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Llamas B, Roca-Rada X. Paleogenomic study of the Mexican past. Science 2023; 380:578-579. [PMID: 37167404 DOI: 10.1126/science.adh7902] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/13/2023]
Abstract
Ancient DNA analysis of ancestral Mexicans reveals a complex demographic history.
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Affiliation(s)
- Bastien Llamas
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA, Australia
| | - Xavier Roca-Rada
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA, Australia
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2
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Fleskes RE, Bader AC, Tsosie KS, Wagner JK, Claw KG, Garrison NA. Ethical Guidance in Human Paleogenomics: New and Ongoing Perspectives. Annu Rev Genomics Hum Genet 2022; 23:627-652. [PMID: 35537469 DOI: 10.1146/annurev-genom-120621-090239] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Over the past two decades, the study of ancient genomes from Ancestral humans, or human paleogenomic research, has expanded rapidly in both scale and scope. Ethical discourse has subsequently emerged to address issues of social responsibility and scientific robusticity in conducting research. Here, we highlight and contextualize the primary sources of professional ethical guidance aimed at paleogenomic researchers. We describe the tension among existing guidelines, while addressing core issues such as consent, destructive research methods, and data access and management. Currently, there is a dissonance between guidelines that focus on scientific outcomes and those that hold scientists accountable to stakeholder communities, such as descendants. Thus, we provide additional tools to navigate the complexities of ancient DNA research while centering engagement with stakeholder communities in the scientific process. Expected final online publication date for the Annual Review of Genomics and Human Genetics, Volume 23 is October 2022. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
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Affiliation(s)
- Raquel E Fleskes
- Department of Anthropology, University of Connecticut, Storrs, Connecticut, USA;
| | - Alyssa C Bader
- Department of Anthropology, University of Colorado Boulder, Boulder, Colorado, USA; .,Sealaska Heritage Institute, Juneau, Alaska, USA
| | - Krystal S Tsosie
- Native BioData Consortium, Eagle Butte, South Dakota, USA; .,College of Arts and Sciences, Vanderbilt University, Nashville, Tennessee, USA
| | - Jennifer K Wagner
- School of Engineering Design, Technology, and Professional Programs; Institute for Computational and Data Sciences; and Department of Biomedical Engineering, Pennsylvania State University, University Park, Pennsylvania, USA;
| | - Katrina G Claw
- Division of Biomedical Informatics and Personalized Medicine, University of Colorado Anschutz Medical Campus, Aurora, Colorado, USA;
| | - Nanibaa' A Garrison
- Institute for Society and Genetics, Institute for Precision Health, and Division of General Internal Medicine and Health Services Research, University of California, Los Angeles, California, USA;
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3
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Herrera-Atoche JR, Chatters JC, Cucina A. Unexpected malocclusion in a 13,000-Year-old Late Pleistocene young woman from Mexico. Sci Rep 2022; 12:3997. [PMID: 35256726 PMCID: PMC8901630 DOI: 10.1038/s41598-022-07941-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Accepted: 02/28/2022] [Indexed: 11/16/2022] Open
Abstract
To analyze the etiological factors behind the malocclusion of a Late Pleistocene woman (named Naia), who is the best-preserved of the earliest individuals of the American continent. The examination of Naia’s malocclusion was performed through cephalometric and occlusal analyses, and by measuring her mandible. Her data were then compared to published data for modern, medieval, and postmedieval samples and seven Late Pleistocene individuals. Naia presented her permanent dentition fully erupted, except for the impacted mandibular third molars. She presented a class II molar malocclusion with crowding. The dental widths and mandible measurements were similar to or smaller than modern standards. The degree of dental wear was light. The cephalometric analysis confirmed a skeletal class II relationship, with a retrusive mandible and protruded upper incisors. Naia’s mild level of dental wear is consistent with a low masticatory force, in a time when the norm was a high amount of grinding. The low masticatory forces help explain Naia’s small jaws and crowding. However, it does not clarify Angle’s class II relationship. Naia is an example that environmental factors are insufficient to explain the onset of malocclusions and emphasizes the importance of understanding hereditary factors’ role.
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4
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The genomic landscape of Mexican Indigenous populations brings insights into the peopling of the Americas. Nat Commun 2021; 12:5942. [PMID: 34642312 PMCID: PMC8511047 DOI: 10.1038/s41467-021-26188-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/19/2019] [Accepted: 09/22/2021] [Indexed: 12/30/2022] Open
Abstract
The genetic makeup of Indigenous populations inhabiting Mexico has been strongly influenced by geography and demographic history. Here, we perform a genome-wide analysis of 716 newly genotyped individuals from 60 of the 68 recognized ethnic groups in Mexico. We show that the genetic structure of these populations is strongly influenced by geography, and our demographic reconstructions suggest a decline in the population size of all tested populations in the last 15-30 generations. We find evidence that Aridoamerican and Mesoamerican populations diverged roughly 4-9.9 ka, around the time when sedentary farming started in Mesoamerica. Comparisons with ancient genomes indicate that the Upward Sun River 1 (USR1) individual is an outgroup to Mexican/South American Indigenous populations, whereas Anzick-1 was more closely related to Mesoamerican/South American populations than to those from Aridoamerica, showing an even more complex history of divergence than recognized so far.
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Bodner M, Perego UA, Gomez JE, Cerda-Flores RM, Rambaldi Migliore N, Woodward SR, Parson W, Achilli A. The Mitochondrial DNA Landscape of Modern Mexico. Genes (Basel) 2021; 12:genes12091453. [PMID: 34573435 PMCID: PMC8467843 DOI: 10.3390/genes12091453] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2021] [Revised: 09/15/2021] [Accepted: 09/16/2021] [Indexed: 12/16/2022] Open
Abstract
Mexico is a rich source for anthropological and population genetic studies with high diversity in ethnic and linguistic groups. The country witnessed the rise and fall of major civilizations, including the Maya and Aztec, but resulting from European colonization, the population landscape has dramatically changed. Today, the majority of Mexicans do not identify themselves as Indigenous but as admixed, and appear to have very little in common with their pre-Columbian predecessors. However, when the maternally inherited mitochondrial (mt)DNA is investigated in the modern Mexican population, this is not the case. Control region sequences of 2021 samples deriving from all over the country revealed an overwhelming Indigenous American legacy, with almost 90% of mtDNAs belonging to the four major pan-American haplogroups A2, B2, C1, and D1. This finding supports a very low European contribution to the Mexican gene pool by female colonizers and confirms the effectiveness of employing uniparental markers as a tool to reconstruct a country’s history. In addition, the distinct frequency and dispersal patterns of Indigenous American and West Eurasian clades highlight the benefit such large and country-wide databases provide for studying the impact of colonialism from a female perspective and population stratification. The importance of geographical database subsets not only for forensic application is clearly demonstrated.
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Affiliation(s)
- Martin Bodner
- Institute of Legal Medicine, Medical University of Innsbruck, 6020 Innsbruck, Austria;
| | - Ugo A. Perego
- Dipartimento di Biologia e Biotecnologie “L. Spallanzani”, Università di Pavia, 27100 Pavia, Italy; (U.A.P.); (N.R.M.)
- Sorenson Molecular Genealogy Foundation, Salt Lake City, UT 84115, USA; (J.E.G.); (S.R.W.)
- Department of Math and Science, Southeastern Community College, Burlington, IA 52655, USA
| | - J. Edgar Gomez
- Sorenson Molecular Genealogy Foundation, Salt Lake City, UT 84115, USA; (J.E.G.); (S.R.W.)
