Ancient DNA study reveals HLA susceptibility locus for leprosy in medieval Europeans

Open access Ancient DNA study reveals HLA susceptibility locus for leprosy in medieval Europeans, by Krause-Kyora et al., Nature Communications (2018)

Abstract:

Leprosy, a chronic infectious disease caused by Mycobacterium leprae (M. leprae), was very common in Europe till the 16th century. Here, we perform an ancient DNA study on medieval skeletons from Denmark that show lesions specific for lepromatous leprosy (LL). First, we test the remains for M. leprae DNA to confirm the infection status of the individuals and to assess the bacterial diversity. We assemble 10 complete M. leprae genomes that all differ from each other. Second,

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Proto-Indo-European homeland south of the Caucasus?

User Camulogène Rix at Anthrogenica posted an interesting excerpt of Reich’s new book in a thread on ancient DNA studies in the news (emphasis mine):

Ancient DNA available from this time in Anatolia shows no evidence of steppe ancestry similar to that in the Yamnaya (although the evidence here is circumstantial as no ancient DNA from the Hittites themselves has yet been published). This suggests to me that the most likely location of the population that first spoke an Indo-European language was south of the Caucasus Mountains, perhaps in present-day Iran or Armenia, because ancient DNA from people who

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First Iberian R1b-DF27 sample, probably from incoming East Bell Beakers

I had some more time to read the paper by Valdiosera et al. (2018) and its supplementary material.

One of the main issues since the publication of Olalde et al. (2018) (and its hundreds of Bell Beaker samples) was the lack of a clear Y-DNA R1b-DF27 subclades among East Bell Beaker migrants, which left us wondering when the subclade entered the Iberian Peninsula, since it could have (theoretically) happened from the Chalcolithic to the Iron Age.

My prediction was that this lineage found today widespread among the Iberian population crossed the Pyrenees quite early, during the Chalcolithic, with … Read the rest “First Iberian R1b-DF27 sample, probably from incoming East Bell Beakers”

Language continuity despite population replacement in Remote Oceania

New article (behind paywall) Language continuity despite population replacement in Remote Oceania, by Posth et al., Nat. Ecol. Evol. (2018).

Abstract:

Recent genomic analyses show that the earliest peoples reaching Remote Oceania—associated with Austronesian-speaking Lapita culture—were almost completely East Asian, without detectable Papuan ancestry. However, Papuan-related genetic ancestry is found across present-day Pacific populations, indicating that peoples from Near Oceania have played a significant, but largely unknown, ancestral role. Here, new genome-wide data from 19 ancient South Pacific individuals provide direct evidence of a so-far undescribed Papuan expansion into Remote Oceania starting ~2,500 yr BP, far earlier than previously

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Consequences of O&M 2018 (I): The latest West Yamna “outlier”

This is the first of a series of posts analyzing the findings of the recent Nature papers Olalde et al.(2018) and Mathieson et al.(2018) (abbreviated O&M 2018).

As expected, the first Y-DNA haplogroup of a sample from the North Pontic region (apart from an indigenous European I2 subclade) during its domination by the Yamna culture is of haplogroup R1b-L23, and it is dated ca. 2890-2696 BC. More specifically, it is of Z2103 subclade, the main lineage found to date in Yamna samples. The site in question is Dereivka, “in the southern part of the middle … Read the rest “Consequences of O&M 2018 (I): The latest West Yamna “outlier””

Reactionary views on new Yamna and Bell Beaker data, and the newest IECWT model

You might expect some rambling about bad journalism here, but I don’t have time to read so much garbage to analyze them all. We have seen already what they did with the “blackness” or “whiteness” of the Cheddar Man: no paper published, just some informal data, but too much sensationalism already.

Some people who supported far-fetched theories on Indo-European migrations or common European haplogroups are today sharing some weeping and gnashing of teeth around forums and blogs – although, to be fair, neither Olalde et al. (2018) nor Mathieson et al. (2018) actually gave any surprising new data … Read the rest “Reactionary views on new Yamna and Bell Beaker data, and the newest IECWT model”

Ancestral heterogeneity of ancient Eurasians

Josif Lazaridis tweets about an interesting preprint at BioRxiv (eclipsed by today’s Nature papers), Ancestral heterogeneity of ancient Eurasians, by Daniel Shriner.

Abstract:

Supervised clustering or projection analysis is a staple technique in population genetic analysis. The utility of this technique depends critically on the reference panel. The most commonly used reference panel in the analysis of ancient DNA to date is based on the Human Origins array. We previously described a larger reference panel that captures more ancestries on the global level. Here, I reanalyzed DNA data from 279 ancient Eurasians using our reference panel, finding substantially

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Spatio-temporal deixis and cognitive models in early Indo-European

Interesting article, Spatio-temporal deixis and cognitive models in early Indo-European, by Annamaria Bartolotta, Cognitive Linguistics (2018); 29(1):1-44.

Abstract (emphasis mine):

This paper is a comparative study based on the linguistic evidence in Vedic Sanskrit and Homeric Greek, aimed at reconstructing the space-time cognitive models used in the Proto-Indo-European language in a diachronic perspective. While it has been widely recognized that ancient Indo-European languages construed earlier (and past) events as in front of later ones, as predicted in the Time-Reference-Point mapping, it is less clear how in the same languages the passage took place from this ‘archaic’ Time-RP model

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“How Asian nomadic herders built new Bronze Age cultures”

I recently wrote about a good informal summary of genomic research in 2017 for geneticists.

I found a more professional review article, How Asian nomadic herders built new Bronze Age cultures, by Bruce Bower, appeared in Science News (25th Nov. 2017).

NOTE: I know, I know, the Pontic-Caspian steppe is in East Europe, not Asia, but what can you do about people’s misconceptions regarding European geography? After all, the division is a conventional one, there are not many landmarks to divide Eurasia…

It refers to Kristiansen’s model, which we already know supports the expansion of IE … Read the rest ““How Asian nomadic herders built new Bronze Age cultures””