A Paleogenomic Reconstruction of the Deep Population History of the Andes.

There are many unanswered questions about the population history of the Central and South Central Andes, particularly regarding the impact of large-scale societies, such as the Moche, Wari, Tiwanaku, and Inca. We assembled genome-wide data on 89 individuals dating from ∼9,000-500 years ago (BP), with a particular focus on the period of the rise and fall of state societies. Today's genetic structure began to develop by 5,800 BP, followed by bi-directional gene flow between the North and South Highlands, and between the Highlands and Coast. We detect minimal admixture among neighboring groups between ∼2,000-500 BP, although we do detect cosmopolitanism (people of diverse ancestries living side-by-side) in the heartlands of the Tiwanaku and Inca polities. We also highlight cases of long-range mobility connecting the Andes to Argentina and the Northwest Andes to the Amazon Basin. VIDEO ABSTRACT.

The first peoples of the Atacama Desert lived among the trees: A 11,600- to 11,200-year-old grove and congregation site.

In deserts, water has been singled out as the most important factor for choosing where to settle, but trees were likely an important part of the landscape for hunter-gatherers beyond merely constituting an economic resource. Yet, this critical aspect has not been considered archaeologically. Here, we present the results of mapping and radiocarbon dating of a truly unique archaeological record. Over 150 preserved stumps around five Late Pleistocene/Early Holocene archaeological campsites (12,800 to 11,200 cal BP) show that trees were key features in the creation of everyday habitats for the first inhabitants of the Atacama Desert. At two of these sites, QM12 and QM35, the spatial and chronological correlation between trees and hearths reveals that people located their homes under the tree canopy. At residential site QM35, artifact distribution coincides with a grove dated to ~11,600 to 11,200 cal BP. A third residential area (QM32) occurred along the grove margins ~12,000 to 11,200 cal BP. Based on the distinct cultural material of these two camps, we propose that two different groups intermittently shared this rich wetland-grove environment. The tree taxa suggest a preference for the native Schinus molle, a tree scarcely present on the landscape today, over the endemic, nitrogen-fixing Strombocarpa tamarugo, both for toolmaking and firewood and even though the S. tamarugo was locally more abundant. Together with the spatial and chronological coincidence of campsites, hearths, and trees, we propose that people spared the most abundant and resilient species to create their homes, in turn promoting fertility oases amid the Atacama's hyperaridity.

Pre-Columbian transregional captive rearing of Amazonian parrots in the Atacama Desert.

The feathers of tropical birds were one of the most significant symbols of economic, social, and sacred status in the pre-Columbian Americas. In the Andes, finely produced clothing and textiles containing multicolored feathers of tropical parrots materialized power, prestige, and distinction and were particularly prized by political and religious elites. Here we report 27 complete or partial remains of macaws and amazon parrots from five archaeological sites in the Atacama Desert of northern Chile to improve our understanding of their taxonomic identity, chronology, cultural context, and mechanisms of acquisition. We conducted a multiproxy archaeometric study that included zooarchaeological analysis, isotopic dietary reconstruction, accelerated mass spectrometry radiocarbon dating, and paleogenomic analysis. The results reveal that during the Late Intermediate Period (1100 to 1450 CE), Atacama oasis communities acquired scarlet macaws (Ara macao) and at least five additional translocated parrot species through vast exchange networks that extended more than 500 km toward the eastern Amazonian tropics. Carbon and nitrogen stable isotopes indicate that Atacama aviculturalists sustained these birds on diets rich in marine bird guano-fertilized maize-based foods. The captive rearing of these colorful, exotic, and charismatic birds served to unambiguously signal relational wealth in a context of emergent intercommunity competition.

Violence in hunters, fishermen, and gatherers of the Chinchorro culture: Archaic societies of the Atacama Desert (10,000-4,000 cal yr BP).

