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MYLK c.4079G>A, p.(Gly1360Asp) Variant Associated With Hereditary Thoracic Aortic Diseases and Early Onset Aortic Dissection. 遗传性胸主动脉疾病与早发性主动脉夹层相关的Gly1360Asp基因变异。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-18 DOI: 10.1111/ahg.70064
Minja Virtanen, Sini Keskinen, Rikhard Björn, Minna Paavola, Pia Pohjola, Marja Hietala, Maria K Haanpää, Markus Malmberg, Elisa Rahikkala

Aims: Thoracic aortic aneurysms and dissections are major causes of sudden cardiovascular death. We aimed to evaluate the clinical significance of the MYLK c.4079G>A, p.(Gly1360Asp) variant in Finnish families with heritable thoracic aortic disease (HTAD) and to assess evidence for a potential founder effect.

Methods: We evaluated the clinical significance and potential founder effect of the missense variant MYLK c.4079G>A, p.(Gly1360Asp) in Finnish families. Eight individuals from four unrelated Finnish families carrying the MYLK c.4079G>A heterozygous variant were recruited. Clinical histories, imaging data, and pedigrees were reviewed. Genetic testing included exome‑based gene panel sequencing or targeted familial variant testing. Variant classification followed the American College of Medical Genetics and Genomics 2015 guidelines.

Results: Thoracic aortic dilatation or aneurysm occurred in 6/8 carriers (75%), with a mean age at diagnosis of 45 years (range 34-67). Ascending aortic diameters ranged from 26-59 mm, most often measured at the aortic root. Aortic dissection occurred in 4/8 (50%) at a mean age of 46 years (range 34-68), including three early‑adult events. Extrathoracic arterial involvement (carotid) was observed in one variant‑positive individual.

Conclusion: The MYLK c.4079G>A, p.(Gly1360Asp) variant was present in six affected individuals from four unrelated families and is enriched in the Finnish population, supporting a founder effect. The MYLK c.4079G>A, p.(Gly1360Asp) variant is associated with early‑adult‑onset, high‑penetrance thoracic aortic disease and substantial dissection risk, underscoring the need for vigilant surveillance and early intervention in affected individuals and at‑risk relatives.

目的:胸主动脉瘤和夹层是心血管性猝死的主要原因。我们的目的是评估MYLK c.4079G>A, p.(Gly1360Asp)变异在芬兰遗传性胸主动脉疾病(HTAD)家族中的临床意义,并评估潜在始发效应的证据。方法:我们评估芬兰家庭中错义变异MYLK c.4079G>A, p.(Gly1360Asp)的临床意义和潜在的奠基者效应。来自四个不相关的芬兰家庭的8个携带MYLK c.4079G>A杂合变异的个体被招募。我们回顾了临床病史、影像学资料和家系。基因检测包括基于外显子组的基因面板测序或靶向家族变异检测。变异分类遵循美国医学遗传学和基因组学学院2015年指南。结果:6/8(75%)的携带者发生胸主动脉扩张或动脉瘤,平均诊断年龄为45岁(范围34-67岁)。升主动脉直径从26-59毫米不等,最常在主动脉根部测量。4/8(50%)发生主动脉夹层,平均年龄46岁(范围34-68岁),包括3例成人早期事件。在1例变异阳性个体中观察到胸外动脉受累(颈动脉)。结论:MYLK c.4079G>A, p.(Gly1360Asp)变异存在于来自4个不相关家族的6个受影响个体中,并且在芬兰人群中丰富,支持创始人效应。MYLK c.4079G>A, p.(Gly1360Asp)变异与成人早期发病、高外显率胸主动脉疾病和大量夹层风险相关,这强调了对受影响个体和高危亲属进行警惕监测和早期干预的必要性。
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引用次数: 0
Evidence for Reduced Somatic T-Cell Receptor Sequence Diversity Profiles Among Midwestern Amish in an Aging Cohort Study. 衰老队列研究中中西部阿米什人体细胞t细胞受体序列多样性谱降低的证据。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-18 DOI: 10.1111/ahg.70063
Lauren A Cruz, Shiying Liu, Kristy L Miskimen, Jessica N Cooke Bailey, Tyler Kinzy, Yeunjoo E Song, Renee A Laux, Penelope Miron, Paula K Ogrocki, Alan J Lerner, Audrey Lynn, Sarada L Fuzzell, Sherri D Hochstetler, Ioanna Konidari, Jacob L McCauley, William K Scott, Margaret A Pericak-Vance, Jonathan L Haines, Dana C Crawford

