АвторТема: New native South American Y chromosome lineages  (Прочитано 1757 раз)

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New native South American Y chromosome lineages
« : 01 Апрель 2016, 07:53:37 »
Еще одна статья по гаплогруппе Q-M3 и Q-L54* американских индейцев.

http://www.nature.com/jhg/journal/vaop/ncurrent/full/jhg201626a.html

New native South American Y chromosome lineages

Many single-nucleotide polymorphisms (SNPs) in the non-recombining region of the human Y chromosome have been described in the last decade. High-coverage sequencing has helped to characterize new SNPs, which has in turn increased the level of detail in paternal phylogenies. However, these paternal lineages still provide insufficient information on population history and demography, especially for Native Americans. The present study aimed to identify informative paternal sublineages derived from the main founder lineage of the Americas—haplogroup Q-L54—in a sample of 1841 native South Americans. For this purpose, we used a Y-chromosomal genotyping multiplex platform and conventional genotyping methods to validate 34 new SNPs that were identified in the present study by sequencing, together with many Y-SNPs previously described in the literature. We updated the haplogroup Q phylogeny and identified two new Q-M3 and three new Q-L54*(xM3) sublineages defined by five informative SNPs, designated SA04, SA05, SA02, SA03 and SA29. Within the Q-M3, sublineage Q-SA04 was mostly found in individuals from ethnic groups belonging to the Tukanoan linguistic family in the northwest Amazon, whereas sublineage Q-SA05 was found in Peruvian and Bolivian Amazon ethnic groups. Within Q-L54*, the derived sublineages Q-SA03 and Q-SA02 were exclusively found among Coyaima individuals (Cariban linguistic family) from Colombia, while Q-SA29 was found only in Maxacali individuals (Jean linguistic family) from southeast Brazil. Furthermore, we validated the usefulness of several published SNPs among indigenous South Americans. This new Y chromosome haplogroup Q phylogeny offers an informative paternal genealogy to investigate the pre-Columbian history of South America.

Генетики продолжают считать TMRCA по "эволюционной" скорости мутаций 0.00069. Возраст гаплогруппы Q-M3 оценили в 26 тысяч лет назад. Печаль...

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Re: New native South American Y chromosome lineages
« Ответ #1 : 01 Апрель 2016, 15:00:47 »
Еще одна статья по гаплогруппе Q-M3 и Q-L54* американских индейцев.

http://www.nature.com/jhg/journal/vaop/ncurrent/full/jhg201626a.html

New native South American Y chromosome lineages

Many single-nucleotide polymorphisms (SNPs) in the non-recombining region of the human Y chromosome have been described in the last decade. High-coverage sequencing has helped to characterize new SNPs, which has in turn increased the level of detail in paternal phylogenies. However, these paternal lineages still provide insufficient information on population history and demography, especially for Native Americans. The present study aimed to identify informative paternal sublineages derived from the main founder lineage of the Americas—haplogroup Q-L54—in a sample of 1841 native South Americans. For this purpose, we used a Y-chromosomal genotyping multiplex platform and conventional genotyping methods to validate 34 new SNPs that were identified in the present study by sequencing, together with many Y-SNPs previously described in the literature. We updated the haplogroup Q phylogeny and identified two new Q-M3 and three new Q-L54*(xM3) sublineages defined by five informative SNPs, designated SA04, SA05, SA02, SA03 and SA29. Within the Q-M3, sublineage Q-SA04 was mostly found in individuals from ethnic groups belonging to the Tukanoan linguistic family in the northwest Amazon, whereas sublineage Q-SA05 was found in Peruvian and Bolivian Amazon ethnic groups. Within Q-L54*, the derived sublineages Q-SA03 and Q-SA02 were exclusively found among Coyaima individuals (Cariban linguistic family) from Colombia, while Q-SA29 was found only in Maxacali individuals (Jean linguistic family) from southeast Brazil. Furthermore, we validated the usefulness of several published SNPs among indigenous South Americans. This new Y chromosome haplogroup Q phylogeny offers an informative paternal genealogy to investigate the pre-Columbian history of South America.

Генетики продолжают считать TMRCA по "эволюционной" скорости мутаций 0.00069. Возраст гаплогруппы Q-M3 оценили в 26 тысяч лет назад. Печаль...

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Re: New native South American Y chromosome lineages
« Ответ #2 : 01 Апрель 2016, 15:46:58 »

БАМы есть? Или хотя бы позиции и замены по свежеобретенным снипам?
БАМов нет. Позиции новых снипов есть.

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Re: New native South American Y chromosome lineages
« Ответ #3 : 01 Апрель 2016, 17:36:07 »

БАМы есть? Или хотя бы позиции и замены по свежеобретенным снипам?
БАМов нет. Позиции новых снипов есть.

Письмо получил, большое спасибо!
Кстати,
1. мы как раз работаем над сниппаком Q Native Americans
2. создали одноменный проект на YFull
https://www.yfull.com/groups/native-americans/

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Re: New native South American Y chromosome lineages
« Ответ #4 : 03 Апрель 2016, 12:29:54 »
Проверил мои проекты на YFull, данные Karmin et al. 2015 и HGDP.
Вывод описанные авторами новые снипы SA04, SA05, SA02, SA03 и SA29 нигде не нашлись.
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Within the Q-M3, sublineage Q-SA04 was mostly found in individuals from ethnic groups belonging to the Tukanoan linguistic family in the northwest Amazon, whereas sublineage Q-SA05 was found in Peruvian and Bolivian Amazon ethnic groups. Within Q-L54*, the derived sublineages Q-SA03 and Q-SA02 were exclusively found among Coyaima individuals (Cariban linguistic family) from Colombia, while Q-SA29 was found only in Maxacali individuals (Jean linguistic family) from southeast Brazil.
Найдены снипы SA16-SA28 (в южноамериканских образцах, исследованных Karmin et al), но они расположены очень далеко от терминальных ветвей.


 

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