OBJECTIVES: This article addresses evidence of violence imbedded in both soft and hard tissues from early populations of hunters, fishermen, and gatherers, known as the Chinchorro culture, who lived between 10,000 and 4,000 cal yr BP, along the coast of the Atacama Desert, one of the driest environments on Earth. Our study is aimed to test two hypotheses (a) that interactions and violent behaviors increased through time as population density and social complexity augmented; and (b) that violence was more prevalent between local Chinchorro groups and groups from other inland locations. MATERIAL AND METHODS: Two lines of data were analyzed: (1) bioarchaeology, through the quantification of physical traces of interpersonal violence in skeletons and mummies from a sample of 136 adult individuals and, (2) isotopic chemical analysis (strontium) of individuals with traces of trauma in order to determine their local or foreign origin. RESULTS: Violence among Chinchorro populations was ubiquitous and remained invariant over time, with a remarkable skew to male (about 25% above female across the complete sample). Moreover, the chemical signature of individuals with traces of violence was not of foreign origin. DISCUSSION: The violence exerted by the Chinchorro groups was not related to increased population size, nor social complexity and was mostly restricted to individuals coming from the same coastal habitat. That is, our data suggest that violence was constant across the Archaic period among the Chinchorro, implying that violent behavior was part of the sociocultural repertory of these populations, likely associated to mechanisms to resolve conflicts and social tensions.

Emergence of social complexity among coastal hunter-gatherers in the Atacama Desert of northern Chile.

The emergence of complex cultural practices in simple hunter-gatherer groups poses interesting questions on what drives social complexity and what causes the emergence and disappearance of cultural innovations. Here we analyze the conditions that underlie the emergence of artificial mummification in the Chinchorro culture in the coastal Atacama Desert in northern Chile and southern Peru. We provide empirical and theoretical evidence that artificial mummification appeared during a period of increased coastal freshwater availability and marine productivity, which caused an increase in human population size and accelerated the emergence of cultural innovations, as predicted by recent models of cultural and technological evolution. Under a scenario of increasing population size and extreme aridity (with little or no decomposition of corpses) a simple demographic model shows that dead individuals may have become a significant part of the landscape, creating the conditions for the manipulation of the dead that led to the emergence of complex mortuary practices.

Inka Unku: Imperial or provincial? State-local relations.

Standardized Inka tunics, or unku, were created under the auspices of the state as symbolic expressions of its expansionist power. To ensure these textiles acquired the status of effective insignias of power and territorial control, the Inka established and imposed technical and stylistic canons for their production (techne) by means of highly-skilled state weavers. In the provinces, social groups that came under imperial rule, local expert weaving agents adopted the conventions of the state and included meaningful symbolic elements of the idiosyncrasies, traditions, and experiential knowledge of the local community (metis). We therefore propose that this was not a unidirectional process and that the Caleta Vitor Inka unku (hereon referred to as the CV unku), presented here, reflects a syncretism promoted by local weavers. In terms of methods, we have developed a decoding tool for the unku, with the aim of distinguishing state from local hallmarks, thereby revealing the syncretic complexity of these iconic tunics. This methodological tool is based on a series of standard analytical parameters and attributes linked to morphological, technological, and stylistic features, which we applied to the CV unku. Unlike others, this unku does come from a looted tomb but was scientifically excavated in a cemetery located in the Caleta Vitor Bay in northern Chile. By deconstructing the CV unku we determined the steps in the chaîne opératoire at which local technical and stylistic elements were incorporated, thus affecting or transforming, in part, its emblematic imperial imagery. This study also marks a step forward in our understanding of a syncretic landscape that combines the state worldview and organized production system (imperial Inka) with craft-production practices that were rooted in provincial and local communities (provincial Inka).

1000 years of population, warfare, and climate change in pre-Columbian societies of the Central Andes.

Different Andean societies underwent processes of expansion and collapse during propitious or adverse climate conditions, resource boost or depletion along with population variations. Previous studies have emphasized that demographic collapses of polities in the Central Andes Area were triggered by warfare and the negative impacts of fluctuating climate (droughts) on crop productivity. Nevertheless, the interactions between climatic variability, demography and warfare have been less thoroughly evaluated. We develop population dynamic models to test feedback relationships between population growth, climate change and warfare in the Central Andes, where considerable regional hydroclimate variations have occurred over a millennium. Through population models, we found out that the rise and demise of social polities in the northern coast of the Central Andes appear to be a consequence of climate change. In contrast, for the highlands of Peru and the Titicaca basin, population models suggest that warfare intensity has a negative effect on population growth rates.

Violence in fishing, hunting, and gathering societies of the Atacama Desert coast: A long-term perspective (10,000 BP-AD 1450).