- FamilySearch Int., Salt Lake City, UT 84150, USA
| | | | - Nicola Rambaldi Migliore
- Dipartimento di Biologia e Biotecnologie “L. Spallanzani”, Università di Pavia, 27100 Pavia, Italy; (U.A.P.); (N.R.M.)
| | - Scott R. Woodward
- Sorenson Molecular Genealogy Foundation, Salt Lake City, UT 84115, USA; (J.E.G.); (S.R.W.)
| | - Walther Parson
- Institute of Legal Medicine, Medical University of Innsbruck, 6020 Innsbruck, Austria;
- Forensic Science Program, Penn State University, University Park, State College, PA 16802, USA
- Correspondence: (W.P.); (A.A.)
| | - Alessandro Achilli
- Dipartimento di Biologia e Biotecnologie “L. Spallanzani”, Università di Pavia, 27100 Pavia, Italy; (U.A.P.); (N.R.M.)
- Correspondence: (W.P.); (A.A.)
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Historical Spatial Distribution of Zoonotic Diseases in Domestic, Synanthropic, and Wild Animals in the Mexican Territory of the Yucatan Peninsula. J Trop Med 2021; 2021:8699455. [PMID: 34413891 PMCID: PMC8369176 DOI: 10.1155/2021/8699455] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Accepted: 07/17/2021] [Indexed: 11/23/2022] Open
Abstract
The Mexican territory of the Yucatan Peninsula has a tropical climate and harbors a wide variety of domestic, synanthropic, and wild animals, as well as disease vectors. To determine the distribution of recorded zoonotic diseases in the Yucatan Peninsula, scientific publications referring to these diseases in animals and containing geographic coordinates of disease occurrence, were studied. The epidemiological bulletins of the national government were also consulted to obtain information on zoonotic diseases reported in humans in the territory. The territory harbors a wide variety of tropical zoonotic pathogens, including Trypanosoma cruzi, Leptospira interrogans, Toxoplasma gondii, Leishmania mexicana, Dirofilaria immitis, and Rickettsia felis. A variety of domestic, synanthropic, and wild animals act as hosts or reservoirs in the transmission cycle of the zoonotic diseases in the Yucatan Peninsula, and some spillover into human populations has also been recorded. There are still zoonotic diseases that have rarely or never been reported in humans, but it is not clear whether this is because these diseases in humans are not common, there is a lack of viable transmission cycle or there is a lack of appropriate diagnosis. It is necessary to continue monitoring vectors, animal hosts, and humans to identify risk factors for zoonotic diseases in the Yucatan Peninsula.
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Davis CA, Profico A, Kappelman J. Digital restoration of the Wilson-Leonard 2 Paleoindian skull (~10,000 BP) from central Texas with comparison to other early American and modern crania. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2021; 176:486-503. [PMID: 34338313 DOI: 10.1002/ajpa.24379] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/13/2021] [Revised: 06/01/2021] [Accepted: 07/07/2021] [Indexed: 11/09/2022]
Abstract
OBJECTIVES Craniofacial morphology (CFM) is often used to address questions about the biological affinities of the earliest Americans, or Paleoindians, but resolution is complicated in part by a lack of well-preserved crania. The Wilson-Leonard 2 (WL-2) Paleoindian skull from Texas has never been fully analyzed because it is crushed and cannot be physically reconstructed. This study employs a digital restoration for comprehensive assessment and analysis of WL-2. MATERIALS AND METHODS High-resolution CT data and geometric morphometrics are used to restore the WL-2 skull and analyze its morphology using 65 craniometric measurements acquired on the restoration. These data allow for a full morphological description and multivariate (Mahalanobis Distance and Principal Component) comparisons to other Paleoindians and recent populations. RESULTS WL-2 has a long, narrow braincase, and a short, modestly prognathic face. Compared with other Paleoindians, she is individually similar to several skulls from Brazil, but aligns most closely with pooled samples from the US and Mexico. WL-2 is most similar to recent populations from Europe, Asia, and the Americas, and markedly different to those from Africa and Australia. DISCUSSION The overall morphology of WL-2 and her association with Asians and Europeans align well with trends identified in other CFM analyses. Her affinity to recent Amerindians contrasts with the findings of many previous CFM studies, but is seemingly consistent with molecular analyses suggesting a close relationship between some Paleoindians and modern American Indians. This study demonstrates the potential for using digital anthropological methods to study other Paleoindian crania whose data value is limited by physical destruction and/or deformation.
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Affiliation(s)
- Christopher A Davis
- Paleocultural Research Group, Broomfield, Colorado, USA.,Department of Anthropology, The University of Texas at Austin, Austin, Texas, USA
| | - Antonio Profico
- PalaeoHub, Department of Archaeology, University of York, York, United Kingdom
| | - John Kappelman
- Department of Anthropology, The University of Texas at Austin, Austin, Texas, USA.,Department of Geological Sciences, The University of Texas at Austin, Austin, Texas, USA
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8
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Solar forcing of early Holocene droughts on the Yucatán peninsula. Sci Rep 2021; 11:13885. [PMID: 34230539 PMCID: PMC8260582 DOI: 10.1038/s41598-021-93417-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 06/24/2021] [Indexed: 11/23/2022] Open
Abstract
A speleothem record from the north-eastern Yucatán peninsula (Mexico) provides new insights into the tropical hydro-climate of the Americas between 11,040 and 9520 a BP on up to sub-decadal scale. Despite the complex atmospheric reorganization during the end of the last deglaciation, the dominant internal leading modes of precipitation variability during the late Holocene were also active during the time of record. While multi-decadal variations were not persistent, Mesoamerican precipitation was dominated by changes on the decadal- and centennial scale, which may be attributed to ENSO activity driven by solar forcing. Freshwater fluxes from the remnant Laurentide ice sheet into the Gulf of Mexico and the North Atlantic have additionally modulated the regional evaporation/precipitation balance. In particular, this study underlines the importance of solar activity on tropical and subtropical climate variability through forcing of the tropical Pacific, providing a plausible scenario for observed recurrent droughts on the decadal scale throughout the Holocene.
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Ávila-Arcos MC, McManus KF, Sandoval K, Rodríguez-Rodríguez JE, Villa-Islas V, Martin AR, Luisi P, Peñaloza-Espinosa RI, Eng C, Huntsman S, Burchard EG, Gignoux CR, Bustamante CD, Moreno-Estrada A. Population History and Gene Divergence in Native Mexicans Inferred from 76 Human Exomes. Mol Biol Evol 2021; 37:994-1006. [PMID: 31848607 PMCID: PMC7086176 DOI: 10.1093/molbev/msz282] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022] Open
Abstract
Native American genetic variation remains underrepresented in most catalogs of human genome sequencing data. Previous genotyping efforts have revealed that Mexico’s Indigenous population is highly differentiated and substructured, thus potentially harboring higher proportions of private genetic variants of functional and biomedical relevance. Here we have targeted the coding fraction of the genome and characterized its full site frequency spectrum by sequencing 76 exomes from five Indigenous populations across Mexico. Using diffusion approximations, we modeled the demographic history of Indigenous populations from Mexico with northern and southern ethnic groups splitting 7.2 KYA and subsequently diverging locally 6.5 and 5.7 KYA, respectively. Selection scans for positive selection revealed BCL2L13 and KBTBD8 genes as potential candidates for adaptive evolution in Rarámuris and Triquis, respectively. BCL2L13 is highly expressed in skeletal muscle and could be related to physical endurance, a well-known phenotype of the northern Mexico Rarámuri. The KBTBD8 gene has been associated with idiopathic short stature and we found it to be highly differentiated in Triqui, a southern Indigenous group from Oaxaca whose height is extremely low compared to other Native populations.
