - Faisal A. Almobarak
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
| | - Essam A. Osman
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
| | - Saleh A. Al-Obeidan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia (E.A.); (S.A.A.-O.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
| |
Collapse
|
2
|
Kondkar AA, Sultan T, Azad TA, Khatlani T, Alshehri AA, Osman EA, Lobo GP, Almobarak FA, Al-Obeidan SA. Common Variants rs429358 and rs7412 in APOE Gene Are Not Associated with POAG in a Saudi Cohort. Biology (Basel) 2024; 13:62. [PMID: 38275738 PMCID: PMC10813158 DOI: 10.3390/biology13010062] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/09/2024] [Accepted: 01/18/2024] [Indexed: 01/27/2024]
Abstract
Adult-onset glaucoma, an age-related neurodegenerative disease, is very prevalent among the elderly Arabs of Saudi origin. This study investigated the association between apolipoprotein E (APOE) gene variants (rs429358 and rs7412) and primary open-angle glaucoma (POAG) in Arabs of Saudi origin. A case-control genetic association study involving 179 POAG patients and 251 controls utilized Sanger sequencing to genotype APOE gene variants. The allele frequencies and genotype distributions for rs429358 and rs7412 did not show significant associations with POAG. The haplotype analysis revealed apoε3 (87.6% and 87.4%) as the most prevalent, followed by ε4 (2.8% and 3.6%) and ε2 (9.6% and 8.9%) in the controls and POAG patients, respectively. Although the ε2/ε3 genotype and ε2-carriers displayed a more than two-fold increased risk, statistical significance was not reached. Notably, these polymorphisms did not affect clinical markers, such as intraocular pressure and cup/disc ratio. The logistic regression analysis demonstrated no significant influence of age, sex, rs429358, or rs7412 polymorphisms on POAG. In conclusion, within the Saudi cohort, APOE variants (rs429358 and rs7412) do not appear to be associated with POAG and are not substantial risk factors for its development. However, additional population-based studies are required to validate these findings.
Collapse
Affiliation(s)
- Altaf A. Kondkar
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
- King Saud University Medical City, King Saud University, Riyadh 11411, Saudi Arabia
| | - Tahira Sultan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
| | - Taif A. Azad
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
| | - Tanvir Khatlani
- Department of Blood and Cancer Research, King Abdullah International Medical Research Center, King Saud Bin Abdulaziz University of Health Sciences, Ministry of National Guard Health Affairs, Riyadh 11426, Saudi Arabia;
| | - Abdulaziz A. Alshehri
- Department of Ophthalmology, Imam Abdulrahman Alfaisal Hospital, Riyadh 14723, Saudi Arabia;
| | - Essam A. Osman
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
| | - Glenn P. Lobo
- Department of Ophthalmology and Visual Neurosciences, University of Minnesota, Minneapolis, MN 55347, USA;
| | - Faisal A. Almobarak
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
| | - Saleh A. Al-Obeidan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.S.); (T.A.A.); (E.A.O.); (F.A.A.); (S.A.A.-O.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
| |
Collapse
|
3
|
Kondkar AA, Azad TA, Sultan T, Khatlani T, Alshehri AA, Lobo GP, Kalantan H, Al-Obeidan SA, Al-Muammar AM. Association between Polymorphism rs61876744 in PNPLA2 Gene and Keratoconus in a Saudi Cohort. Genes (Basel) 2023; 14:2108. [PMID: 38136930 PMCID: PMC10742661 DOI: 10.3390/genes14122108] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2023] [Revised: 11/05/2023] [Accepted: 11/17/2023] [Indexed: 12/24/2023] Open
Abstract
The genetic etiology of Keratoconus (KC) in Middle Eastern Arabs of Saudi origin is still unclear. A recent genome-wide study identified two significant loci in the region of PNPLA2 (rs61876744) and CSNK1E (rs138380) for KC that may be associated with KC in the Saudi population. In addition, polymorphisms in the apolipoprotein E (APOE) gene, namely, rs429358 and rs7412, responsible for APOE allelic variants ε2, ε3, and ε4, may influence KC via oxidative stress mechanism(s). Thus, we investigated the possible association of polymorphisms rs61876744, rs138380, rs429358, rs7412, and APOE genotypes in KC patients of the Saudi population. This study included 98 KC cases and 167 controls. Polymorphisms rs6187644 and rs138380 were genotyped using TaqMan assays, and rs429358 and rs7412 were genotyped via Sanger sequencing. Although the allele frequency of rs61876744(T) in PNPLA2 was a protective effect against KC (odds ratio (OR) = 0.64, 95% confidence interval (CI) = 0.44-0.93), the p-value (p = 0.020) was not significant for multiple testing correction (p = 0.05/4 = 0.015). However, rs6187644 genotype showed a modestly significant protective effect in the dominant model (OR = 0.53, 95% CI = 0.32-0.88, p = 0.013). Polymorphisms rs138380, rs429358, and rs7412 showed no significant allelic or genotype association with KC. However, the ε2-carriers (ε2/ε2 and ε2/ε3 genotypes) exhibited a greater than 5-fold increased risk of KC, albeit non-significantly (p = 0.055). Regression analysis showed no significant effect of age, gender, and the four polymorphisms on KC. Our results suggest that polymorphism rs6187644 in PNPLA2 might be associated with KC in the Middle Eastern Arabs of Saudi origin but warrant a large-scale association analysis at this locus.