In this study, we examine the long-term trajectory of violence in societies that inhabited the coast of the Atacama Desert in northern Chile using three lines of evidence: bioarchaeology, geoarchaeology and socio-cultural contexts (rock art, weapons, and settlement patterns). These millennia-old populations adopted a way of life, which they maintained for 10,000 years, based on fishing, hunting, and maritime gathering, complementing this with terrestrial resources. We analyzed 288 adult individuals to search for traumas resulting from interpersonal violence and used strontium isotopes 87Sr/86Sr as a proxy to evaluate whether individuals that showed traces of violence were members of local or non-local groups. Moreover, we evaluated settlement patterns, rock art, and weapons. The results show that the violence was invariant during the 10,000 years in which these groups lived without contact with the western world. During the Formative Period (1000 BC-AD 500), however, the type of violence changed, with a substantial increase in lethality. Finally, during the Late Intermediate Period (AD 1000-1450), violence and lethality remained similar to that of the Formative Period. The chemical signal of Sr shows a low frequency of individuals who were coastal outsiders, suggesting that violence occurred between local groups. Moreover, the presence of weapons and rock art depicting scenes of combat supports the notion that these groups engaged in violence. By contrast, the settlement pattern shows no defensive features. We consider that the absence of centralized political systems could have been a causal factor in explaining violence, together with the fact that these populations were organized in small-scale grouping. Another factor may have been competition for the same resources in the extreme environments of the Atacama Desert. Finally, from the Formative Period onward, we cannot rule out a certain level of conflict between fishers and their close neighbors, the horticulturalists.

Genetic studies of various Prosopis species (Leguminosae, Section Algarobia) co-occurring in oases of the Atacama Desert (northern Chile).

In the Atacama Desert from northern Chile (19-24°S), Prosopis (Leguminosae) individuals are restricted to oases that are unevenly distributed and isolated from each other by large stretches of barren landscape constituting an interesting study model as the degree of connectivity between natural populations depends on their dispersal capacity and the barriers imposed by the landscape. Our goal was to assess the genetic diversity and the degree of differentiation among groups of Prosopis individuals of different species from Section Algarobia and putative hybrids (hereafter populations) co-occurring in these isolated oases from the Atacama Desert and determine whether genetic patterns are associated with dispersal barriers. Thirteen populations were sampled from oases located on three hydrographic basins (Pampa del Tamarugal, Rio Loa, and Salar de Atacama; northern, central, and southern basins, respectively). Individuals genotyped by eight SSRs show high levels of genetic diversity (H O = 0.61, A r = 3.5) and low but significant genetic differentiation among populations (F ST = 0.128, F ST-ENA = 0.129, D JOST = 0.238). The AMOVA indicates that most of the variation occurs within individuals (79%) and from the variance among individuals (21%); almost, the same variation can be found between basins and between populations within basins. Differentiation and structure results were not associated with the basins, retrieving up to four genetic clusters and certain admixture in the central populations. Pairwise differentiation comparisons among populations showed inconsistencies considering their distribution throughout the basins. Genetic and geographic distances were significantly correlated at global and within the basins considered (p < .02), but low correlation indices were obtained (r < .37). These results are discussed in relation to the fragmented landscape, considering both natural and non-natural (humans) dispersal agents that may be moving Prosopis in the Atacama Desert.

High- and low-latitude forcings drive Atacama Desert rainfall variations over the past 16,000 years.

Late Quaternary precipitation dynamics in the central Andes have been linked to both high- and low-latitude atmospheric teleconnections. We use present-day relationships between fecal pellet diameters from ashy chinchilla rats (Abrocoma cinerea) and mean annual rainfall to reconstruct the timing and magnitude of pluvials (wet episodes) spanning the past 16,000 years in the Atacama Desert based on 81 14C-dated A. cinerea paleomiddens. A transient climate simulation shows that pluvials identified at 15.9 to 14.8, 13.0 to 8.6, and 8.1 to 7.6 ka B.P. can be linked to North Atlantic (high-latitude) forcing (e.g., Heinrich Stadial 1, Younger Dryas, and Bond cold events). Holocene pluvials at 5.0 to 4.6, 3.2 to 2.1, and 1.4 to 0.7 ka B.P. are not simulated, implying low-latitude internal variability forcing (i.e., ENSO regime shifts). These results help constrain future central Andean hydroclimatic variability and hold promise for reconstructing past climates from rodent middens in desert ecosystems worldwide.

'White gold' guano fertilizer drove agricultural intensification in the Atacama Desert from AD 1000.