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Affiliation(s)
- María C Ávila-Arcos
- International Laboratory for Human Genome Research (LIIGH), UNAM Juriquilla, Queretaro, Mexico.,Department of Genetics, Stanford University School of Medicine, Stanford, CA
| | - Kimberly F McManus
- Department of Biology, Stanford University, Stanford, CA.,Department of Biomedical Informatics, Stanford School of Medicine, Stanford, CA
| | - Karla Sandoval
- National Laboratory of Genomics for Biodiversity (LANGEBIO), UGA, CINVESTAV, Irapuato, Guanajuato 36821, Mexico
| | | | - Viridiana Villa-Islas
- International Laboratory for Human Genome Research (LIIGH), UNAM Juriquilla, Queretaro, Mexico
| | - Alicia R Martin
- Department of Genetics, Stanford University School of Medicine, Stanford, CA
| | - Pierre Luisi
- Centro de Investigación y Desarrollo en Inmunología y Enfermedades Infecciosas, Consejo Nacional de Investigaciones Científicas y Técnicas, Córdoba, Argentina.,Facultad de Filosofía y Humanidades, Universidad Nacional de Córdoba, Córdoba, Argentina
| | - Rosenda I Peñaloza-Espinosa
- Division of Biological and Health Sciences, Department of Biological Systems, Universidad Autónoma Metropolitana-Xochimilco, Mexico City, Mexico
| | - Celeste Eng
- Department Bioengineering & Therapeutic Sciences and Medicine, University of California San Francisco, San Francisco, CA
| | - Scott Huntsman
- Department Bioengineering & Therapeutic Sciences and Medicine, University of California San Francisco, San Francisco, CA
| | - Esteban G Burchard
- Department Bioengineering & Therapeutic Sciences and Medicine, University of California San Francisco, San Francisco, CA
| | - Christopher R Gignoux
- Division of Biomedical Informatics and Personalized Medicine, University of Colorado, Denver, CO
| | - Carlos D Bustamante
- Department of Genetics, Stanford University School of Medicine, Stanford, CA
| | - Andrés Moreno-Estrada
- National Laboratory of Genomics for Biodiversity (LANGEBIO), UGA, CINVESTAV, Irapuato, Guanajuato 36821, Mexico
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10
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Martin KR, Waits LP, Parent CE. Teaching an Old Shell New Tricks: Extracting DNA from Current, Historical, and Ancient Mollusk Shells. Bioscience 2021. [DOI: 10.1093/biosci/biaa164] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
ABSTRACT
The use of unconventional DNA sources has increased because the acquisition of traditional samples can be invasive, destructive, or impossible. Mollusks are one group for which novel genetic sources are crucial, but methodology remains relatively undeveloped. Many species are important ecologically and in aquaculture production. However, mollusks have the highest number of extinctions of any taxonomic group. Traditionally, mollusk shell material was used for morphological research and only recently has been used in DNA studies. In the present article, we review the studies in which shell DNA was extracted and found that effective procedures consider taxon-specific biological characteristics, environmental conditions, laboratory methods, and the study objectives. Importantly, these factors cannot be considered in isolation because of their fundamental, sometimes reciprocal, relationships and influence in the long-term preservation and recovery of shell DNA. Successful recovery of shell DNA can facilitate research on pressing ecological and evolutionary questions and inform conservation strategies to protect molluscan diversity.
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Affiliation(s)
- Kelly R Martin
- Department of Biological Sciences, and Lisette Waits is a distinguished professor of wildlife resources and is head of the Fish and Wildlife Sciences Department, University of Idaho, Moscow, Idaho, United States
| | - Lisette P Waits
- Department of Biological Sciences, and Lisette Waits is a distinguished professor of wildlife resources and is head of the Fish and Wildlife Sciences Department, University of Idaho, Moscow, Idaho, United States
| | - Christine E Parent
- Department of Biological Sciences, and Lisette Waits is a distinguished professor of wildlife resources and is head of the Fish and Wildlife Sciences Department, University of Idaho, Moscow, Idaho, United States
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11
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Roca-Rada X, Souilmi Y, Teixeira JC, Llamas B. Ancient DNA Studies in Pre-Columbian Mesoamerica. Genes (Basel) 2020; 11:E1346. [PMID: 33202852 PMCID: PMC7696771 DOI: 10.3390/genes11111346] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Revised: 11/04/2020] [Accepted: 11/10/2020] [Indexed: 02/07/2023] Open
Abstract
Mesoamerica is a historically and culturally defined geographic area comprising current central and south Mexico, Belize, Guatemala, El Salvador, and border regions of Honduras, western Nicaragua, and northwestern Costa Rica. The permanent settling of Mesoamerica was accompanied by the development of agriculture and pottery manufacturing (2500 BCE-150 CE), which led to the rise of several cultures connected by commerce and farming. Hence, Mesoamericans probably carried an invaluable genetic diversity partly lost during the Spanish conquest and the subsequent colonial period. Mesoamerican ancient DNA (aDNA) research has mainly focused on the study of mitochondrial DNA in the Basin of Mexico and the Yucatán Peninsula and its nearby territories, particularly during the Postclassic period (900-1519 CE). Despite limitations associated with the poor preservation of samples in tropical areas, recent methodological improvements pave the way for a deeper analysis of Mesoamerica. Here, we review how aDNA research has helped discern population dynamics patterns in the pre-Columbian Mesoamerican context, how it supports archaeological, linguistic, and anthropological conclusions, and finally, how it offers new working hypotheses.
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Affiliation(s)
- Xavier Roca-Rada
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; (Y.S.); (J.C.T.)
| | - Yassine Souilmi
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; (Y.S.); (J.C.T.)
- National Centre for Indigenous Genomics, Australian National University, Canberra, ACT 0200, Australia
- Environment Institute, University of Adelaide, Adelaide, SA 5005, Australia
| | - João C. Teixeira
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; (Y.S.); (J.C.T.)
- Centre of Excellence for Australian Biodiversity and Heritage (CABAH), School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia
| | - Bastien Llamas
- Australian Centre for Ancient DNA, School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia; (Y.S.); (J.C.T.)
- National Centre for Indigenous Genomics, Australian National University, Canberra, ACT 0200, Australia
- Environment Institute, University of Adelaide, Adelaide, SA 5005, Australia
- Centre of Excellence for Australian Biodiversity and Heritage (CABAH), School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia
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Haas R, Watson J, Buonasera T, Southon J, Chen JC, Noe S, Smith K, Llave CV, Eerkens J, Parker G. Female hunters of the early Americas. SCIENCE ADVANCES 2020; 6:6/45/eabd0310. [PMID: 33148651 PMCID: PMC7673694 DOI: 10.1126/sciadv.abd0310] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Accepted: 09/18/2020] [Indexed: 06/11/2023]
Abstract
Sexual division of labor with females as gatherers and males as hunters is a major empirical regularity of hunter-gatherer ethnography, suggesting an ancestral behavioral pattern. We present an archeological discovery and meta-analysis that challenge the man-the-hunter hypothesis. Excavations at the Andean highland site of Wilamaya Patjxa reveal a 9000-year-old human burial (WMP6) associated with a hunting toolkit of stone projectile points and animal processing tools. Osteological, proteomic, and isotopic analyses indicate that this early hunter was a young adult female who subsisted on terrestrial plants and animals. Analysis of Late Pleistocene and Early Holocene burial practices throughout the Americas situate WMP6 as the earliest and most secure hunter burial in a sample that includes 10 other females in statistical parity with early male hunter burials. The findings are consistent with nongendered labor practices in which early hunter-gatherer females were big-game hunters.
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Affiliation(s)
- Randall Haas
- Department of Anthropology, University of California Davis, One Shields Ave., Davis, CA 95616, USA.
