| 1. |
- Ballantyne, Kaye N., et al.
(författare)
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Toward Male Individualization with Rapidly Mutating Y-Chromosomal Short Tandem Repeats
- 2014
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Ingår i: Human Mutation. - : John Wiley & Sons. - 1059-7794 .- 1098-1004. ; 35:8, s. 1021-1032
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Tidskriftsartikel (refereegranskat)abstract
- Relevant for various areas of human genetics, Y-chromosomal short tandem repeats (Y-STRs) are commonly used for testing close paternal relationships among individuals and populations, and for male lineage identification. However, even the widely used 17-loci Yfiler set cannot resolve individuals and populations completely. Here, 52 centers generated quality-controlled data of 13 rapidly mutating (RM) Y-STRs in 14,644 related and unrelated males from 111 worldwide populations. Strikingly, greater than99% of the 12,272 unrelated males were completely individualized. Haplotype diversity was extremely high (global: 0.9999985, regional: 0.99836-0.9999988). Haplotype sharing between populations was almost absent except for six (0.05%) of the 12,156 haplotypes. Haplotype sharing within populations was generally rare (0.8% nonunique haplotypes), significantly lower in urban (0.9%) than rural (2.1%) and highest in endogamous groups (14.3%). Analysis of molecular variance revealed 99.98% of variation within populations, 0.018% among populations within groups, and 0.002% among groups. Of the 2,372 newly and 156 previously typed male relative pairs, 29% were differentiated including 27% of the 2,378 father-son pairs. Relative to Yfiler, haplotype diversity was increased in 86% of the populations tested and overall male relative differentiation was raised by 23.5%. Our study demonstrates the value of RMY-STRs in identifying and separating unrelated and related males and provides a reference database.
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| 2. |
- Chung, Ning Ning, et al.
(författare)
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Sex-linked genetic diversity originates from persistent sociocultural processes at microgeographic scales
- 2019
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Ingår i: Royal Society Open Science. - : The Royal Society. - 2054-5703. ; 6:8
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Tidskriftsartikel (refereegranskat)abstract
- Population genetics has been successful at identifying the relationships between human groups and their interconnected histories. However, the link between genetic demography inferred at large scales and the individual human behaviours that ultimately generate that demography is not always clear. While anthropological and historical context are routinely presented as adjuncts in population genetic studies to help describe the past, determining how underlying patterns of human sociocultural behaviour impact genetics still remains challenging. Here, we analyse patterns of genetic variation in village-scale samples from two islands in eastern Indonesia, patrilocal Sumba and a matrilocal region of Timor. Adopting a ‘process modelling’ approach, we iteratively explore combinations of structurally different models as a thinking tool. We find interconnected socio-genetic interactions involving sex-biased migration, lineage-focused founder effects, and on Sumba, heritable social dominance. Strikingly, founder ideology, a cultural model derived from anthropological and archaeological studies at larger regional scales, has both its origins and impact at the scale of villages. Process modelling lets us explore these complex interactions, first by circumventing the complexity of formal inference when studying large datasets with many interacting parts, and then by explicitly testing complex anthropological hypotheses about sociocultural behaviour from a more familiar population genetic standpoint.
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| 3. |
- Karmin, Monika, et al.
(författare)
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Episodes of Diversification and Isolation in Island Southeast Asian and Near Oceanian Male Lineages
- 2022
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Ingår i: Molecular biology and evolution. - : Oxford University Press (OUP). - 0737-4038 .- 1537-1719. ; 39:3
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Tidskriftsartikel (refereegranskat)abstract
- Island Southeast Asia (ISEA) and Oceania host one of the world's richest assemblages of human phenotypic, linguistic, and cultural diversity. Despite this, the region's male genetic lineages are globally among the last to remain unresolved. We compiled similar to 9.7 Mb of Y chromosome (chrY) sequence from a diverse sample of over 380 men from this region, including 152 first reported here. The granularity of this data set allows us to fully resolve and date the regional chrY phylogeny. This new high-resolution tree confirms two main population bursts: multiple rapid diversifications following the region's initial settlement similar to 50 kya, and extensive expansions <6 kya. Notably, similar to 40-25 kya the deep rooting local lineages of C-M130, M-P256, and S-B254 show almost no further branching events in ISEA, New Guinea, and Australia, matching a similar pause in diversification seen in maternal mitochondrial DNA lineages. The main local lineages start diversifying similar to 25 kya, at the time of the last glacial maximum. This improved chrY topology highlights localized events with important historical implications, including pre-Holocene contact between Mainland and ISEA, potential interactions between Australia and the Papuan world, and a sustained period of diversification following the flooding of the ancient Sunda and Sahul continents as the insular landscape observed today formed. The high-resolution phylogeny of the chrY presented here thus enables a detailed exploration of past isolation, interaction, and change in one of the world's least understood regions.
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| 4. |
- Lansing, John Stephen, et al.
(författare)
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An ongoing Austronesian expansion in Island Southeast Asia
- 2011
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Ingår i: Journal of Anthropological Archaeology. - : Elsevier. - 0278-4165 .- 1090-2686. ; 30:3, s. 262-272
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Tidskriftsartikel (refereegranskat)abstract
- The Austronesian expansion into Island Southeast Asia and the Pacific was the last and most far-reaching prehistoric human migration. Austronesian languages replaced indigenous languages over nearly half the globe, yet the absolute number of Austronesian colonists was small. Recently, geneticists have identified large geographic disparities in the relative proportions of Asian ancestry across different genetic systems (NRY, mitochondrial DNA, autosomes and X chromosomes) in Austronesian-speaking societies of Island Southeast Asia and the Pacific. Surprisingly, a substantial genetic discontinuity occurs in the middle of a continuous chain of islands that form the southern arc of the Indonesian archipelago, near the geographic center of the Austronesian world. In the absence of geographic barriers to migration, this genetic boundary and swathe of Austronesian language replacement must have emerged from social behavior. Drawing on decades of comparative ethnological research inspired by F.A.E. van Wouden's structural model of Austronesian social organization, later codified by Claude Levi-Strauss as "House societies" ("societes a maison"), we propose a two-stage ethnographic model in which the appearance of matrilocal "House societies" during the initial phase of the Austronesian expansion, and the subsequent disappearance of "House societies" in lowland rice-growing regions, accounts for the observed linguistic, genetic and cultural patterns.
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| 5. |
- Lansing, J. Stephen, et al.
(författare)
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Kinship structures create persistent channels for language transmission
- 2017
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Ingår i: Proceedings of the National Academy of Sciences of the United States of America. - : Proceedings of the National Academy of Sciences. - 0027-8424 .- 1091-6490. ; 114:49, s. 12910-12915
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Tidskriftsartikel (refereegranskat)abstract
- Languages are transmitted through channels created by kinship systems. Given sufficient time, these kinship channels can change the genetic and linguistic structure of populations. In traditional societies of eastern Indonesia, finely resolved cophylogenies of languages and genes reveal persistent movements between stable speech communities facilitated by kinship rules. When multiple languages are present in a region and post-marital residence rules encourage sustained directional movement between speech communities, then languages should be channeled along uniparental lines. We find strong evidence for this pattern in 982 individuals from 25 villages on two adjacent islands, where different kinship rules have been followed. Core groups of close relatives have stayed together for generations, while remaining in contact with, and marrying into, surrounding groups. Over time, these kinship systems shaped their gene and language phylogenies: Consistently following a postmarital residence rule turned social communities into speech communities.
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