Collapse
Affiliation(s)
- Altaf A. Kondkar
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
- King Saud University Medical City, King Saud University, Riyadh 11411, Saudi Arabia
| | - Taif A. Azad
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
| | - Tahira Sultan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
| | - Tanvir Khatlani
- Department of Blood and Cancer Research, King Abdullah International Medical Research Center, King Saud Bin Abdulaziz University of Health Sciences, Ministry of National Guard Health Affairs, Riyadh 11426, Saudi Arabia;
| | - Abdulaziz A. Alshehri
- Department of Ophthalmology, Imam Abdulrahman Alfaisal Hospital, Riyadh 14723, Saudi Arabia;
| | - Glenn P. Lobo
- Department of Ophthalmology and Visual Neurosciences, University of Minnesota, Minneapolis, MN 55347, USA;
| | - Hatem Kalantan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
| | - Saleh A. Al-Obeidan
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
- Glaucoma Research Chair in Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia
| | - Abdulrahman M. Al-Muammar
- Department of Ophthalmology, College of Medicine, King Saud University, Riyadh 11411, Saudi Arabia; (T.A.A.); (T.S.); (H.K.); (S.A.A.-O.); (A.M.A.-M.)
- King Saud University Medical City, King Saud University, Riyadh 11411, Saudi Arabia
| |
Collapse
|
4
|
Najd-Hassan-Bonab L, Hedayati M, Shahzadeh Fazeli SA, Daneshpour MS. An optimized method for PCR-based genotyping to detect human APOE polymorphisms. Heliyon 2023; 9:e21102. [PMID: 37954297 PMCID: PMC10637921 DOI: 10.1016/j.heliyon.2023.e21102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 09/10/2023] [Accepted: 10/16/2023] [Indexed: 11/14/2023] Open
Abstract
Background Apolipoprotein E (APOE) is one of the most polymorphic genes at two single nucleotides (rs429358 and rs7412). The various isoforms of APOE have been associated with a variety of diseases, including neurodegenerative, type 2 diabetes, etc. Hence, predicting the APOE genotyping is critical for disease risk evaluation. The purpose of this study was to optimize the tetra amplification refractory mutation system (Tetra-ARMS) PCR method for the detection of APOE mutations. Material and methods Here, in our optimized Tetra-ARMS PCR method, different factors like cycle conditions, using HiFidelity enzyme instead of Taq polymerase and setting its best concentration, and the lack of using dimethylsulfoxide (DMSO) for amplifying the GC-regions were set up for all primer pairs. The sensitivity and accuracy were tested. For validation of the assay, the results were compared with known genotypes for the APOE gene that were previously obtained by two independent methods, RFLP and Chip-typing. Results Successful Tetra-ARMS PCR and genotyping are influenced by multiple factors. Our developed method enabled us to amplify the DNA fragment by 25 cycles without adding any hazardous reagent, like DMSO. Our findings showed 100 % accuracy and sensitivity of the optimized Tetra-ARMS PCR while both criteria were 95 % for RFLP and 100 % for the chip-typing method. In addition, our results showed 91 % and 100 % consistency with RFLP and chip typing methods, respectively. Conclusions Our current method is a simple and accurate approach for detecting APOE polymorphisms within a large sample size in a short time and can be performed even in low-tech laboratories.