- Collasuyo Archaeological Research Institute, Jiron Nicaragua 199, Puno, Puno, Peru
| | - James Watson
- Arizona State Museum, The University of Arizona, 1013 E. University Blvd., Tucson, AZ 85721, USA
- School of Anthropology, The University of Arizona, 1009 E. South Campus Drive, Tucson, AZ 85721, USA
| | - Tammy Buonasera
- Department of Anthropology, University of California Davis, One Shields Ave., Davis, CA 95616, USA
- Department of Environmental Toxicology, University of California Davis, One Shields Ave., Davis, CA 95616, USA
| | - John Southon
- W.M. Keck Carbon Cycle Accelerator Mass Spectrometer Facility, University of California Irvine, B321 Croul Hall, Irvine, CA 92697, USA
| | - Jennifer C Chen
- Department of Anthropology, Penn State University, 410 Carpenter Building, University Park, PA 16802, USA
| | - Sarah Noe
- Department of Anthropology, University of California Santa Barbara, Santa Barbara, CA 93106, USA
| | - Kevin Smith
- Department of Anthropology, University of California Davis, One Shields Ave., Davis, CA 95616, USA
| | - Carlos Viviano Llave
- Collasuyo Archaeological Research Institute, Jiron Nicaragua 199, Puno, Puno, Peru
| | - Jelmer Eerkens
- Department of Anthropology, University of California Davis, One Shields Ave., Davis, CA 95616, USA
| | - Glendon Parker
- Department of Environmental Toxicology, University of California Davis, One Shields Ave., Davis, CA 95616, USA
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13
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Lara-Riegos J, Barquera R, Castillo-Chávez OD, Medina-Escobedo CE, Hernández-Zaragoza DI, Arrieta-Bolaños E, Clayton S, Ponnandai-Shanmugavel KS, Bravo-Acevedo A, Zúñiga J, Yunis EJ, Bekker-Méndez C, Granados J. Genetic diversity of HLA system in two populations from Yucatán, Mexico: Mérida and rural Yucatán. Hum Immunol 2020; 81:569-572. [DOI: 10.1016/j.humimm.2019.07.280] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2019] [Accepted: 07/11/2019] [Indexed: 12/17/2022]
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14
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Ardelean CF, Becerra-Valdivia L, Pedersen MW, Schwenninger JL, Oviatt CG, Macías-Quintero JI, Arroyo-Cabrales J, Sikora M, Ocampo-Díaz YZE, Rubio-Cisneros II, Watling JG, de Medeiros VB, De Oliveira PE, Barba-Pingarón L, Ortiz-Butrón A, Blancas-Vázquez J, Rivera-González I, Solís-Rosales C, Rodríguez-Ceja M, Gandy DA, Navarro-Gutierrez Z, De La Rosa-Díaz JJ, Huerta-Arellano V, Marroquín-Fernández MB, Martínez-Riojas LM, López-Jiménez A, Higham T, Willerslev E. Evidence of human occupation in Mexico around the Last Glacial Maximum. Nature 2020; 584:87-92. [PMID: 32699412 DOI: 10.1038/s41586-020-2509-0] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2018] [Accepted: 06/16/2020] [Indexed: 11/09/2022]
Abstract
The initial colonization of the Americas remains a highly debated topic1, and the exact timing of the first arrivals is unknown. The earliest archaeological record of Mexico-which holds a key geographical position in the Americas-is poorly known and understudied. Historically, the region has remained on the periphery of research focused on the first American populations2. However, recent investigations provide reliable evidence of a human presence in the northwest region of Mexico3,4, the Chiapas Highlands5, Central Mexico6 and the Caribbean coast7-9 during the Late Pleistocene and Early Holocene epochs. Here we present results of recent excavations at Chiquihuite Cave-a high-altitude site in central-northern Mexico-that corroborate previous findings in the Americas10-17of cultural evidence that dates to the Last Glacial Maximum (26,500-19,000 years ago)18, and which push back dates for human dispersal to the region possibly as early as 33,000-31,000 years ago. The site yielded about 1,900 stone artefacts within a 3-m-deep stratified sequence, revealing a previously unknown lithic industry that underwent only minor changes over millennia. More than 50 radiocarbon and luminescence dates provide chronological control, and genetic, palaeoenvironmental and chemical data document the changing environments in which the occupants lived. Our results provide new evidence for the antiquity of humans in the Americas, illustrate the cultural diversity of the earliest dispersal groups (which predate those of the Clovis culture) and open new directions of research.
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Affiliation(s)
- Ciprian F Ardelean
- Unidad Académica de Antropología, Universidad Autónoma de Zacatecas, Zacatecas, Mexico. .,Department of Archaeology, University of Exeter, Exeter, UK.
| | - Lorena Becerra-Valdivia
- Research Laboratory for Archaeology and History of Art, University of Oxford, Oxford, UK.,Chronos 14C-Cycle Facility, SSEAU, University of New South Wales, Sydney, New South Wales, Australia
| | | | - Jean-Luc Schwenninger
- Research Laboratory for Archaeology and History of Art, University of Oxford, Oxford, UK
| | - Charles G Oviatt
- Department of Geology, Kansas State University, Manhattan, KS, USA
| | - Juan I Macías-Quintero
- Escuela de Arqueología, Universidad de Ciencias y Artes de Chiapas, Tuxtla Gutiérrez, Mexico
| | - Joaquin Arroyo-Cabrales
- Laboratorio de Arqueozoología, Subdirección de Laboratorios y Apoyo Académico, Instituto Nacional de Antropología e Historia, Mexico City, Mexico
| | - Martin Sikora
- Lundbeck Foundation GeoGenetics Centre, University of Copenhagen, Copenhagen, Denmark
| | - Yam Zul E Ocampo-Díaz
- Facultad de Ingeniería, Universidad Autónoma de San Luís Potosí, San Luis Potosí, Mexico.,Grupo de Geología Exógena y del Sedimentario, San Luis Potosí, Mexico
| | | | - Jennifer G Watling
- Laboratório de Arqueologia dos Trópicos, Museu de Arqueologia e Etnologia, Universidade de São Paulo, São Paulo, Brazil
| | - Vanda B de Medeiros
- Laboratório de Micropaleontologia, Instituto de Geociências, Universidade de São Paulo, São Paulo, Brazil
| | - Paulo E De Oliveira
- Laboratório de Micropaleontologia, Instituto de Geociências, Universidade de São Paulo, São Paulo, Brazil.,Botany Department, The Field Museum of Natural History, Chicago, IL, USA
| | - Luis Barba-Pingarón
- Laboratorio de Prospección Arqueológica, Instituto de Investigaciones Antropológicas (IIA), Universidad Nacional Autónoma de México (UNAM), Mexico City, Mexico
| | - Agustín Ortiz-Butrón
- Laboratorio de Prospección Arqueológica, Instituto de Investigaciones Antropológicas (IIA), Universidad Nacional Autónoma de México (UNAM), Mexico City, Mexico
| | - Jorge Blancas-Vázquez
- Laboratorio de Prospección Arqueológica, Instituto de Investigaciones Antropológicas (IIA), Universidad Nacional Autónoma de México (UNAM), Mexico City, Mexico
| | - Irán Rivera-González
- Laboratorio de Palinología, Escuela Nacional de Antropología e Historia (ENAH), Mexico City, Mexico
| | - Corina Solís-Rosales
- Laboratorio de Espectrometría de Masas con Aceleradores, Instituto de Física, Universidad Nacional Autónoma de México (UNAM), Mexico City, Mexico
| | - María Rodríguez-Ceja
- Laboratorio de Espectrometría de Masas con Aceleradores, Instituto de Física, Universidad Nacional Autónoma de México (UNAM), Mexico City, Mexico
| | - Devlin A Gandy
- Department of Archaeology, University of Cambridge, Cambridge, UK
| | | | | | | | | | | | - Alejandro López-Jiménez
- Laboratorio de Arqueozoología, Subdirección de Laboratorios y Apoyo Académico, Instituto Nacional de Antropología e Historia, Mexico City, Mexico
| | - Thomas Higham
- Research Laboratory for Archaeology and History of Art, University of Oxford, Oxford, UK
| | - Eske Willerslev
- Lundbeck Foundation GeoGenetics Centre, University of Copenhagen, Copenhagen, Denmark. .,Welcome Trust, Sanger Institute, Hinxton, UK. .,The Danish Institute for Advanced Study, University of Southern Denmark, Odense, Denmark. .,Department of Zoology, University of Cambridge, Cambridge, UK.