Background: The causes of late onset Alzheimer disease (LOAD) are not known but several recent lines of evidence implicate the adaptive immune system.

Objective: To characterize the adaptive immune system among Midwestern Amish participating in longitudinal studies of aging.

Methods: We immunosequenced the T-cell receptor (TCR) beta chain from genomic DNA of 72 participants, including those with clinically diagnosed LOAD (n = 6), mild cognitive impairment (MCI; n = 16), cognitive impairment but not AD (n = 3), and 35 cognitively unaffected. For a subset of participants, LOAD pathogenesis plasma biomarkers were available.

Results: TCR sequence diversity measured as Simpson's clonality was lower among LOAD+MCI compared with non-LOAD, but these differences were not independent of age. Relatively few clonotypes (exact nucleotide sequences) were shared across participants; of those few shared include the Epstein Barr virus associated clonotype. HLA-A*03:01 and several HLA-DRB1 alleles were under-represented among LOAD+MCI participants compared with cognitively unaffected participants, but these associations were no longer significant in adjusted analyses. Among LOAD+MCI participants, increased p-tau181 was nominally associated with decreased TCR sequence diversity, and the nominal association was independent of age; however, this association did not remain statistically significant after strict correction for multiple testing and the limited sample size precluded formal tests of heterogeneity.

Results: In this limited Midwestern Amish sample, the preliminary TCR diversity trends are consistent with the involvement of the adaptive immune system in LOAD.

背景:迟发性阿尔茨海默病(LOAD)的病因尚不清楚,但最近的一些证据提示适应性免疫系统。目的:研究中西部阿米什人参与衰老纵向研究的适应性免疫系统特征。方法:我们对72名参与者的基因组DNA中的t细胞受体(TCR) β链进行了免疫测序,包括临床诊断为LOAD (n = 6),轻度认知障碍(MCI; n = 16),认知障碍但非AD (n = 3)和35名认知未受影响的参与者。对于一部分参与者,可获得LOAD发病机制血浆生物标志物。结果:与非LOAD组相比,LOAD+MCI组的TCR序列多样性(辛普森克隆)较低,但这些差异并非与年龄无关。相对较少的克隆型(确切的核苷酸序列)在参与者之间共享;其中少数共享的包括爱泼斯坦巴尔病毒相关克隆型。与认知未受影响的受试者相比,HLA-A*03:01和几个HLA-DRB1等位基因在LOAD+MCI受试者中代表性不足,但这些关联在调整后的分析中不再显著。在LOAD+MCI参与者中,p-tau181的增加与TCR序列多样性的减少名义上相关,并且名义上的关联与年龄无关;然而,经过多次检验的严格校正,这种关联在统计上并不显著,而且有限的样本量排除了异质性的正式检验。结果:在这个有限的中西部阿米什样本中,初步的TCR多样性趋势与适应性免疫系统参与LOAD一致。
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引用次数: 0
Population-Level Nucleotide Diversity and Genetic Differentiation at SOD1 Across Global Human Populations 全球人群中SOD1的群体水平核苷酸多样性和遗传分化。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-08-17 DOI: 10.1111/ahg.70052
Sergio V. Flores, Patricia Lillo, Jorge Briceño-Moya

Background

The SOD1 gene encodes superoxide dismutase 1, an antioxidant enzyme in which pathogenic variants cause a subset of amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD). Although the clinical and molecular consequences of SOD1 variants are well established, its locus-wide population genetic architecture has not been systematically characterized across global populations.

