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Epigenetics of dementia remains unraveled in Latin American and Caribbean populations: A call for collaborative efforts
Alzheimer's & Dementia ( IF 13.0 ) Pub Date : 2024-11-13 , DOI: 10.1002/alz.14295
Ariel Caviedes, Paulina Orellana, Cristian Ávila‐Rincón, Agustín Ibáñez, Michael J. Corley, Hernando Santamaría‐García, Claudia Duran‐Aniotz, Carolina Ochoa‐Rosales

Dementia is a major health issue in Latin America and the Caribbean (LAC), with a prevalence of 9.5% and an incidence of 26.0 per 1000 among people over 60 years. With cases expected to triple by 2050, there is an urgent need for more extensive local research in this field.1 Despite advancements in neuroimaging and protein biomarkers, significant gaps remain in understanding how biological mechanisms that interact with LAC-specific environmental exposures influence dementia risk, presentation, and treatment. Interactions between genetic and environmental factors, mainly through epigenetic changes including DNA methylation (DNAm), noncoding RNA, and histone modifications, can modulate gene expression, altering molecular traits and health outcomes.2 Adverse environmental exposures in LAC, including socioeconomic disparities, pollutants, unhealthy habits, and comorbidities, have been associated with higher dementia risk,1 potentially through epigenetic mechanisms. Most existing knowledge on epigenetics is derived from studies conducted in Europe and the United States, which limits the generalization of these findings to underrepresented regions,3 including LAC. To understand state-of-the-art epigenetic studies on dementia in LAC, we conducted a systematic review following the Preferred Reporting Items for Systematic reviews and Meta-Analyses (PRISMA) protocols. Our search focused on chemical modifications of the DNA or histones able to regulate chromatin's structure. We reviewed the literature up to May 2024 in MEDLINE, Web of Science, PubMed, and Scopus databases (research strategy and findings in Table 1). Surprisingly, we found only five case-control studies comparing late-onset Alzheimer's disease (LOAD)4-6 or mild cognitive impairment (MCI)7, 8 versus healthy controls, revealing a disparity in published studies on epigenetics and dementia in LAC. Further epigenetics research is needed in the region, including the use of cutting-edge methods, target tissues, and systematic approaches. Studies have investigated global DNAm (LINE-1).4 DNAm in candidate genes.5, 6 or genome-wide DNAm7, 8 assessed in peripheral blood. Two studies were conducted in Colombian,4, 5 two in Mexican-American (MA),7, 8 and one in Costa Rican populations.6 Three studies addressed sex4, 5 or ethnic8 differences in DNAm. The study conducted by Hernández et al. found no significant differences in LINE-1 methylation across LOAD patients and controls, even after stratification by sex or APOE4 genotypes.4 Further, Salcedo-Tacuma et al. identified significantly lower DNAm levels at three CpGs at BIN1 gene in LOAD patients.5 In 2019, Pathak et al. reported differentially methylated CpGs in MCI individuals in an Epigenome-Wide Association Study (EWAS). These findings were linked to neuronal death, metabolic dysfunction, and inflammation.7 In 2021, Coto-Vílchez et al. compared Horvath's epigenetic clock DNAm profiles to measure biological aging. Both LOAD patients and control group exhibited an average epigenetic age 20 years younger than their chronological age. Additionally, they identified differentially methylated regions at PM20D1 across study groups.6 Finally, Abraham Daniel et al. analyzed ethnicity-specific DNAm profiles in non-Hispanic whites and MA, identifying significant differential methylation at CREBBP gene associated with MCI and AD in MA participants.8 These findings generally agree with previous evidence from other populations, suggesting distinctive DNAm patterns associated with dementia or impaired cognition, although some contradictions remain regarding differential epigenetic aging. Also, they provide evidence showing that genetic ancestry influences DNAm patterns. Overall, limitations of these studies include restricted sample size,4-7 limited follow-up data for functional interpretation like gene expression, and the use of peripheral blood-derived methylation biomarkers while they may not reflect brain-specific alterations in dementia. Unfortunately, none of the reviewed articles investigated histone modifications.