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15
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MacDonald BL, Chatters JC, Reinhardt EG, Devos F, Meacham S, Rissolo D, Rock B, Le Maillot C, Stalla D, Marino MD, Lo E, Erreguerena PL. Paleoindian ochre mines in the submerged caves of the Yucatán Peninsula, Quintana Roo, Mexico. SCIENCE ADVANCES 2020; 6:6/27/eaba1219. [PMID: 32937451 PMCID: PMC7458451 DOI: 10.1126/sciadv.aba1219] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2019] [Accepted: 05/22/2020] [Indexed: 06/10/2023]
Abstract
Investigations in the now-submerged cave systems on the Yucatán Peninsula continue to yield evidence for human presence during the Pleistocene-Holocene transition. Skeletal remains are scattered throughout the caves of Quintana Roo, most representing individuals who died in situ. The reasons why they explored these underground environments have remained unclear. Here, we announce the discovery of the first subterranean ochre mine of Paleoindian age found in the Americas, offering compelling evidence for mining in three cave systems on the eastern Yucatán over a ~2000-year period between ~12 and 10 ka. The cave passages exhibit preserved evidence for ochre extraction pits, speleothem digging tools, shattered and piled flowstone debris, cairn navigational markers, and hearths yielding charcoal from highly resinous wood species. The sophistication and extent of the activities demonstrate a readiness to venture into the dark zones of the caves to prospect and collect what was evidently a highly valued mineral resource.
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Affiliation(s)
- Brandi L MacDonald
- Archaeometry Laboratory, University of Missouri Research Reactor, Columbia, MO 65211, USA.
| | - James C Chatters
- Applied Paleoscience, Bothell, WA 98011, USA.
- DirectAMS, Bothell, WA 98011, USA
| | - Eduard G Reinhardt
- School of Geography and Earth Sciences, McMaster University, Hamilton, ON L8S 4K1, Canada.
| | - Fred Devos
- Centro Investigador del Sistema Acuífero de Q Roo (CINDAQ A.C.), Puerto Aventuras, Q Roo, Mexico
| | - Sam Meacham
- Centro Investigador del Sistema Acuífero de Q Roo (CINDAQ A.C.), Puerto Aventuras, Q Roo, Mexico
| | - Dominique Rissolo
- Qualcomm Institute, University of California, San Diego, La Jolla, CA, 92093-0436, USA
| | - Barry Rock
- Department of Natural Resources and the Environment, University of New Hampshire, Durham, NH 03824, USA
| | - Chris Le Maillot
- Centro Investigador del Sistema Acuífero de Q Roo (CINDAQ A.C.), Puerto Aventuras, Q Roo, Mexico
| | - David Stalla
- Electron Microscopy Core, University of Missouri, Columbia, MO 65211, USA
| | - Marc D Marino
- Archaeometry Laboratory, University of Missouri Research Reactor, Columbia, MO 65211, USA
- Department of Anthropology, University of Arkansas, Fayetteville, AR 72704, USA
| | - Eric Lo
- Qualcomm Institute, University of California, San Diego, La Jolla, CA, 92093-0436, USA
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16
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Lendvay B, Cartier LE, Gysi M, Meyer JB, Krzemnicki MS, Kratzer A, Morf NV. DNA fingerprinting: an effective tool for taxonomic identification of precious corals in jewelry. Sci Rep 2020; 10:8287. [PMID: 32427854 PMCID: PMC7237452 DOI: 10.1038/s41598-020-64582-4] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2019] [Accepted: 04/17/2020] [Indexed: 11/09/2022] Open
Abstract
Precious coral species have been used to produce jewelry and ornaments since antiquity. Due to the high value and demand for corals, some coral beds have been heavily fished over past centuries. Fishing and international trade regulations were put in place to regulate fishing practices in recent decades. To this date, the control of precious coral exploitation and enforcement of trade rules have been somewhat impaired by the fact that different species of worked coral samples can be extremely difficult to distinguish, even for trained experts. Here, we developed methods to use DNA recovered from precious coral samples worked for jewelry to identify their species. We evaluated purity and quantity of DNA extracted using five different techniques. Then, a minimally invasive sampling protocol was tested, which allowed genetic analysis without compromising the value of the worked coral objects.The best performing DNA extraction technique applies decalcification of the skeletal material with EDTA in the presence of laurylsarcosyl and proteinase, and purification of the DNA with a commercial silica membrane. This method yielded pure DNA in all cases using 100 mg coral material and in over half of the cases when using "quasi non-destructive" sampling with sampled material amounts as low as 2.3 mg. Sequence data of the recovered DNA gave an indication that the range of precious coral species present in the trade is broader than previously anticipated.
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Affiliation(s)
- Bertalan Lendvay
- Zurich Institute of Forensic Medicine, University of Zurich, Winterthurerstrasse 190/52, CH-8057, Zurich, Switzerland. .,Swiss Gemmological Institute SSEF, Aeschengraben 26, CH-4051, Basel, Switzerland.
| | - Laurent E Cartier
- Swiss Gemmological Institute SSEF, Aeschengraben 26, CH-4051, Basel, Switzerland.,Institute of Earth Sciences, University of Lausanne, Géopolis, CH-1015, Lausanne, Switzerland
| | - Mario Gysi
- Zurich Institute of Forensic Medicine, University of Zurich, Winterthurerstrasse 190/52, CH-8057, Zurich, Switzerland
| | - Joana B Meyer
- Federal Office for the Environment FOEN, Worblentalstrasse 68, CH-3063, Ittigen, Switzerland
| | - Michael S Krzemnicki
- Swiss Gemmological Institute SSEF, Aeschengraben 26, CH-4051, Basel, Switzerland
| | - Adelgunde Kratzer
- Zurich Institute of Forensic Medicine, University of Zurich, Winterthurerstrasse 190/52, CH-8057, Zurich, Switzerland
| | - Nadja V Morf
- Zurich Institute of Forensic Medicine, University of Zurich, Winterthurerstrasse 190/52, CH-8057, Zurich, Switzerland
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17
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Stinnesbeck W, Rennie SR, Avilés Olguín J, Stinnesbeck SR, Gonzalez S, Frank N, Warken S, Schorndorf N, Krengel T, Velázquez Morlet A, González González A. New evidence for an early settlement of the Yucatán Peninsula, Mexico: The Chan Hol 3 woman and her meaning for the Peopling of the Americas. PLoS One 2020; 15:e0227984. [PMID: 32023279 PMCID: PMC7001910 DOI: 10.1371/journal.pone.0227984] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2019] [Accepted: 01/04/2020] [Indexed: 11/18/2022] Open
Abstract
Human presence on the Yucatán Peninsula reaches back to the Late Pleistocene. Osteological evidence comes from submerged caves and sinkholes (cenotes) near Tulum in the Mexican state of Quintana Roo. Here we report on a new skeleton discovered by us in the Chan Hol underwater cave, dating to a minimum age of 9.9±0.1 ky BP based on 230Th/U-dating of flowstone overlying and encrusting human phalanges. This is the third Paleoindian human skeleton with mesocephalic cranial characteristics documented by us in the cave, of which a male individual named Chan Hol 2 described recently is one of the oldest human skeletons found on the American continent. The new discovery emphasizes the importance of the Chan Hol cave and other systems in the Tulum area for understanding the early peopling of the Americas. The new individual, here named Chan Hol 3, is a woman of about 30 years of age with three cranial traumas. There is also evidence for a possible trepanomal bacterial disease that caused severe alteration of the posterior parietal and occipital bones of the cranium. This is the first time that the presence of such disease is reported in a Paleoindian skeleton in the Americas. All ten early skeletons found so far in the submerged caves from the Yucatán Peninsula have mesocephalic cranial morphology, different to the dolicocephalic morphology for Paleoindians from Central Mexico with equivalent dates. This supports the presence of two morphologically different Paleoindian populations for Mexico, coexisting in different geographical areas during the Late Pleistocene-Early Holocene.