Objective

To characterize patterns of genetic diversity, population differentiation, and evolutionary constraint across the SOD1 locus in worldwide human populations.

Methods

We analyzed genomic variation spanning the SOD1 region in the five continental populations of the 1000 Genomes Project. Nucleotide diversity (π), fixation index (FST), and allele frequency distributions were estimated using sliding-window analyses. Bootstrap resampling was used to compare diversity within and outside the coding region. Recent positive selection was assessed using XP-nSL, and codon-based evolutionary analyses were performed using primate SOD1 orthologs.

Results

The coding region consistently exhibited a twofold to threefold reduction in nucleotide diversity relative to adjacent genomic sequences across all populations. Bootstrap analyses confirmed significantly lower diversity within the locus than in flanking regions (p < 0.05 in all populations). Population differentiation was low (mean FST ≈ 0.03) and showed no pronounced peaks within the coding interval, whereas allele frequency distributions were broadly similar across continental populations. XP-nSL analyses detected no evidence of population-specific recent selective sweeps. Codon-based analyses identified only 31 variable codons among 155 analyzed positions, six codons under negative selection, and no evidence of positive selection.

Conclusion

The SOD1 locus exhibits reduced standing genetic variation, limited continental differentiation, and strong evolutionary conservation, consistent with sustained functional constraint. These findings provide a comprehensive population genetic framework for interpreting genetic variation at this medically important locus.

背景:SOD1基因编码超氧化物歧化酶1,这是一种抗氧化酶,其致病变异导致肌萎缩侧索硬化症(ALS)和额颞叶痴呆(FTD)的一个子集。尽管SOD1变异的临床和分子后果已经很好地确定,但其全基因座的群体遗传结构尚未在全球人群中系统地表征。目的:研究人类SOD1位点的遗传多样性、群体分化和进化约束模式。方法:我们分析了1000人基因组计划中5个大陆种群中跨越SOD1区域的基因组变异。核苷酸多样性(π)、固定指数(FST)和等位基因频率分布使用滑动窗口分析估计。采用自举重采样比较编码区内外的多样性。使用XP-nSL评估最近的阳性选择,并使用灵长类SOD1同源物进行基于密码子的进化分析。结果:在所有人群中,与相邻基因组序列相比,编码区始终表现出两到三倍的核苷酸多样性减少。Bootstrap分析证实,位点内的多样性显著低于侧翼区域(p < 0.05)。种群分化程度较低(平均FST≈0.03),在编码区间内没有明显的峰值,而等位基因频率分布在大陆种群之间大致相似。XP-nSL分析没有发现最近有特定种群选择性扫射的证据。基于密码子的分析在155个分析位置中仅鉴定出31个可变密码子,6个密码子存在负选择,没有证据表明存在正选择。结论:SOD1位点表现出较低的常设遗传变异、有限的大陆分化和较强的进化保守性,符合持续的功能约束。这些发现为解释这一医学上重要位点的遗传变异提供了一个全面的群体遗传框架。
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引用次数: 0
Exome Sequencing Identifies Novel Variants Causing Hearing Loss in Three Consanguineous Pakistani Families: Insights From Genomics and Bioinformatics Analyses 外显子组测序鉴定了导致三个巴基斯坦近亲家庭听力损失的新变异:来自基因组学和生物信息学分析的见解。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-09-21 DOI: 10.1111/ahg.70061
Zafar Ali, Najeeb Ullah, Muneeba Bibi, Sania Fawad, Sana Khan, Mansoor Ali, Irum Hassan, Sana Fazal, Fazal Akbar, Shahid Baig, Niklas Dahl

Background

Hearing impairment is a genetically heterogeneous disorder and represents a significant health concern, particularly in consanguineous populations where autosomal recessive forms are more prevalent. Pakistani families provide an important population for investigating the genetic basis of hereditary hearing impairment.