The archaeological record shows that large pre-Inca agricultural systems supported settlements for centuries around the ravines and oases of northern Chile's hyperarid Atacama Desert. This raises questions about how such productivity was achieved and sustained, and its social implications. Using isotopic data of well-preserved ancient plant remains from Atacama sites, we show a dramatic increase in crop nitrogen isotope values (δ15N) from around AD 1000. Maize was most affected, with δ15N values as high as +30‰, and human bone collagen following a similar trend; moreover, their carbon isotope values (δ13C) indicate a considerable increase in the consumption of maize at the same time. We attribute the shift to extremely high δ15N values-the highest in the world for archaeological plants-to the use of seabird guano to fertilize crops. Guano-'white gold' as it came to be called-thus sustained agricultural intensification, supporting a substantial population in an otherwise extreme environment.

Prehistoric polydactylism: Biological evidence and rock art representation from the Atacama Desert in northern Chile.

A review of the bioarchaeological collections from the site Morro de Arica in northern Chile allowed the identification of two cases of human polydactyly. Both cases are from the Chinchorro culture, hunters, fishers, and gatherers with a maritime orientation who inhabited the coast of the Atacama Desert (9000-3400 BP). Additionally, the analyses of 75 rock art sites in the area, from the Formative to Late Intermediate Periods (3000-550 BP), allowed the identification of hands and feet with six digits. Given the bioarchaeological record of polydactyly, it is highly probable that the rock art images were based on real individuals with polydactyly. However, the Sr chemical signal in a juvenile with polydactyly is the same as the Sr chemical signal in the rest of the individuals buried in the same site, proving that all the individuals were born and lived on the coast. We discuss the idea that, although these anomalies could have been the result of genetic mutations, endogamy and exposition to ecotoxic environments could also be at play within the Chinchorro groups.

The pre-Columbian introduction and dispersal of Algarrobo (Prosopis, Section Algarobia) in the Atacama Desert of northern Chile.

Archaeological and palaeoecological studies throughout the Americas have documented widespread landscape and environmental transformation during the pre-Columbian era. The highly dynamic Formative (or Neolithic) period in northern Chile (ca. 3700-1550 yr BP) brought about the local establishment of agriculture, introduction of new crops (maize, quinoa, manioc, beans, etc.) along with a major population increase, new emergent villages and technological innovations. Even trees such as the Algarrobos (Prosopis section Algarobia) may have been part of this transformation. Here, we provide evidence that these species were not native to the Atacama Desert of Chile (18-27°S), appearing only in the late Holocene and most likely due to human actions. We assembled a database composed of 41 taxon specific AMS radiocarbon dates from archaeobotanical and palaeoecological records (rodent middens, leaf litter deposits), as well an extensive bibliographical review comprising archaeobotanical, paleoecological, phylogenetic and taxonomic data to evaluate the chronology of introduction and dispersal of these trees. Although Algarrobos could have appeared as early as 4200 yr BP in northernmost Chile, they only became common throughout the Atacama over a thousand years later, during and after the Formative period. Cultural and natural factors likely contributed to its spread and consolidation as a major silvicultural resource.

Ancient mitochondrial DNA provides high-resolution time scale of the peopling of the Americas.

The exact timing, route, and process of the initial peopling of the Americas remains uncertain despite much research. Archaeological evidence indicates the presence of humans as far as southern Chile by 14.6 thousand years ago (ka), shortly after the Pleistocene ice sheets blocking access from eastern Beringia began to retreat. Genetic estimates of the timing and route of entry have been constrained by the lack of suitable calibration points and low genetic diversity of Native Americans. We sequenced 92 whole mitochondrial genomes from pre-Columbian South American skeletons dating from 8.6 to 0.5 ka, allowing a detailed, temporally calibrated reconstruction of the peopling of the Americas in a Bayesian coalescent analysis. The data suggest that a small population entered the Americas via a coastal route around 16.0 ka, following previous isolation in eastern Beringia for ~2.4 to 9 thousand years after separation from eastern Siberian populations. Following a rapid movement throughout the Americas, limited gene flow in South America resulted in a marked phylogeographic structure of populations, which persisted through time. All of the ancient mitochondrial lineages detected in this study were absent from modern data sets, suggesting a high extinction rate. To investigate this further, we applied a novel principal components multiple logistic regression test to Bayesian serial coalescent simulations. The analysis supported a scenario in which European colonization caused a substantial loss of pre-Columbian lineages.

[Origins of Changos. Mitochondrial DNA analysis suggests Chinchorro culture fishermen ancestry]. / Origen de los Changos. Análisis de ADNmt antiguo sugiere descendencia de pescadores de la cultura Chinchorro (7.900 - 4.000 A.P.).

