Detecting and mapping the ‘ephemeral’: magnetometric survey of a Pastoral Neolithic settlement at Luxmanda, Tanzania

Common assumptions about the ephemeral archaeological signature of pastoralist settlements have limited the application of geophysical techniques in the investigation of past herding societies. Here, the authors present a geophysical survey of Luxmanda, Tanzania, the largest-known settlement documented for the Pastoral Neolithic era in eastern Africa (c. 5000–1200 BP). The results demonstrate the value and potential of fluxgate gradiometry for the identification of magnetic anomalies relating to archaeological features, at a category of site where evidence for habitation was long thought to be undetectable. The study provides comparative data to enable archaeologists to identify loci for future investigations of mobile populations in eastern Africa and elsewhere

Ancient DNA and deep population structure in sub-Saharan African foragers

Multiple lines of genetic and archaeological evidence suggest that there were major demographic changes in the terminal Late Pleistocene epoch and early Holocene epoch of sub-Saharan Africa(1-4). Inferences about this period are challenging to make because demographic shifts in the past 5,000 years have obscured the structures of more ancient populations(3,5). Here we present genome-wide ancient DNA data for six individuals from eastern and south-central Africa spanning the past approximately 18,000 years (doubling the time depth of sub-Saharan African ancient DNA), increase the data quality for 15 previously published ancient individuals and analyse these alongside data from 13 other published ancient individuals. The ancestry of the individuals in our study area can be modelled as a geographically structured mixture of three highly divergent source populations, probably reflecting Pleistocene interactions around 80-20 thousand years ago, including deeply diverged eastern and southern African lineages, plus a previously unappreciated ubiquitous distribution of ancestry that occurs in highest proportion today in central African rainforest hunter-gatherers. Once established, this structure remained highly stable, with limited long-range gene flow. These results provide a new line of genetic evidence in support of hypotheses that have emerged from archaeological analyses but remain contested, suggesting increasing regionalization at the end of the Pleistocene epoch. DNA analysis of 6 individuals from eastern and south-central Africa spanning the past approximately 18,000 years, and of 28 previously published ancient individuals, provides genetic evidence supporting hypotheses of increasing regionalization at the end of the Pleistocene.info:eu-repo/semantics/publishedVersio

Reconstructing Prehistoric African Population Structure

We assembled genome-wide data from 16 prehistoric Africans. We show that the anciently divergent lineage that comprises the primary ancestry of the southern African San had a wider distribution in the past, contributing approximately two-thirds of the ancestry of Malawi hunter-gatherers ∼8,100–2,500 years ago and approximately one-third of the ancestry of Tanzanian hunter-gatherers ∼1,400 years ago. We document how the spread of farmers from western Africa involved complete replacement of local hunter-gatherers in some regions, and we track the spread of herders by showing that the population of a ∼3,100-year-old pastoralist from Tanzania contributed ancestry to people from northeastern to southern Africa, including a ∼1,200-year-old southern African pastoralist. The deepest diversifications of African lineages were complex, involving either repeated gene flow among geographically disparate groups or a lineage more deeply diverging than that of the San contributing more to some western African populations than to others. We finally leverage ancient genomes to document episodes of natural selection in southern African populations

Reconstructing prehistoric African population structure

We assembled genome-wide data from 16 prehistoric Africans. We show that the anciently divergent lineage that comprises the primary ancestry of the southern African San had a wider distribution in the past, contributing approximately two-thirds of the ancestry of Malawi hunter-gatherers ∼8,100–2,500 years ago and approximately one-third of the ancestry of Tanzanian hunter-gatherers ∼1,400 years ago. We document how the spread of farmers from western Africa involved complete replacement of local hunter-gatherers in some regions, and we track the spread of herders by showing that the population of a ∼3,100-year-old pastoralist from Tanzania contributed ancestry to people from northeastern to southern Africa, including a ∼1,200-year-old southern African pastoralist. The deepest diversifications of African lineages were complex, involving either repeated gene flow among geographically disparate groups or a lineage more deeply diverging than that of the San contributing more to some western African populations than to others. We finally leverage ancient genomes to document episodes of natural selection in southern African populations.P.S. was supported by the Wenner-Gren Foundation and the Swedish Research Council (VR grant 2014-453). J.C.T was supported by a grant from the Program for the Enhancement of Research at Emory University. J.K. and A.M. were supported by the DFG grant KR 4015/1-1 and the Max Planck Society. K.Si. was supported by NSF grant BCS-1613577. M.Ha., A.H., M.Me., and S.P. were supported by the Max Planck Society. A.G.M. and J.P. were supported by the National Research Foundation of South Africa. R.R. was supported by the South African Medical Research Council. N.B. was supported by ERC starting grant SEALINKS (206148), and R.P. was supported by ERC starting grant ADNABIOARC (263441). M.G.T. was supported by Wellcome Trust Senior Investigator Award (grant number 100719/Z/12/Z). D.R. was supported by NIH grant GM100233 and by NSFHOMINID BCS-1032255 and is a Howard Hughes Medical Institute investigator. The laboratory at Penn State was supported by the NSF Archaeometry program (BCS-1460369, D.J.K.).http://www.cell.com2018-09-21hj2017Anthropology and ArchaeologySchool of Health Systems and Public Health (SHSPH