Objective

The current study was aimed to elucidate the genetic basis of hearing impairment in consanguineous Pakistani families.

Material and Methods

Three consanguineous Pakistani families comprising 11 affected individuals presenting bilateral profound hearing loss were investigated using Exome Sequencing (ES). Sanger sequencing was used for segregation analysis of candidate variant(s) in each pedigree. Structural modeling of both wild-type and mutant proteins were performed using bioinformatic tools to assess the functional impact of candidate variants.

Results

ES data analysis revealed homozygous missense variants in MSRB3 (c.244T>G; p.Cys82Gly), ESRP1 (c.353T>C; p.Leu118Pro) and TMC1 (c.1749C>G; p.Asn583Lys) in family 1, 2, and 3 respectively. These variants are predicted to be “deleterious” by multiple bioinformatic tools, affecting highly conserved residues of candidate protein, and are absent in homozygous form in public databases. Sanger sequencing validated the co-segregation of the candidate variants within their respective families. Structural modeling of the wild-type and mutant proteins predicted that the candidate variants lead to structural alterations that strengthens the evidence supporting their pathogenicity.

Conclusion

This study expands the mutational spectrum of MSRB3, ESRP1 and TMC1 genes associated with hearing loss. Furthermore, carrier screening and genetic counselling can be developed for affected families based on the findings obtained from the current study. The data obtained may also enhance our understanding of the pathophysiology of hearing loss ultimately guiding us in the development of potential therapeutics.