Sophisticated molecular genetics techniques allow the typification and posterior comparison of antique haplogroups and mitochondrial DNA sequences from prehistoric groups with contemporary populations. This adds a chronological dimension to these studies and contributes to have a better knowledge of the genetic composition of the Chilean population. This article gives scientific support, using molecular methodology, to the alleged biological links that joined the descendants of proto historic Chango fishermen from Paposo cove, a place located 15 kilometers north of Taltal, with prehistoric fishermen from Chinchorro culture, that developed in Northern Chile and Southern Peru between 7900 and 4000 A.C.

Impact of empire expansion on household diet: the Inka in Northern Chile's Atacama Desert.

The impact of expanding civilization on the health of American indigenous societies has long been studied. Most studies have focused on infections and malnutrition that occurred when less complex societies were incorporated into more complex civilizations. The details of dietary change, however, have rarely been explored. Using the analysis of starch residues recovered from coprolites, here we evaluate the dietary adaptations of indigenous farmers in northern Chile's Atacama Desert during the time that the Inka Empire incorporated these communities into their economic system. This system has been described as "complementarity" because it involves interaction and trade in goods produced at different Andean elevations. We find that as local farming societies adapted to this new asymmetric system, a portion of their labor had to be given up to the Inka elite through a corvée tax system for maize production. In return, the Inka system of complementarity introduced previously rare foods from the Andean highlands into local economies. These changes caused a disruption of traditional communities as they instituted a state-level economic system on local farmers. Combined with previously published infection information for the same populations under Inka rule, the data suggest that there may have been a dual health impact from disruption of nutrition and introduction of crowd disease.

Microevolution in prehistoric Andean populations: chronologic mtDNA variation in the desert valleys of northern Chile.

Archeological evidence suggests that the iconographic and technological developments that took place in the highlands around Lake Titicaca in the Central Andean region had an influence on the cultural elaborations of the human groups in the valleys and the Pacific coast of northern Chile. In a previous communication, we were able to show, by means of a distance analysis, that a craniofacial differentiation accompanied the process of cultural evolution in the valleys (Rothhammer and Santoro [2001] Lat. Am. Antiq. 12:59-66). Recently, numerous South Amerindian mtDNA studies were published, and more accurate molecular techniques to study ancient mtDNA are available. In view of these recent developments, we decided 1) to study chronological changes of ancient mtDNA haplogroup frequencies in the nearby Lluta, Azapa, and Camarones Valleys, 2) to identify microevolutionary forces responsible for such changes, and 3) to compare ancient mtDNA haplogroup frequencies with previous data in order to validate craniometrical results and to reconstruct the biological history of the prehistoric valley groups in the context of their interaction with culturally more developed highland populations. From a total of 97 samples from 83 individuals, 68 samples (61 individuals) yielded amplifications for the fragments that harbor classical mtDNA markers. The haplogroup distribution among the total sample was as follows: 26.2%, haplogroup A; 34.4%, haplogroup B; 14.8%, haplogroup C; 3.3%, haplogroup D; and 21.3%, other haplogroups. Haplogroup B tended to increase, and haplogroup A to decrease during a 3,900-year time interval. The sequence data are congruent with the haplogroup analysis. In fact, the sequencing of hypervariable region I of 30 prehistoric individuals revealed 43 polymorphic sites. Sequence alignment and subsequent phylogenetic tree construction showed two major clusters associated with the most common restriction haplogroups. Individuals belonging to haplogroups C and D tended to cluster together with nonclassical lineages.

Origen de los Changos: Análisis de ADNmt antiguo sugiere descendencia de pescadores de la cultura Chinchorro (7.900 - 4.000 A.P.) / Origins of Changos: Mitochondrial DNA analysis suggests Chinchorro culture fishermen ancestry

Sophisticated molecular genetics techniques allow the typification and posterior comparison of antique haplogroups and mitochondrial DNA sequences from prehistoric groups with contemporary populations. This adds a chronological dimension to these studies and contributes to have a better knowledge of the genetic composition of the Chilean population. This article gives scientific support, using molecular methodology, to the alleged biological links that joined the descendants of proto historic Chango fishermen from Puposo cove, a place located 15 kilometers north of Taltal, with prehistoric fishermen from Chinchorro culture, that developed in Northern Chile and Southern Peru between 7900 and 4000 A.C.