TABLE 1. Characteristics of the selected studies
Authors and year

LAC

Population

Sample size Epigenetic measurement examined Outcome measure
Hernández et al., 2013 Colombia 28 LOAD and 30 controls. Stratification by sex and ApoE4 allele. Global DNAm methylation (MS-HRM) No significant differential methylation at LINE-1 gene.
Salcedo-Tacuma et al., 2019 Colombia 50 LOAD and 50 controls. Stratification by age, sex, and ApoE4 allele. Candidate gene (Bisulfite conversion and PCR) LOAD patients showed significantly lower DNAm at three CpGs at BIN1 gene: CpG26, CpG44, and CpG87.
Pathak et al., 2019 Mexican American 45 MCI and 45 controls. MA has a high metabolic risk score, less years of education and a lower frequency of the ApoE4 allele. EWAS (Infinium MethylationEPIC BeadChip)

Four CpG sites significantly hypomethylated in MCI subjects compared to controls: cg25016219 (KLHL29 gene), cg26479998 (SEPT9 gene), cg02586267 (not mapped), and cg18978297 (CPLX3 gene).

Six CpG sites significantly hypermethylated in MCI subject compared to controls: cg22360048 (PKIB gene), cg20904111 (intergenic), cg05917713 (BCL2L2-PABPN1 gene), cg20201669 (OR2C3 gene), cg14179796 (CCNY gene), cg22327037 (intergenic).

Coto-Vílchez et al., 2021 Costa Rica 11 LOAD and 21 controls. All female participants were over 90 years old, with educational backgrounds ranging from 0 to 9 years. EWAS (Infinium MethylationEPIC BeadChip) and Horvath´s epigenetic clock

The LOAD patients and the control group had an epigenetic age of 20 years younger than their chronological age.

Significantly higher methylation at the PM20D1 gene in individuals who were heterozygotes (AG) for rs708727 than GG genotype individuals.

Abraham Daniel et al. 2023 Mexican American 122 AD/MCI and 177 controls. Stratification by sex, age, years of education, and ApoE4 allele EWAS (Infinium MethylationEPIC BeadChip) Significantly hypermethylated CpG site at CREBBP (cg13135255) in cognitively impaired participants (AD/MCI) compared to controls.
  • Note: For dementia, the search terms used were: “alzheimer's disease,” “AD,” “dementia,” “frontotemporal dementia,” “FTD,” “frontotemporal lobar degeneration,” “apoliprotein e,” and “ApoE.” For epigenetics, the terms used included: “epigenetic,” “epigenomic,” “DNA methylation,” “histone modification,” “epigenome-wide association study,” and “EWAS”. The country-specific terms included the names of all countries within Latin America and the Caribbean (LAC).
  • Abbreviations: DNAm, DNA methylation; EWAS, Epigenome-Wide Association Study; LOAD, late-onset Alzheimer's disease; MCI, mild cognitive impairment; MS-HRM, methylation-sensitive high-resolution melting.

Despite the limited number of identified studies, their positive quality assessment by the Newcastle-Ottawa scale (6 to 8 points) suggests considerable potential for conducting meaningful research and providing valuable insights into the epigenetic landscape of dementia within the region. Given the scarce but encouraging evidence, it is imperative to promote further efforts to unravel LAC-specific epigenetic biomarkers of dementia. We advocate for coordinated and systematic joint efforts to guide future studies relevant to the context of the region.

In conclusion, we call for actions to address the gaps in epigenetics-dementia research in LAC by:
  1. Stimulating local epigenetics research and leveraging consortia for the study of dementia, like ReDLat, LAC-CD, or UNITED Consortium,9, 10 to enhance collaboration, interdisciplinarity, and harmonization across studies.

  2. Assessing the research landscape of the region, to identify gaps, strengths, limitations, and opportunities. This knowledge will serve for the planification of further efforts in the field.

  3. Strengthening local research capacities by empowering LAC researchers through tailored training and funding opportunities.

We believe these efforts are essential for understanding the role of gene-environment interplay in dementia development in LAC.