背景:听力障碍是一种遗传异质性疾病,是一个重要的健康问题,特别是在常染色体隐性形式更为普遍的近亲人群中。巴基斯坦家庭为研究遗传性听力障碍的遗传基础提供了重要的人群。目的:本研究旨在阐明巴基斯坦近亲家庭中听力障碍的遗传基础。材料和方法:使用外显子组测序(ES)对3个近亲巴基斯坦家庭11名双侧重度听力损失患者进行调查。采用Sanger测序对每个家系的候选变异进行分离分析。使用生物信息学工具对野生型和突变型蛋白进行结构建模,以评估候选变体的功能影响。结果:ES数据分析显示,在家族1、2、3中分别存在MSRB3 (C . 244t >G; p.Cys82Gly)、ESRP1 (C . 353t >C; p.Leu118Pro)和TMC1 (C . 1749c >G; p.Asn583Lys)纯合错义变异。多种生物信息学工具预测这些变异是“有害的”,影响候选蛋白的高度保守残基,并且在公共数据库中不存在纯合形式。Sanger测序验证了候选变异在各自家族中的共分离。野生型和突变蛋白的结构建模预测,候选变异体导致结构改变,这加强了支持其致病性的证据。结论:本研究扩大了与听力损失相关的MSRB3、ESRP1和TMC1基因的突变谱。此外,根据目前的研究结果,可以为受影响的家庭开发携带者筛查和遗传咨询。获得的数据也可以增强我们对听力损失病理生理学的理解,最终指导我们开发潜在的治疗方法。
{"title":"Exome Sequencing Identifies Novel Variants Causing Hearing Loss in Three Consanguineous Pakistani Families: Insights From Genomics and Bioinformatics Analyses","authors":"Zafar Ali,&nbsp;Najeeb Ullah,&nbsp;Muneeba Bibi,&nbsp;Sania Fawad,&nbsp;Sana Khan,&nbsp;Mansoor Ali,&nbsp;Irum Hassan,&nbsp;Sana Fazal,&nbsp;Fazal Akbar,&nbsp;Shahid Baig,&nbsp;Niklas Dahl","doi":"10.1111/ahg.70061","DOIUrl":"10.1111/ahg.70061","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Background</h3>\u0000 \u0000 <p>Hearing impairment is a genetically heterogeneous disorder and represents a significant health concern, particularly in consanguineous populations where autosomal recessive forms are more prevalent. Pakistani families provide an important population for investigating the genetic basis of hereditary hearing impairment.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Objective</h3>\u0000 \u0000 <p>The current study was aimed to elucidate the genetic basis of hearing impairment in consanguineous Pakistani families.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Material and Methods</h3>\u0000 \u0000 <p>Three consanguineous Pakistani families comprising 11 affected individuals presenting bilateral profound hearing loss were investigated using Exome Sequencing (ES). Sanger sequencing was used for segregation analysis of candidate variant(s) in each pedigree. Structural modeling of both wild-type and mutant proteins were performed using bioinformatic tools to assess the functional impact of candidate variants.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>ES data analysis revealed homozygous missense variants in <i>MSRB3</i> (c.244T&gt;G; p.Cys82Gly), <i>ESRP1</i> (c.353T&gt;C; p.Leu118Pro) and <i>TMC1</i> (c.1749C&gt;G; p.Asn583Lys) in family 1, 2, and 3 respectively. These variants are predicted to be “deleterious” by multiple bioinformatic tools, affecting highly conserved residues of candidate protein, and are absent in homozygous form in public databases. Sanger sequencing validated the co-segregation of the candidate variants within their respective families. Structural modeling of the wild-type and mutant proteins predicted that the candidate variants lead to structural alterations that strengthens the evidence supporting their pathogenicity.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>This study expands the mutational spectrum of <i>MSRB3</i>, <i>ESRP1</i> and <i>TMC1</i> genes associated with hearing loss. Furthermore, carrier screening and genetic counselling can be developed for affected families based on the findings obtained from the current study. The data obtained may also enhance our understanding of the pathophysiology of hearing loss ultimately guiding us in the development of potential therapeutics.</p>\u0000 </section>\u0000 </div>","PeriodicalId":8085,"journal":{"name":"Annals of Human Genetics","volume":"90 6","pages":"357-365"},"PeriodicalIF":1.5,"publicationDate":"2026-10-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149015287","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Trans-Ancestry Psychiatric Genomics in Admixed Populations: Advances, Challenges, and Future Directions 混合人群的跨祖先精神基因组学:进展、挑战和未来方向。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-07-26 DOI: 10.1111/ahg.70048
Sergio Flores Carrasco, Ángel Roco-Videla, Jorge Briceño-Moya, Román Montaña

Background

Early genome-wide association studies (GWAS) of psychiatric disorders were conducted predominantly in European populations, limiting the understanding of genetic architecture across ancestries.

Objectives

To summarize current evidence on shared and ancestry-specific genetic architecture in major psychiatric disorders.

Methods

We reviewed findings from multi-ancestry GWAS, trans-ancestral meta-analyses, fine-mapping, polygenic risk score, and local ancestry studies.

Results

Common-variant liability is largely shared across ancestries, with high genetic correlations and overlapping biological pathways. However, locus transferability, fine-mapping resolution, and polygenic score performance differ because of variation in linkage disequilibrium, allele frequencies, environmental exposures, and local ancestry. Rare and structural variants further contribute to ancestry-specific risk.

Conclusions

Psychiatric disorders are characterized by a shared polygenic substrate embedded within ancestry-specific genomic architecture and context-dependent penetrance. Future studies should integrate diverse and admixed populations to improve biological discovery and equitable clinical translation.