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Affiliation(s)
- Wolfgang Stinnesbeck
- Institut für Geowissenschaften, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
- * E-mail:
| | - Samuel R. Rennie
- School of Biological and Environmental Sciences, Liverpool John Moores University, Liverpool, United Kingdom
- Department of Archaeology and Anthropology, Bournemouth University, Poole, United Kingdom
| | - Jerónimo Avilés Olguín
- Museo del Desierto, Carlos Abedrop Dávila, Nuevo Centro Metropolitano de Saltillo, Saltillo, Coahuila, Mexico
| | - Sarah R. Stinnesbeck
- Staatliches Museum für Naturkunde Karlsruhe, Geowissenschaftliche Abteilung, Erbprinzstrasse, Karlsuhe, Germany
| | - Silvia Gonzalez
- School of Biological and Environmental Sciences, Liverpool John Moores University, Liverpool, United Kingdom
| | - Norbert Frank
- Institut für Geowissenschaften, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
- Institut für Umweltphysik, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
| | - Sophie Warken
- Institut für Geowissenschaften, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
- Institut für Umweltphysik, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
| | - Nils Schorndorf
- Institut für Geowissenschaften, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
| | - Thomas Krengel
- Institut für Geowissenschaften, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
- Institut für Umweltphysik, Universität Heidelberg, Im Neuenheimer Feld, Heidelberg, Germany
| | | | - Arturo González González
- Museo del Desierto, Carlos Abedrop Dávila, Nuevo Centro Metropolitano de Saltillo, Saltillo, Coahuila, Mexico
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18
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Hubbe M, Terrazas Mata A, Herrera B, Benavente Sanvicente ME, González González A, Rojas Sandoval C, Avilés Olguín J, Acevez Núñez E, Von Cramon-Taubadel N. Morphological variation of the early human remains from Quintana Roo, Yucatán Peninsula, Mexico: Contributions to the discussions about the settlement of the Americas. PLoS One 2020; 15:e0227444. [PMID: 31995578 PMCID: PMC6988924 DOI: 10.1371/journal.pone.0227444] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2019] [Accepted: 12/18/2019] [Indexed: 11/24/2022] Open
Abstract
The human settlement of the Americas has been a topic of intense debate for centuries, and there is still no consensus on the tempo and mode of early human dispersion across the continent. When trying to explain the biological diversity of early groups across North, Central and South America, studies have defended a wide range of dispersion models that tend to oversimplify the diversity observed across the continent. In this study, we aim to contribute to this debate by exploring the cranial morphological affinities of four late Pleistocene/early Holocene specimens recovered from the caves of Quintana Roo, Mexico. The four specimens are among the earliest human remains known in the continent and permit the contextualization of biological diversity present during the initial millennia of human presence in the Americas. The specimens were compared to worldwide reference series through geometric morphometric analyses of 3D anatomical landmarks. Morphological data were analyzed through exploratory visual multivariate analyses and multivariate classification based on Mahalanobis distances. The results show very different patterns of morphological association for each Quintana Roo specimen, suggesting that the early populations of the region already shared a high degree of morphological diversity. This contrasts with previous studies of South American remains and opens the possibility that the initial populations of North America already had a high level of morphological diversity, which was reduced as populations dispersed into the southern continent. As such, the study of these rare remains illustrates that we are probably still underestimating the biological diversity of early Americans.
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Affiliation(s)
- Mark Hubbe
- Department of Anthropology, Ohio State University, Columbus, OH, United States of America
- Instituto de Arqueología y Antropología, Universidad Católica del Norte, San Pedro de Atacama, Chile
- * E-mail:
| | - Alejandro Terrazas Mata
- Instituto de Investigaciones Antropológicas, Universidad Nacional Autónoma de México, Ciudad de México, Mexico
| | - Brianne Herrera
- Department of Anthropology, Ohio State University, Columbus, OH, United States of America
| | - Martha E. Benavente Sanvicente
- Laboratorio de Prehistoria y Evolución del Instituto de Investigaciones Antropológicas, Universidad Nacional Autónoma de México, Ciudad de México, Mexico
| | | | | | | | | | - Noreen Von Cramon-Taubadel
- Department of Anthropology, State University of New York – Buffalo, Buffalo, NY, United States of America
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19
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Eyquem AP, Kuzminsky SC, Aguilera J, Astudillo W, Toro-Ibacache V. Normal and altered masticatory load impact on the range of craniofacial shape variation: An analysis of pre-Hispanic and modern populations of the American Southern Cone. PLoS One 2019; 14:e0225369. [PMID: 31826020 PMCID: PMC6905515 DOI: 10.1371/journal.pone.0225369] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/02/2019] [Accepted: 11/04/2019] [Indexed: 01/31/2023] Open
Abstract
The reduction of masticatory load intensity resulting from dietary changes in human evolution has been proposed as an important factor that alters craniofacial shape in past and current populations. However, its impact on craniofacial variation and on the perceived differences among populations is unclear. The maxillomandibular relationship, which alters masticatory force direction, is a factor often neglected but it can contribute to variation in craniofacial morphology, particularly among modern/urban populations where the prevalence of dental malocclusions is greater than in prehistoric populations. This study investigates the influence of masticatory load intensity and maxillomandibular relationship as a proxy for force direction on the human craniofacial skeleton. By using 3D imaging and geometric morphometrics, we analyzed craniofacial shape variation among 186 individuals from pre-Hispanic and modern Chilean and Argentinean populations that differ in diet consistency (a proxy for masticatory load intensity) and maxillomandibular relationship. We predicted that masticatory load would have a subtle effect on the upper craniofacial bones and that this would be more marked in the maxilla. Our results showed no clear influence of masticatory load on craniofacial shape, particularly in modern/urban populations. Allometry, on the contrary, shows a stronger effect. The degree of integration between the upper craniofacial bones and the load-bearing maxilla depends on masticatory load intensity, decreasing from high to low but showing a conservative pattern of covariation among the groups. The degree of variation in the shape of the maxilla is greater than the upper craniofacial bones. These results suggest that masticatory load has a limited effect in determining differences in craniofacial morphology among populations. This effect is slightly greater for the maxillary region of the face. We propose that the reduction of functional constraints is key to greater shape variation found in modern/urban populations.