中文翻译:


痴呆的表观遗传学在拉丁美洲和加勒比人群中仍然存在:呼吁合作努力



痴呆症是拉丁美洲和加勒比地区 (LAC) 的一个主要健康问题,在 60 岁以上的人群中,痴呆症的患病率为 9.5%,发病率为 26.0/1000。预计到 2050 年,病例将增加两倍,因此迫切需要在该领域进行更广泛的本地研究。1 尽管神经影像学和蛋白质生物标志物取得了进步,但在理解与 LAC 特异性环境暴露相互作用的生物机制如何影响痴呆风险、表现和治疗方面仍然存在重大差距。遗传和环境因素之间的相互作用,主要通过包括 DNA 甲基化 (DNAm)、非编码 RNA 和组蛋白修饰在内的表观遗传变化,可以调节基因表达,改变分子性状和健康结果。2 LAC 的不利环境暴露,包括社会经济差异、污染物、不健康的习惯和合并症,与较高的痴呆风险有关,1 可能通过表观遗传机制。大多数现有的表观遗传学知识都来自在欧洲和美国进行的研究,这限制了这些发现对代表性不足的地区3的推广,包括 LAC。为了了解 LAC 中痴呆的最新表观遗传学研究,我们按照系统评价和荟萃分析的首选报告项目 (PRISMA) 方案进行了系统评价。我们的检索集中在能够调节染色质结构的 DNA 或组蛋白的化学修饰上。我们回顾了截至 2024 年 5 月的 MEDLINE、Web of Science、PubMed 和 Scopus 数据库中的文献(研究策略和结果见表 1)。 令人惊讶的是,我们发现只有五项病例对照研究比较了迟发性阿尔茨海默病 (LOAD)4-6 或轻度认知障碍 (MCI)7, 8 与健康对照,揭示了已发表的关于 LAC 表观遗传学和痴呆的研究存在差异。该地区需要进一步的表观遗传学研究,包括使用尖端方法、靶组织和系统方法。研究调查了全球 DNAm (LINE-1)。候选基因中的 4 个 DNAm。5、6 或全基因组 DNAm7、8 在外周血中评估。2 项研究在哥伦比亚进行,4, 5,2 在墨西哥裔美国人 (MA) 进行,7, 8 和 1 在哥斯达黎加人群中进行。6 三项研究解决了 DNA 中的性别4、5 或种族8 差异。Hernández 等人进行的研究发现,即使在按性别或 APOE4 基因型分层后,LOAD 患者和对照组的 LINE-1 甲基化也没有显著差异。4 此外,Salcedo-Tacuma 等人在 LOAD 患者的 BIN1 基因处发现 3 个 CpG 的 DNAm 水平显著降低。5 2019 年,Pathak 等人在表观全基因组关联研究 (EWAS) 中报道了 MCI 个体的差异甲基化 CpG。这些发现与神经元死亡、代谢功能障碍和炎症有关。7 2021 年,Coto-Vílchez 等人比较了 Horvath 的表观遗传时钟 DNAm 图谱以测量生物衰老。LOAD 患者和对照组的平均表观遗传年龄均比实际年龄小 20 岁。 此外,他们还在研究组中确定了 PM20D1 的差异甲基化区域。6 最后,Abraham Daniel 等人分析了非西班牙裔白人和 MA 的种族特异性 DNAm 谱,确定了 MA 参与者中与 MCI 和 AD 相关的 CREBBP 基因的显着差异甲基化。8 这些发现与先前来自其他人群的证据基本一致,表明与痴呆或认知受损相关的独特 DNAm 模式,尽管在差异表观遗传衰老方面仍然存在一些矛盾。此外,它们还提供证据表明遗传祖先会影响 DNAm 模式。总体而言,这些研究的局限性包括样本量有限,4-7 功能解释(如基因表达)的随访数据有限,以及使用外周血来源的甲基化生物标志物,而它们可能无法反映痴呆的大脑特异性改变。不幸的是,没有一篇综述文章研究组蛋白修饰。

TABLE 1. Characteristics of the selected studies
 作者和年份

 紫胶

 人口

 样本量
检查表观遗传学测量
 结局测量
 Hernández 等人,2013 年  哥伦比亚
28 个 LOAD 和 30 个控件。按性别和 ApoE4 等位基因分层。

整体 DNAm 甲基化 (MS-HRM)

