Human Genomic Diversity in Europe: A Summary of Human Genomic Diversity in Europe: A Summary of Recent Research and Prospects for the Future

1993 ◽  
Vol 1 (1) ◽  
pp. 3-18 ◽  
Author(s):  
L.L. Cavalli-Sforza ◽  
A. Piazza
2001 ◽  
Vol 311 (1) ◽  
pp. 17-40 ◽  
Author(s):  
Marion L Carroll ◽  
Astrid M Roy-Engel ◽  
Son V Nguyen ◽  
Abdel-Halim Salem ◽  
Erika Vogel ◽  
...  

2014 ◽  
Vol 29 ◽  
pp. 22-30 ◽  
Author(s):  
Vitor Sousa ◽  
Stephan Peischl ◽  
Laurent Excoffier

2021 ◽  
Author(s):  
Marie. Saitou ◽  
Naoki Masuda ◽  
Omer. Gokcumen

AbstractStructural variants have a considerable impact on human genomic diversity. However, their evolutionary history remains mostly unexplored. Here, we developed a new method to identify potentially adaptive structural variants based on a network-based analysis that incorporates genotype frequency data from 26 populations simultaneously. Using this method, we analyzed 57,629 structural variants and identified 577 structural variants that show high population distribution. We further showed that 39 and 20 of these putatively adaptive structural variants overlap with coding sequences or are significantly associated with GWAS traits, respectively. Closer inspection of the haplotypic variation associated with these putatively adaptive and functional structural variants reveals deviations from neutral expectations due to (i) population differentiation of rapidly evolving multi-allelic variants, (ii) incomplete sweeps, and (iii) recent population-specific negative selection. Overall, our study provides new methodological insights, documents hundreds of putatively adaptive variants, and introduces evolutionary models that may better explain the complex evolution of structural variants.


2019 ◽  
Vol 37 (4) ◽  
pp. 1041-1055 ◽  
Author(s):  
Candela L Hernández ◽  
Guillermo Pita ◽  
Bruno Cavadas ◽  
Saioa López ◽  
Luis J Sánchez-Martínez ◽  
...  

Abstract Throughout the past few years, a lively debate emerged about the timing and magnitude of the human migrations between the Iberian Peninsula and the Maghreb. Several pieces of evidence, including archaeological, anthropological, historical, and genetic data, have pointed to a complex and intermingled evolutionary history in the western Mediterranean area. To study to what extent connections across the Strait of Gibraltar and surrounding areas have shaped the present-day genomic diversity of its populations, we have performed a screening of 2.5 million single-nucleotide polymorphisms in 142 samples from southern Spain, southern Portugal, and Morocco. We built comprehensive data sets of the studied area and we implemented multistep bioinformatic approaches to assess population structure, demographic histories, and admixture dynamics. Both local and global ancestry inference showed an internal substructure in the Iberian Peninsula, mainly linked to a differential African ancestry. Western Iberia, from southern Portugal to Galicia, constituted an independent cluster within Iberia characterized by an enriched African genomic input. Migration time modeling showed recent historic dates for the admixture events occurring both in Iberia and in the North of Africa. However, an integrative vision of both paleogenomic and modern DNA data allowed us to detect chronological transitions and population turnovers that could be the result of transcontinental migrations dating back from Neolithic times. The present contribution aimed to fill the gaps in the modern human genomic record of a key geographic area, where the Mediterranean and the Atlantic come together.


Genetics ◽  
2001 ◽  
Vol 159 (1) ◽  
pp. 279-290 ◽  
Author(s):  
Astrid M Roy-Engel ◽  
Marion L Carroll ◽  
Erika Vogel ◽  
Randall K Garber ◽  
Son V Nguyen ◽  
...  

Abstract Genomic database mining has been a very useful aid in the identification and retrieval of recently integrated Alu elements from the human genome. We analyzed Alu elements retrieved from the GenBank database and identified two new Alu subfamilies, Alu Yb9 and Alu Yc2, and further characterized Yc1 subfamily members. Some members of each of the three subfamilies have inserted in the human genome so recently that about a one-third of the analyzed elements are polymorphic for the presence/absence of the Alu repeat in diverse human populations. These newly identified Alu insertion polymorphisms will serve as identical-by-descent genetic markers for the study of human evolution and forensics. Three previously classified Alu Y elements linked with disease belong to the Yc1 subfamily, supporting the retroposition potential of this subfamily and demonstrating that the Alu Y subfamily currently has a very low amplification rate in the human genome.


2018 ◽  
Vol 35 (9) ◽  
pp. 2284-2295 ◽  
Author(s):  
August E Woerner ◽  
Krishna R Veeramah ◽  
Joseph C Watkins ◽  
Michael F Hammer

2020 ◽  
Vol 8 (11) ◽  
pp. 1748
Author(s):  
Alena Pance

Over the last century, a great deal of effort and resources have been poured into the development of vaccines to protect against malaria, particularly targeting the most widely spread and deadly species of the human-infecting parasites: Plasmodium falciparum. Many of the known proteins the parasite uses to invade human cells have been tested as vaccine candidates. However, precisely because of the importance and immune visibility of these proteins, they tend to be very diverse, and in many cases redundant, which limits their efficacy in vaccine development. With the advent of genomics and constantly improving sequencing technologies, an increasingly clear picture is emerging of the vast genomic diversity of parasites from different geographic areas. This diversity is distributed throughout the genome and includes most of the vaccine candidates tested so far, playing an important role in the low efficacy achieved. Genomics is a powerful tool to search for genes that comply with the most desirable attributes of vaccine targets, allowing us to evaluate function, immunogenicity and also diversity in the worldwide parasite populations. Even predicting how this diversity might evolve and spread in the future becomes possible, and can inform novel vaccine efforts.


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