Collapse
Affiliation(s)
- Leila Najd-Hassan-Bonab
- Cellular and Molecular Endocrine Research Center, Research Institute for Endocrine Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Mehdi Hedayati
- Cellular and Molecular Endocrine Research Center, Research Institute for Endocrine Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Seyed Abolhassan Shahzadeh Fazeli
- Department of Molecular and Cellular Biology, Faculty of Basic Sciences and Advanced Technologies in Biology, University of Science and Culture, ACECR, Tehran, Iran
| | - Maryam S. Daneshpour
- Cellular and Molecular Endocrine Research Center, Research Institute for Endocrine Sciences, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| |
Collapse
|
5
|
Gafarov V, Gromova E, Shakhtshneider E, Gagulin I, Gafarova A. Association of the APOE Gene Polymorphism with Depression in White Adults in the WHO "MONICA-Psychosocial" Program. J Pers Med 2023; 13:1306. [PMID: 37763074 PMCID: PMC10532747 DOI: 10.3390/jpm13091306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2023] [Revised: 08/21/2023] [Accepted: 08/24/2023] [Indexed: 09/29/2023] Open
Abstract
The APOE gene polymorphism is associated with the risk of the development of several neurological disorders. The aim of the study was to investigate the association of the APOE gene polymorphism with depression in the white adult population aged 25-64 years in Novosibirsk (Western Siberia). The third screening of the WHO program "MONICA-psychosocial" was conducted in 1994-1995. In total, 403 men (the average age was 34 ± 0.4 years, the response was 71%) and 531 women (the average age was 35 ± 0.4 years, the response was 72%) of the open population of residents aged 25-64 years of the Oktyabrsky district of Novosibirsk were examined. The "MONICA-MOPSY" psychosocial questionnaire was used to assess depression. A high level of depression was found in 12.8% of the population: in 8.9% of men and in 15.8% of women. The frequencies of APOE gene polymorphism genotypes ε2/3, ε2/4, ε3/3, ε3/4, and ε4/4 were 14.9%, 3.1%, 61.6%, 17.5%, and 2.9%, respectively. Carrying the ε3/4 genotype of the APOE gene increased the odds of developing major depression by 2.167 times (95% CI 1.100-4.266) compared to carrying the ε3/3 genotype of the APOE gene in people without depression (χ2 = 5.120 df = 1 p = 0.024). Carriers of the ε4 allele were 2.089 times (95% CI 1.160-3.761) more likely to have a high level of depression than those without this allele and no depression (χ2 = 6.148 df = 1 p = 0.013), and 2.049 times (95% CI 1.117-3.758) more likely to have a moderate level of depression than those without this allele (χ2 = 5.470 df = 1 p < 0.019). The ε4 allele of the APOE gene is associated with a high level of depression.
Collapse
Affiliation(s)
- Valery Gafarov
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
- Collaborative Laboratory of Epidemiology of Cardiovascular Diseases (CVD), 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Elena Gromova
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
- Collaborative Laboratory of Epidemiology of Cardiovascular Diseases (CVD), 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Elena Shakhtshneider
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Igor Gagulin
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
- Collaborative Laboratory of Epidemiology of Cardiovascular Diseases (CVD), 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Almira Gafarova
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
- Collaborative Laboratory of Epidemiology of Cardiovascular Diseases (CVD), 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| |
Collapse
|
6
|
Semaev S, Shakhtshneider E, Shcherbakova L, Orlov P, Ivanoshchuk D, Malyutina S, Gafarov V, Voevoda M, Ragino Y. Association of Common Variants of APOE, CETP, and the 9p21.3 Chromosomal Region with the Risk of Myocardial Infarction: A Prospective Study. Int J Mol Sci 2023; 24:10908. [PMID: 37446094 PMCID: PMC10342168 DOI: 10.3390/ijms241310908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2023] [Revised: 06/27/2023] [Accepted: 06/29/2023] [Indexed: 07/15/2023] Open
Abstract
The individual risk of an unfavorable cardiovascular outcome is determined by genetic factors in addition to lifestyle factors. This study was aimed at analyzing possible associations of several genetic factors with the risk of myocardial infarction (MI). For our study, we selected genes that have been significantly associated with MI in meta-analyses: the chromosomal region 9p21.3, the CETP gene, and the APOE gene. In total, 2286 randomly selected patients were included. Rs708272 and rs429358 and rs7412 were analyzed using RT-PCR via the TaqMan principle, and rs1333049 vas analyzed via a commercial KASP assay. In our sample, the frequencies of alleles and genotypes were consistent with frequencies in comparable populations of Eastern and Western Europe. Allele C of rs1333049 was significantly associated with MI among males (p = 0.027) and in the whole study sample (p = 0.008). We also revealed a significant association of the ɛ2/ɛ4 genotype of APOE with MI among males (p < 0.0001) and in the whole study sample (p < 0.0001). Thus, among the tested polymorphisms, some genotypes of rs1333049 and rs429358 and rs7412 are the most strongly associated with MI and can be recommended for inclusion into a genetic risk score.