背景:精神疾病的早期全基因组关联研究(GWAS)主要在欧洲人群中进行,限制了对祖先遗传结构的理解。目的:总结目前关于主要精神疾病的共享和祖先特异性遗传结构的证据。方法:我们回顾了多祖先GWAS、跨祖先荟萃分析、精细制图、多基因风险评分和本地祖先研究的结果。结果:共同变异在很大程度上是跨祖先共享的,具有高度的遗传相关性和重叠的生物学途径。然而,由于连锁不平衡、等位基因频率、环境暴露和当地祖先的差异,基因座可转移性、精细定位分辨率和多基因评分表现存在差异。罕见和结构性变异进一步增加了特定于祖先的风险。结论:精神疾病的特征是嵌入在特定祖先基因组结构和上下文相关外显率中的共享多基因底物。未来的研究应整合多样化和混合人群,以改善生物学发现和公平的临床转化。
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引用次数: 0
Correction to “Evidence of a Protective Effect of Metformin on Abdominal Aortic Aneurysm Risk: Insights from an Observational Study and Mendelian Randomisation Analysis Using Putative Metformin Targets” 修正了“二甲双胍对腹主动脉瘤风险保护作用的证据:来自一项观察性研究和使用假定二甲双胍靶点的孟德尔随机化分析的见解”。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-09-10 DOI: 10.1111/ahg.70059

Saxby, K. L., S. Stoma, F. Dudbridge, N. J. Samani, M. J. Bown, and C. P. Nelson. 2026. “Evidence of a Protective Effect of Metformin on Abdominal Aortic Aneurysm Risk: Insights From an Observational Study and Mendelian Randomisation Analysis Using Putative Metformin Targets.” Annals of Human Genetics 90, no. 5: 294–302. https://doi.org/10.1111/ahg.70049

In the funding acknowledgement section, the grant reference for the British Heart Foundation Leicester Centre of Research Excellence was stated as being [RE/34/130031]. This grant reference number is incorrect and should be RE/24/130031.

We apologize for this error.

萨克森比,k.l, S. Stoma, F. Dudbridge, N. J. Samani, M. J. Bown, C. P. Nelson. 2026。“二甲双胍对腹主动脉瘤风险保护作用的证据:来自一项观察性研究和使用假定二甲双胍靶点的孟德尔随机化分析的见解。”《人类遗传学年鉴》90期,第1期。5: 294 - 302。英国心脏基金会莱斯特卓越研究中心的资助参考号为[RE/34/130031]。这个拨款参考编号不正确,应该是RE/24/130031。我们为这个错误道歉。
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引用次数: 0
Genetic Diversity and Historical Divergence of Malays and Indigenous Populations in Peninsular Malaysia and Northern Borneo 马来西亚半岛和北婆罗洲马来人与土著人口的遗传多样性和历史差异。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-03-24 DOI: 10.1111/ahg.70036
Woei-Yuh Saw, Chee Wei Yew, Thuhairah Abdul Rahman, Mohammad Zahirul Hoque, Shuhua Xu, Chiea-Chuen Khor, Vijay Kumar Subbiah, Yik-Ying Teo, Boon-Peng Hoh

Previous studies have highlighted significant genetic structure among Southeast Asian populations, with Northern Borneo natives closely related to Austronesians from Taiwan and the Philippines, and Peninsular Malaysia indigenous populations potentially linked to the indigenous Andamanese. In this study, we analyzed 96 genomes from indigenous populations in Peninsular Malaysia, genotyped with approximately 2 million genome-wide autosomal SNPs, alongside datasets from Singapore cosmopolitan Malays and five native populations from Sabah, Northern Borneo. Our findings reveal distinct genetic structures between indigenous populations and Malays, despite their shared habitat. The Malays exhibit substantial admixture with East Asian, Austronesian, and indigenous Peninsular Malaysian ancestral components. Indigenous populations showed lower within-population diversity and longer linkage disequilibrium compared to benchmark populations. Estimated divergence times suggest that the Semang represent an earlier branching population (∼10,000 years ago), followed by Northern Borneo natives (∼7,600–6,H800 years ago), with Malays diverging more recently. These results support a scenario of successive migration waves into Southeast Asia, providing insights into the genetic history and population structure of the region.