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Affiliation(s)
- Andrea P. Eyquem
- Centro de Análisis Cuantitativo en Antropología Dental, Facultad de Odontología, Universidad de Chile, Santiago, Chile
- Max Planck Weizmann Center for Integrative Archaeology and Anthropology, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Susan C. Kuzminsky
- Department of Anthropology and Applied Archaeology, Eastern New Mexico University, Portales, New Mexico, United States of America
- Anthropology Department, University of California, Santa Cruz, California, United States of America
| | - José Aguilera
- Facultad de Medicina and Hospital Clínico, Universidad de Chile, Santiago, Chile
| | - Williams Astudillo
- Facultad de Medicina and Hospital Clínico, Universidad de Chile, Santiago, Chile
| | - Viviana Toro-Ibacache
- Centro de Análisis Cuantitativo en Antropología Dental, Facultad de Odontología, Universidad de Chile, Santiago, Chile
- Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
- * E-mail: ,
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20
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Cucina A, Herrera Atoche R, Chatters JC. Oral health and diet of a young Late Pleistocene woman from Quintana Roo, Mexico. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2019; 170:246-259. [DOI: 10.1002/ajpa.23884] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2019] [Revised: 05/24/2019] [Accepted: 06/07/2019] [Indexed: 11/09/2022]
Affiliation(s)
- Andrea Cucina
- Facultad de Ciencias AntropológicasUniversidad Autónoma de Yucatán Mérida Yucatán Mexico
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21
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Schubert BW, Chatters JC, Arroyo-Cabrales J, Samuels JX, Soibelzon LH, Prevosti FJ, Widga C, Nava A, Rissolo D, Erreguerena PL. Yucatán carnivorans shed light on the Great American Biotic Interchange. Biol Lett 2019; 15:20190148. [PMID: 31039726 PMCID: PMC6548739 DOI: 10.1098/rsbl.2019.0148] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2019] [Accepted: 04/08/2019] [Indexed: 11/12/2022] Open
Abstract
The Great American Biotic Interchange is considered to be a punctuated process, primarily occurring during four major pulses that began approximately 2.5 Ma. Central America and southeastern Mexico have a poor fossil record of this dynamic faunal history due to tropical climates. Exploration of submerged caves in the Yucatán, particularly the natural trap Hoyo Negro, is exposing a rich and remarkably well-preserved late Pleistocene fauna. Radiometric dates on megafauna range from approximately 38 400-12 850 cal BP, and extinct species include the ursid Arctotherium wingei and canid Protocyon troglodytes. Both genera were previously thought to be indigenous to and confined to South America and appear to represent an instance of large placental mammals, descended from North American progenitors, migrating back north across the Panama Isthmus. This discovery expands the distribution of these carnivorans greater than 2000 km outside South America. Their presence along with a diverse sloth assemblage suggests a more complex history of these organisms in Middle America. We suggest that landscape and ecological changes caused by latest Pleistocene glaciation supported an interchange pulse that included A. wingei, P. troglodytes and Homo sapiens.
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Affiliation(s)
- Blaine W. Schubert
- Center of Excellence in Paleontology and Department of Geosciences, East Tennessee State University (ETSU), Johnson City, TN 37614, USA
| | - James C. Chatters
- Applied Paleoscience and DirectAMS, 10322 NE 190th Street, Bothell, WA 98011, USA
| | - Joaquin Arroyo-Cabrales
- Laboratorio de Arqueozoologia, Subdireccion de Laboratorios y Apoyo Academico, INAH, Moneda 16, Col. Centro, CdMx 06060, Mexico
| | - Joshua X. Samuels
- Center of Excellence in Paleontology and Department of Geosciences, East Tennessee State University (ETSU), Johnson City, TN 37614, USA
| | | | - Francisco J. Prevosti
- Centro Regional de Investigaciones Científicas y Transferencia Tecnológica de La Rioja (CRILAR), Provincia de La Rioja, UNLaR, SEGEMAR, UNCa, CONICET, Entre Ríos y Mendoza s/n, 5301 – Anillaco, La Rioja, Argentina
- Departamento de Ciencias Exactas, Físicas y Naturales, Universidad Nacional de La Rioja (UNLaR), Av. Luis M. de la Fuente S/N, 5300 La Rioja, Argentina
| | - Christopher Widga
- Center of Excellence in Paleontology and Department of Geosciences, East Tennessee State University (ETSU), Johnson City, TN 37614, USA
| | - Alberto Nava
- Bay Area Underwater Explorers, Berkeley, CA, USA
| | | | - Pilar Luna Erreguerena
- Subdireccion de Arqueologia Subacuatica, INAH, Moneda 16, Col. Centro, CdMx 06060, Mexico
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22
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Kurnick S. Creating Nature in the Yucatan Peninsula: Social Inequality and the Production of Eco‐Archaeological Parks. AMERICAN ANTHROPOLOGIST 2019. [DOI: 10.1111/aman.13234] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Sarah Kurnick
- Department of Anthropology University of Colorado Boulder CO 80309 USA
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23
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Moreno-Mayar JV, Vinner L, de Barros Damgaard P, de la Fuente C, Chan J, Spence JP, Allentoft ME, Vimala T, Racimo F, Pinotti T, Rasmussen S, Margaryan A, Iraeta Orbegozo M, Mylopotamitaki D, Wooller M, Bataille C, Becerra-Valdivia L, Chivall D, Comeskey D, Devièse T, Grayson DK, George L, Harry H, Alexandersen V, Primeau C, Erlandson J, Rodrigues-Carvalho C, Reis S, Bastos MQR, Cybulski J, Vullo C, Morello F, Vilar M, Wells S, Gregersen K, Hansen KL, Lynnerup N, Mirazón Lahr M, Kjær K, Strauss A, Alfonso-Durruty M, Salas A, Schroeder H, Higham T, Malhi RS, Rasic JT, Souza L, Santos FR, Malaspinas AS, Sikora M, Nielsen R, Song YS, Meltzer DJ, Willerslev E. Early human dispersals within the Americas. Science 2018; 362:science.aav2621. [DOI: 10.1126/science.aav2621] [Citation(s) in RCA: 102] [Impact Index Per Article: 17.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Accepted: 10/30/2018] [Indexed: 12/16/2022]
Abstract
Studies of the peopling of the Americas have focused on the timing and number of initial migrations. Less attention has been paid to the subsequent spread of people within the Americas. We sequenced 15 ancient human genomes spanning from Alaska to Patagonia; six are ≥10,000 years old (up to ~18× coverage). All are most closely related to Native Americans, including those from an Ancient Beringian individual and two morphologically distinct “Paleoamericans.” We found evidence of rapid dispersal and early diversification that included previously unknown groups as people moved south. This resulted in multiple independent, geographically uneven migrations, including one that provides clues of a Late Pleistocene Australasian genetic signal, as well as a later Mesoamerican-related expansion. These led to complex and dynamic population histories from North to South America.
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Casas-Vargas A, Romero LM, Rodríguez JV, Usaquén M W. Análisis de ADN mitocondrial en una muestra de restos óseos precolombinos de Norte de Santander, Colombia (Área Cultural Chitarera). ACTA BIOLÓGICA COLOMBIANA 2018. [DOI: 10.15446/abc.v23n3.65407] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022] Open
Abstract
Los análisis de ADN antiguo (ADNa) han incrementado en los últimos años permitiendo conocer la diversidad genética de las poblaciones precolombinas. En Colombia, existen pocos registros arqueológicos de la población prehispánica del Norte de Santander habitada en el siglo XVI por el grupo Chitarero. Por este motivo, nos propusimos analizar la diversidad genética a partir de secuencias de la región HVRI del ADNmt y determinar sus posibles relaciones con otras comunidades tanto antiguas como contemporáneas. Se analizaron siete individuos precolombinos asociados a este grupo prehispánico, recuperados en los municipios de Cácota y Silos en el departamento de Norte de Santander de los Andes Orientales colombianos, siguiendo criterios estrictos de autenticidad para el ADNa. En todos los individuos se logró identificar el haplogrupo B caracterizado por el polimorfismo en la posición 16217C, siendo éste uno de los más frecuentes en comunidades precolombinas y contemporáneas de los Andes Suramericanos. Este hallazgo indica que este grupo poblacional se encuentra estrechamente emparentado por línea materna, con posibles índices de endogamia, con una probable densidad demográfica baja y una baja diversidad genética, similares a lo observado en comunidades pertenecientes a periodos anteriores como el Formativo. Este grupo precolombino exhibe una de las diversidades genéticas más bajas reportadas en las poblaciones pertenecientes a la familia lingüistica Chibcha. Estos resultados genéticos coinciden con los planteamientos sobre el grupo Chitarero de pertenecer a comunidades pequeñas independientes, con asentamientos dispersos, apartados unos de otros.