LINE-1 基因无显著差异甲基化。

Salcedo-Tacuma等人,2019 年
 哥伦比亚
50 个 LOAD 和 50 个控件。按年龄、性别和 ApoE4 等位基因分层。

候选基因(亚硫酸氢盐转化和 PCR)

LOAD 患者在 BIN1 基因的 3 个 CpG 处显示 DNAm 显著降低: CpG26 、 CpG44 和 CpG87。
 Pathak 等人,2019 年  墨西哥裔美国人
45 个 MCI 和 45 个对照。MA 具有较高的代谢风险评分、较少的受教育年限和 ApoE4 等位基因的频率较低。
EWAS (Infinium MethylationEPIC BeadChip)


与对照组相比,MCI 受试者的四个 CpG 位点显着低甲基化:cg25016219(KLHL29 基因)、cg26479998(SEPT9 基因)、cg02586267(未定位)和 cg18978297(CPLX3 基因)。


与对照组相比,MCI 受试者中有 6 个 CpG 位点显著高甲基化:cg22360048 (PKIB 基因)、cg20904111 (基因间)、cg05917713 (BCL2L2-PABPN1 基因)、cg20201669 (OR2C3 基因)、cg14179796 (CCNY 基因)、cg22327037 (基因间)。


Coto-Vílchez等人,2021 年
 哥斯达黎加
11 个 LOAD 和 21 个控件。所有女性参与者都超过 90 岁,教育背景从 0 岁到 9 岁不等。

EWAS (Infinium MethylationEPIC BeadChip) 和 Horvath 的表观遗传时钟


LOAD 患者和对照组的表观遗传年龄比实际年龄小 20 岁。


rs708727 杂合子 (AG) 个体的 PM20D1 基因甲基化显著高于 GG 基因型个体。


亚伯拉罕·丹尼尔等人,2023 年
 墨西哥裔美国人
122 个 AD/MCI 和 177 个对照。按性别、年龄、受教育年限和 ApoE4 等位基因分层
EWAS (Infinium MethylationEPIC BeadChip)
与对照组相比,认知障碍参与者 (AD/MCI) 在 CREBBP (cg13135255) 处的 CpG 位点显著高甲基化。

  • :对于痴呆,使用的搜索词是:“阿尔茨海默病”、“AD”、“痴呆”、“额颞叶痴呆”、“FTD”、“额颞叶变性”、“apoliprotein e”和“ApoE”。对于表观遗传学,使用的术语包括:“表观遗传学”、“表观基因组学”、“DNA 甲基化”、“组蛋白修饰”、“表观基因组范围关联研究”和“EWAS”。国家/地区特定术语包括拉丁美洲和加勒比地区 (LAC) 内所有国家/地区的名称。

  • 缩写:DNAm、DNA 甲基化;EWAS,表观基因组范围关联研究;LOAD,迟发性阿尔茨海默病;MCI,轻度认知障碍;MS-HRM,甲基化敏感的高分辨率熔解。


尽管已确定的研究数量有限,但纽卡斯尔-渥太华量表(6 至 8 分)对它们的积极质量评估表明,在进行有意义的研究和为该地区痴呆的表观遗传景观提供有价值的见解方面具有相当大的潜力。鉴于稀缺但令人鼓舞的证据,必须进一步努力解开痴呆的 LAC 特异性表观遗传生物标志物。我们倡导协调和系统的共同努力,以指导与该地区背景相关的未来研究。


总之,我们呼吁采取行动解决 LAC 表观遗传学-痴呆研究的差距,方法是:

  1. 刺激当地的表观遗传学研究并利用联盟进行痴呆研究,如 ReDLat、LAC-CD 或 UNITED Consortium,9, 10 以加强研究之间的合作、跨学科和协调。


  2. 评估该地区的研究前景,以确定差距、优势、局限性和机会。这些知识将有助于规划该领域的进一步工作。


  3. 通过量身定制的培训和资助机会赋予 LAC 研究人员权力,从而加强当地研究能力。


我们相信这些努力对于理解基因 - 环境相互作用在 LAC 痴呆发展中的作用至关重要。

更新日期:2024-11-13
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