先前的研究强调了东南亚人群中重要的遗传结构,北婆罗洲土著与来自台湾和菲律宾的南岛人密切相关,马来西亚半岛土著人口可能与土著安达曼人有关。在这项研究中,我们分析了来自马来西亚半岛土著人群的96个基因组,并对大约200万个全基因组常染色体snp进行了基因分型,同时分析了来自新加坡国际马来人和来自北婆罗洲沙巴的5个土著人群的数据集。我们的发现揭示了土著居民和马来人之间不同的基因结构,尽管他们共享栖息地。马来人表现出与东亚人、南岛人和马来西亚半岛土著祖先的大量混合。与基准种群相比,土著种群表现出较低的种群内多样性和较长的连锁不平衡。估计的分化时间表明,Semang人代表了一个更早的分支人群(约1万年前),其次是北婆罗洲土著(约7600 - 6800年前),马来人更晚分化。这些结果支持了东南亚连续移民浪潮的设想,为该地区的遗传历史和人口结构提供了见解。
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引用次数: 0
Ancestry-Stratified Variant Classification in Monogenic Diabetes Genes: Annotation Coverage and Differential Curation Burden 单基因糖尿病基因的祖先分层变异分类:注释覆盖范围和差异管理负担。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-10-07 Epub Date: 2026-08-23 DOI: 10.1111/ahg.70054
Paulo Dario

Background

Variant databases ClinVar and gnomAD underpin clinical variant interpretation, but their composition is skewed toward European ancestry. Whether this produces systematic disadvantages for non-European patients with monogenic diabetes has not been examined at the database level with mutually exclusive ancestry groups.

Objective

To quantify ClinVar annotation coverage and ancestry-stratified classification outcomes across monogenic diabetes genes, using mutually exclusive population-private variant groups.

Methods

gnomAD v4.0 (genomes and exomes; 807,162 individuals) was cross-referenced with the ClinVar GRCh38 record (accessed June 29, 2026) for 16 monogenic diabetes (maturity-onset diabetes of the young [MODY]) genes, and variants were classified as population-private to European or non-European ancestry from ancestry-specific allele counts.

Results

Across 54,865 gnomAD variants, 86.7% carried no ClinVar classification. The annotation gap was near-universal rather than ancestry-specific (unannotated fraction 89.4% European-private, 87.5% non-European-private). Among classified population-private variants, however, the pathogenic or likely pathogenic rate was 19.8% for European-private but only 8.6% for non-European-private variants (Fisher exact OR 2.6, 95% CI 2.1–3.3, p = 1 × 10−18), with a higher uncertain-significance rate in non-European-private variants (52.1% vs. 45.8%).

Conclusion

The dominant problem is therefore an annotation deficit affecting all ancestries; the ancestry inequity the data support is one of actionability, not of raw uncertain-significance rates. Closing it requires ClinVar submissions and population-specific sequencing from underrepresented populations.