Collapse
Affiliation(s)
- Sergey Semaev
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences (ICG SB RAS), 10 Prospekt Ak. Lavrentyeva, Novosibirsk 630090, Russia
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Elena Shakhtshneider
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences (ICG SB RAS), 10 Prospekt Ak. Lavrentyeva, Novosibirsk 630090, Russia
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Liliya Shcherbakova
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Pavel Orlov
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences (ICG SB RAS), 10 Prospekt Ak. Lavrentyeva, Novosibirsk 630090, Russia
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Dinara Ivanoshchuk
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences (ICG SB RAS), 10 Prospekt Ak. Lavrentyeva, Novosibirsk 630090, Russia
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Sofia Malyutina
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Valery Gafarov
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| | - Mikhail Voevoda
- Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences (ICG SB RAS), 10 Prospekt Ak. Lavrentyeva, Novosibirsk 630090, Russia
| | - Yuliya Ragino
- Institute of Internal and Preventive Medicine (IIPM)-Branch of ICG SB RAS, 175/1 Borisa Bogatkova Str., Novosibirsk 630089, Russia
| |
Collapse
|
7
|
González RD, Gomes I, Gomes C, Rocha R, Durães L, Sousa P, Figueruelo M, Rodríguez M, Pita C, Hornero R, Gómez C, Lopes AM, Pinto N, Martins S. APOE Variants in an Iberian Alzheimer Cohort Detected through an Optimized Sanger Sequencing Protocol. Genes (Basel) 2020; 12:genes12010004. [PMID: 33375167 PMCID: PMC7822120 DOI: 10.3390/genes12010004] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2020] [Revised: 12/10/2020] [Accepted: 12/19/2020] [Indexed: 01/03/2023] Open
Abstract
The primary genetic risk factor for late onset Alzheimer’s disease (LOAD) is the APOE4 allele of Apolipoprotein E (APOE) gene. The three most common variants of APOE are determined by single nucleotide polymorphisms (SNPs) rs429358 and rs7412. Our aim was to estimate allele and genotype frequencies of APOE variants in an Iberian cohort, thus helping to understand differences in APOE-related LOAD risk observed across populations. We analyzed saliva or buccal swab samples from 229 LOAD patients and 89 healthy elderly controls (≥68 years old) from Northern Portugal and Castile and León region, Spain. The genotyping was performed by Sanger sequencing, optimized to overcome GC content drawbacks. Results obtained in our Iberian LOAD and control cohorts are in line with previous large meta-analyses on APOE frequencies in Caucasian populations; however, we found differences in allele frequencies between our Portuguese and Spanish subgroups of AD patients. Moreover, when comparing studies from Iberian and other Caucasian cohorts, differences in APOE2 and APOE4 frequencies and subsequent different APOE-related LOAD risks must be clarified. These results show the importance of studying genetic variation at the APOE gene in different populations (including analyses at a regional level) to increase our knowledge about its clinical significance.
