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Phylogeographic Refinement and Large Scale Genotyping of Human Y Chromosome Haplogroup E Provide New Insights into the Dispersal of Early Pastoralists in the African Continent.

Trombetta B, D'Atanasio E, Massaia A, Ippoliti M, Coppa A, Candilio F, Coia V, Russo G, Dugoujon JM, Moral P, Akar N, Sellitto D, Valesini G, Novelletto A, Scozzari R, Cruciani F - Genome Biol Evol (2015)

Bottom Line: To increase the level of resolution of haplogroup E, we disclosed the phylogenetic relationships among 729 mutations found in 33 haplogroup DE Y-chromosomes sequenced at high coverage in previous studies.The phylogeny of haplogroup E showed novel features compared with the previous topology, including a new basal dichotomy.In addition, our results increase the discriminative power of the E-M35 haplogroup for use in forensic genetics through the identification of new ancestry-informative markers.

View Article: PubMed Central - PubMed

Affiliation: Dipartimento di Biologia e Biotecnologie "C. Darwin," Sapienza Università di Roma, Italy.

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— MP tree of haplogroup E obtained with 729 variable positions. Above each branch are reported the haplogroup nomenclature used in the main text (in square brackets) and the number of mutational events defining each branch. Few internal key mutations are indicated as an aid to the reader. Dating estimates are reported in boxes near each node (the values on top and on bottom were obtained with BEAST and rho method, respectively). At the tip of each terminal branch, the haplogroup affiliation of the sequenced sample is reported, using a mutation-based nomenclature according to Trombetta et al. (2011). The ID of the samples from Complete Genomics is also indicated (in parentheses). Colored belts indicate major lineages.
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evv118-F1: — MP tree of haplogroup E obtained with 729 variable positions. Above each branch are reported the haplogroup nomenclature used in the main text (in square brackets) and the number of mutational events defining each branch. Few internal key mutations are indicated as an aid to the reader. Dating estimates are reported in boxes near each node (the values on top and on bottom were obtained with BEAST and rho method, respectively). At the tip of each terminal branch, the haplogroup affiliation of the sequenced sample is reported, using a mutation-based nomenclature according to Trombetta et al. (2011). The ID of the samples from Complete Genomics is also indicated (in parentheses). Colored belts indicate major lineages.

Mentions: We used the 729 haplogroup E DNA variants to reconstruct an MP patrilineal tree using two independent methods that produced trees with identical topology, and indicated no recurrent or double-hit mutations within the phylogeny. The MP tree is shown in figure 1.Fig. 1.


Phylogeographic Refinement and Large Scale Genotyping of Human Y Chromosome Haplogroup E Provide New Insights into the Dispersal of Early Pastoralists in the African Continent.

Trombetta B, D'Atanasio E, Massaia A, Ippoliti M, Coppa A, Candilio F, Coia V, Russo G, Dugoujon JM, Moral P, Akar N, Sellitto D, Valesini G, Novelletto A, Scozzari R, Cruciani F - Genome Biol Evol (2015)

— MP tree of haplogroup E obtained with 729 variable positions. Above each branch are reported the haplogroup nomenclature used in the main text (in square brackets) and the number of mutational events defining each branch. Few internal key mutations are indicated as an aid to the reader. Dating estimates are reported in boxes near each node (the values on top and on bottom were obtained with BEAST and rho method, respectively). At the tip of each terminal branch, the haplogroup affiliation of the sequenced sample is reported, using a mutation-based nomenclature according to Trombetta et al. (2011). The ID of the samples from Complete Genomics is also indicated (in parentheses). Colored belts indicate major lineages.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4524485&req=5

evv118-F1: — MP tree of haplogroup E obtained with 729 variable positions. Above each branch are reported the haplogroup nomenclature used in the main text (in square brackets) and the number of mutational events defining each branch. Few internal key mutations are indicated as an aid to the reader. Dating estimates are reported in boxes near each node (the values on top and on bottom were obtained with BEAST and rho method, respectively). At the tip of each terminal branch, the haplogroup affiliation of the sequenced sample is reported, using a mutation-based nomenclature according to Trombetta et al. (2011). The ID of the samples from Complete Genomics is also indicated (in parentheses). Colored belts indicate major lineages.
Mentions: We used the 729 haplogroup E DNA variants to reconstruct an MP patrilineal tree using two independent methods that produced trees with identical topology, and indicated no recurrent or double-hit mutations within the phylogeny. The MP tree is shown in figure 1.Fig. 1.

Bottom Line: To increase the level of resolution of haplogroup E, we disclosed the phylogenetic relationships among 729 mutations found in 33 haplogroup DE Y-chromosomes sequenced at high coverage in previous studies.The phylogeny of haplogroup E showed novel features compared with the previous topology, including a new basal dichotomy.In addition, our results increase the discriminative power of the E-M35 haplogroup for use in forensic genetics through the identification of new ancestry-informative markers.

View Article: PubMed Central - PubMed

Affiliation: Dipartimento di Biologia e Biotecnologie "C. Darwin," Sapienza Università di Roma, Italy.

Show MeSH