背景:变异数据库ClinVar和gnomAD支持临床变异解释,但它们的组成倾向于欧洲血统。这是否会对非欧洲的单基因糖尿病患者产生系统性的不利影响,目前还没有在数据库水平上对相互排斥的祖先群体进行研究。目的:使用互斥的群体私有变异组,量化ClinVar注释覆盖范围和单基因糖尿病基因的祖先分层分类结果。方法:将gnomAD v4.0(基因组和外显子组;807,162人)与ClinVar GRCh38记录(于2026年6月29日访问)交叉引用16个单基因糖尿病(年轻人的成熟型糖尿病[MODY])基因,并根据祖先特异性等位基因计数将变异分类为欧洲或非欧洲血统的人群私有基因。结果:在54,865个gnomAD变体中,86.7%没有ClinVar分类。注释差距几乎是普遍的,而不是特定于祖先的(未注释的比例为89.4%的欧洲人私人,87.5%的非欧洲人私人)。然而,在分类的人群私人变异中,欧洲人私人变异的致病性或可能致病性为19.8%,而非欧洲人私人变异的致病性或可能致病性仅为8.6% (Fisher精确or 2.6, 95% CI 2.1-3.3, p = 1 × 10- 18),非欧洲人私人变异的不确定显著性率更高(52.1%对45.8%)。结论:因此,主要问题是影响所有祖先的注释缺失;数据支持的祖先不平等是一种可操作性,而不是原始的不确定显著性率。完成它需要ClinVar的提交和来自代表性不足的人群的特定人群测序。
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引用次数: 0
Report on the 29th Human Genome Meeting: 'Bringing Our Genomes to Medicine'. 第29届人类基因组会议报告:“将我们的基因组带入医学”。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-09-29 DOI: 10.1111/ahg.70060
Laith Gergi, Rosemary Ekong
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引用次数: 0
What Uniparental Lineages Tell Us About the Prehistoric Human Colonization of the Americas. 单系血统告诉我们史前人类在美洲的殖民。
IF 1.5 4区 生物学 Q4 GENETICS & HEREDITY Pub Date : 2026-09-11 DOI: 10.1111/ahg.70053
Vicente M Cabrera

Objectives: From the perspective of uniparental markers, the view of the human prehistoric settlement of America is that it resulted from a single main migration after the Last Glacial Maximum, following a long or short period of genetic isolation in Beringia. Ancient DNA and whole genome analyses have confirmed this view. My objective here is to demonstrate that humans entered America before the LGM and that the documented post-LGM expansions began in South instead of North America.

Methods: In this work, I have reanalyzed all publicly available mitochondrial DNA and Y-chromosome haplogroups in the American population using simple phylogenetic and phylogeographic methodologies.

Results: The arrival of the American settlers occurred more than 30,000 years ago, preceding the LGM. As genomic studies have uncovered, at least two Asian populations contributed to the ancestry of the immigrant population. Low population density and climatic deterioration led to a long period of demographic eclipse, during which small bands of hunter-gatherers made long journeys in search of favorable niches. After the LGM, the climate improved, and demographic expansions occurred in multiple independent centers. The founding and expansion ages of the uniparental haplogroups indicate that these centers were in South America, particularly the Colombian isthmus, the Andean region, the Southern Cone, and the Amazon. Subsequent dispersals occurred in North America, one involving mitochondrial haplogroups A2, C1, and D1, but not B2, and another, of lesser magnitude, represented by the expansion of haplogroups C4c and X2a.

Conclusion: This work offers a previously unexplored model for the colonization of the Americas.

目的:从单代标记的角度来看,史前人类在美洲定居的观点是,在末次盛冰期之后,在白令陆桥经历了一段或长或短的遗传隔离期后,由一次主要的迁徙造成的。古代DNA和全基因组分析证实了这一观点。我在这里的目的是证明人类在LGM之前就进入了美洲,并且有记载的LGM之后的扩张开始于南方而不是北美。方法:在这项工作中,我使用简单的系统发育和系统地理方法重新分析了美国人群中所有公开可用的线粒体DNA和y染色体单倍群。结果:美洲定居者的到来发生在3万多年前,早于LGM。正如基因组研究所揭示的那样,至少有两个亚洲人群对移民人口的祖先做出了贡献。低人口密度和气候恶化导致了长期的人口衰退,在此期间,一小群狩猎采集者长途跋涉寻找有利的生态位。在LGM之后,气候有所改善,多个独立中心出现了人口扩张。单倍群的建立和扩张时代表明,这些中心在南美洲,特别是哥伦比亚地峡、安第斯地区、南锥体和亚马逊地区。随后的扩散发生在北美,一次涉及线粒体单倍群A2、C1和D1,但不包括B2,另一次规模较小,以单倍群C4c和X2a的扩张为代表。结论:这项工作为美洲的殖民化提供了一个以前未被探索的模型。
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引用次数: 0
期刊
Annals of Human Genetics
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