Collapse
Affiliation(s)
- Ricardo D. González
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| | - Iva Gomes
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| | - Catarina Gomes
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| | - Rita Rocha
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| | - Luís Durães
- Associação Portuguesa de Familiares e Amigos de Doentes de Alzheimer, 4455-301 Lavra, Portugal; (L.D.); (P.S.)
| | - Patrícia Sousa
- Associação Portuguesa de Familiares e Amigos de Doentes de Alzheimer, 4455-301 Lavra, Portugal; (L.D.); (P.S.)
| | - Manuel Figueruelo
- Asociación de Familiares y Amigos de Enfermos de Alzheimer y Otras Demencias de Zamora, 49021 Zamora, Spain; (M.F.); (M.R.); (C.P.)
| | - Maria Rodríguez
- Asociación de Familiares y Amigos de Enfermos de Alzheimer y Otras Demencias de Zamora, 49021 Zamora, Spain; (M.F.); (M.R.); (C.P.)
| | - Carmen Pita
- Asociación de Familiares y Amigos de Enfermos de Alzheimer y Otras Demencias de Zamora, 49021 Zamora, Spain; (M.F.); (M.R.); (C.P.)
| | - Roberto Hornero
- Grupo de Ingeniería Biomédica, Universidad de Valladolid, 47011 Valladolid, Spain; (R.H.); (C.G.)
- Centro de Investigación Biomédica en Red en Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), 47011 Valladolid, Spain
- Instituto de Investigación en Matemáticas (IMUVA), Universidad de Valladolid, 47011 Valladolid, Spain
| | - Carlos Gómez
- Grupo de Ingeniería Biomédica, Universidad de Valladolid, 47011 Valladolid, Spain; (R.H.); (C.G.)
- Centro de Investigación Biomédica en Red en Bioingeniería, Biomateriales y Nanomedicina (CIBER-BBN), 47011 Valladolid, Spain
| | - Alexandra M. Lopes
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| | - Nádia Pinto
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
- Centro de Matemática da Universidade do Porto, 4169-007 Porto, Portugal
- Correspondence: ; Tel.: +351-220408800
| | - Sandra Martins
- IPATIMUP–Institute of Molecular Pathology and Immunology of the University of Porto, 4200-135 Porto, Portugal; (R.D.G.); (I.G.); (C.G.); (R.R.); (A.M.L.); (S.M.)
- i3S–Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4200-135 Porto, Portugal
| |
Collapse
|
8
|
Occhiutto ML, de Melo MB, Cabral de Vasconcellos JP, Rodrigues TAR, Bajano FF, Costa FF, Costa VP. "Association of APOE gene polymorphisms with primary open angle glaucoma in Brazilian patients". Ophthalmic Genet 2020; 42:53-61. [PMID: 33287609 DOI: 10.1080/13816810.2020.1849314] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Background: Primary open-angle glaucoma (POAG) is a multifactorial disease that affects 65.5 million people worldwide. In addition to the genetic variants already established as indicators of greater risk for POAG, the apolipoprotein (APOE) gene has been studied in some populations, with controversial results. The aim of this study is to investigate the frequency of the genetic variants of APOE in the Brazilian population, and to evaluate the association between these polymorphisms and the risk of POAG. Methods: APOE variants (rs429358; rs7412) were genotyped in 402 POAG patients and 401 controls. We evaluated the association between APOE genetic variants and the risk for POAG, as well as the correlation between the requirement of glaucoma surgery and the APOE polymorphisms. Results: Among the three APOE gene isoforms, we found a low frequency of APOE alleles ε2 (7.34%) and ε4 (11.76%), but a high frequency of ε3 (80.88%) in our population. When compared to ε3ε3 reference genotype, ε2 allele-carriers (OR = 1.516; p-value = 0.04) and ε2ε3 genotype (OR = 1.655; p-value = 0.02) were associated with a greater risk for POAG. An additive genetic model confirmed the influence of the ε2 allele in the risk of POAG in this sample of the Brazilian population (OR = 1.502; p-value = 0.04). There was no significant association between the analyzed genotypes and the requirement or number of glaucoma surgeries (p > .05). Conclusion: Brazilian individuals carrying the APOEε2 allele may be at an increased risk for the development of POAG.
Collapse
Affiliation(s)
- Marcelo Luís Occhiutto
- Department of Ophthalmology, Faculty of Medical Sciences, University of Campinas - UNICAMP , Campinas, Brazil
| | - Mônica Barbosa de Melo
- Laboratory of Human Genetics, Center for Molecular Biology and Genetic Engineering - CBMEG , Campinas, Brazil
| | | | | | - Flávia Fialho Bajano
- Laboratory of Human Genetics, Center for Molecular Biology and Genetic Engineering - CBMEG , Campinas, Brazil
| | | | - Vital Paulino Costa
- Department of Ophthalmology, Faculty of Medical Sciences, University of Campinas - UNICAMP , Campinas, Brazil
| |
Collapse
|
9
|
Abstract
Recent reports have shown that apolipoprotein E (APOE) polymorphisms are involved in neurodegenerative disease. However, it is unclear whether APOE affects post-stroke depression. Accordingly, we hypothesized that APOE polymorphisms modify the risk of post-stroke depression. Here, we performed a hospital-based case-control study (including 76 cerebral infarction cases with post-stroke depression, 88 cerebral infarction cases without post-stroke depression, and 109 controls without any evidence of post-stroke depression or cerebral infarction) to determine possible association between APOE rs429358 and rs7412 polymorphisms and risk of post-stroke depression. Our findings show no difference among the groups with regards genotype distribution of the rs7412 polymorphism. In contrast, APOE genotypes with rs429358-C alleles increased the risk of post-stroke depression. Further, the rs429358 polymorphism was associated with significantly decreased regional cerebral blood flow values in the left temporal lobe of post-stroke depression cases. Additionally, the rs429358 polymorphism was not only associated with depression severity, but with increasing serum levels of total cholesterol. These results suggest that the APOE rs429358 polymorphism is associated with increased risk of developing post-stroke depression, and that APOE rs429358-C allele genotypes may be detrimental to recovery of nerve function after stoke. Indeed, these findings provide clinical data for future post-stroke depression gene interventions.
Collapse
Affiliation(s)
- Xue-Bin Li
- Stroke Center & Neurology Division, the First Affiliated Hospital of Jinan University, Guangzhou, Guangdong Province, China; Department of Neurology, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| | - Jie Wang
- Department of Nephrology, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| | - An-Ding Xu
- Stroke Center & Neurology Division, the First Affiliated Hospital of Jinan University, Guangzhou, Guangdong Province, China
| | - Jian-Min Huang
- Department of Neurology, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| | - Lan-Qing Meng
- Department of Neurology, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| | - Rui-Ya Huang
- Department of Neurology, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| | - Jun-Li Wang
- Department of Laboratory Medicines, the Affiliated Hospital of Youjiang Medical University for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China
| |
Collapse
|
10
|
Reales G, Hernández CL, Dugoujon JM, Novelletto A, Cuesta P, Fortes-Lima C, Rodríguez JN, Calderón R. New insights into the distribution of APOE polymorphism in the Iberian Peninsula. The case of Andalusia (Spain). Ann Hum Biol 2014; 41:443-52. [PMID: 24502694 DOI: 10.3109/03014460.2013.877966] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
BACKGROUND The APOE gene has received much attention due to the remarkable spatial variation patterns of some of its genotypes and alleles in human populations and to its relevance in biomedicine. AIM This work was addressed to investigate the extent of APOE polymorphism between autochthonous Andalusians originating from Huelva and Granada provinces. No data on this marker in these southern Spanish coastal populations are available up to date. SUBJECTS AND METHODS This study used genomic DNA from healthy, unrelated Andalusians of both sexes (n = 322). All samples were genotyped for two SNPs, rs429358 and rs7412, which determine the three APOE alleles: ε2, ε3 and ε4. For analyses, a TaqMan-based technique was applied using a RT-PCR. Comparisons with other Mediterranean populations were performed based on multivariate analysis. RESULTS A relatively high frequency of ε4 in Granada (eastern Andalusia), as well as a low ε2 frequency in Huelva (western Andalusia) were observed. The finding that ε4 allele in Southern Spain and Portugal is higher than expected given its geographical location poses an interesting question for this study, given the well-established APOE-ε4 gradient in Europe. CONCLUSION This population study may represent useful information for further prospective anthropological and molecular genetic studies focused on unravelling the relationship between population genetic composition and specific human diseases.
Collapse
Affiliation(s)
- Guillermo Reales
- Departamento de Zoología y Antropología Física, Facultad de Biología, Universidad Complutense , Madrid , Spain
| | | | | | | | | | | | | | | |
Collapse
|