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Szathmáry EJE, Zegura SL, Hammer MF. Exceeding Hrdlička's aims: 100 Years of genetics in anthropology. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2018; 165:754-776. [PMID: 29574830 DOI: 10.1002/ajpa.23406] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2017] [Revised: 12/21/2017] [Accepted: 12/21/2017] [Indexed: 11/10/2022]
Affiliation(s)
- Emőke J E Szathmáry
- Department of Anthropology, St. Paul's College, University of Manitoba, 70 Dysart Road, Winnipeg, Manitoba, R3T 2M6, Canada
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Affiliation(s)
- Bryan Hockett
- Bureau of Land Management, Nevada State Office, Reno, NV, USA
| | - Emily Palus
- Bureau of Land Management, Washington, DC, USA
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Morales-Arce AY, Hofman CA, Duggan AT, Benfer AK, Katzenberg MA, McCafferty G, Warinner C. Successful reconstruction of whole mitochondrial genomes from ancient Central America and Mexico. Sci Rep 2017; 7:18100. [PMID: 29273718 PMCID: PMC5741722 DOI: 10.1038/s41598-017-18356-0] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2017] [Accepted: 12/11/2017] [Indexed: 11/29/2022] Open
Abstract
The northern and southern peripheries of ancient Mesoamerica are poorly understood. There has been speculation over whether borderland cultures such as Greater Nicoya and Casas Grandes represent Mesoamerican outposts in the Isthmo-Colombian area and the Greater Southwest, respectively. Poor ancient DNA preservation in these regions challenged previous attempts to resolve these questions using conventional genetic techniques. We apply advanced in-solution mitogenome capture and high-throughput sequencing to fourteen dental samples obtained from the Greater Nicoya sites of Jícaro and La Cascabel in northwest Costa Rica (n = 9; A.D. 800–1250) and the Casas Grandes sites of Paquimé and Convento in northwest Mexico (n = 5; A.D. 1200–1450). Full mitogenome reconstruction was successful for three individuals from Jícaro and five individuals from Paquimé and Convento. The three Jícaro individuals belong to haplogroup B2d, a haplogroup found today only among Central American Chibchan-speakers. The five Paquimé and Convento individuals belong to haplogroups C1c1a, C1c5, B2f and B2a which, are found in contemporary populations in North America and Mesoamerica. We report the first successfully reconstructed ancient mitogenomes from Central America, and the first genetic evidence of ancestry affinity of the ancient inhabitants of Greater Nicoya and Casas Grandes with contemporary Isthmo-Columbian and Greater Southwest populations, respectively.
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Affiliation(s)
- Ana Y Morales-Arce
- Department of Anthropology and Archaeology, University of Calgary, Calgary, Alberta, T2N 1N4, Canada.
| | - Courtney A Hofman
- Department of Anthropology, University of Oklahoma, Norman, Oklahoma, 73019, USA
| | - Ana T Duggan
- McMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, Ontario, L8S 4L8, Canada
| | - Adam K Benfer
- Department of Anthropology and Archaeology, University of Calgary, Calgary, Alberta, T2N 1N4, Canada
| | - M Anne Katzenberg
- Department of Anthropology and Archaeology, University of Calgary, Calgary, Alberta, T2N 1N4, Canada
| | - Geoffrey McCafferty
- Department of Anthropology and Archaeology, University of Calgary, Calgary, Alberta, T2N 1N4, Canada
| | - Christina Warinner
- Department of Anthropology, University of Oklahoma, Norman, Oklahoma, 73019, USA. .,Department of Archaeogenetics, Max Planck Institute for the Science of Human History, Jena, 07743, Germany.
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Kuzminsky SC, Reyes Báez O, Arriaza B, Méndez C, Standen VG, San Román M, Muñoz I, Durán Herrera Á, Hubbe M. Investigating cranial morphological variation of early human skeletal remains from Chile: A 3D geometric morphometric approach. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2017; 165:223-237. [PMID: 29090737 DOI: 10.1002/ajpa.23344] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/08/2017] [Revised: 09/25/2017] [Accepted: 10/07/2017] [Indexed: 11/11/2022]
Abstract
OBJECTIVES Archaeological and genetic research has demonstrated that the Pacific Coast was a key route in the early colonization of South America. Research examining South American skeletons >8000 cal BP has revealed differences in cranial morphology between early and late Holocene populations, which may reflect distinct migration events and/or populations. However, genetic, cultural, and some skeletal data contradict this model. Given these discrepancies, this study examines ∼9000 years of prehistory to test the hypothesis that Early skeletons have a distinct cranial morphology from later skeletons. MATERIALS AND METHODS Using 3D digital models, craniofacial landmarks, and geometric morphometric analyses, we compared Early Holocene crania (n = 4) to later Chilean samples (n = 90) frequently absent in continental assessments of craniofacial variation. PCA, Mahalanobis distances, posterior and typicality probabilities were used to examine variation. RESULTS Two of the earliest skeletons from northern Chile show clear affinities to individuals from later sites in the same region. However, the hypothesis cannot be rejected as one Early individual from northern Chile and one individual from inland Patagonia did not always show clear affinities to coastal populations. DISCUSSION Biological affinities among northern populations and other regions of Chile align with genetic and archaeological data, supporting cultural and biological continuity along the Pacific Coast. In Patagonia, archaeological data are in accordance with skeletal differences between the Early inland steppe individual and coastal populations. This study incorporates 3D methods and skeletal datasets not widely used in assessments of biological affinity, thus contributing to a critical body of research examining the ancient population history of western South America.
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Affiliation(s)
- Susan C Kuzminsky
- Instituto de Investigaciones Arqueológicas y Museo R.P Gustavo Le Paige, Universidad Católica del Norte, Gustavo Le Paige 380, San Pedro de Atacama, Chile.,Anthropology Department, University of California, 156 High Street, Santa Cruz, California
| | - Omar Reyes Báez
- Centro de Estudios del Hombre Austral, Instituto de la Patagonia, Universidad de Magallanes, Avenida Bulnes 01890 Casilla 113D, Punta Arenas, Chile
| | - Bernardo Arriaza
- Instituto de Alta Investigación, Universidad de Tarapacá, Arica, Chile
| | - César Méndez
- Centro de Investigación en Ecosistemas de la Patagonia, Moraleda 16, Coyhaique, Chile
| | - Vivien G Standen
- Departamento de Antropología, Universidad de Tarapacá, 18 de Septiembre 2222, Casilla 6-D, Arica, Chile
| | - Manuel San Román
- Centro de Estudios del Hombre Austral, Instituto de la Patagonia, Universidad de Magallanes, Avenida Bulnes 01890 Casilla 113D, Punta Arenas, Chile
| | - Iván Muñoz
- Departamento de Antropología, Universidad de Tarapacá, 18 de Septiembre 2222, Casilla 6-D, Arica, Chile
| | | | - Mark Hubbe
- Instituto de Investigaciones Arqueológicas y Museo R.P Gustavo Le Paige, Universidad Católica del Norte, Gustavo Le Paige 380, San Pedro de Atacama, Chile.,Department of Anthropology, 4034 Smith Laboratory, The Ohio State University, 174 W. 18th Avenue, Columbus, Ohio
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Updating Bark Proportions for the Estimation of Tropical Timber Volumes by Indigenous Community-Based Forest Enterprises in Quintana Roo, Mexico. FORESTS 2017. [DOI: 10.3390/f8090338] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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The earliest settlers of Mesoamerica date back to the late Pleistocene. PLoS One 2017; 12:e0183345. [PMID: 28854194 PMCID: PMC5576649 DOI: 10.1371/journal.pone.0183345] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Accepted: 08/02/2017] [Indexed: 11/23/2022] Open
Abstract
Preceramic human skeletal remains preserved in submerged caves near Tulum in the Mexican state of Quintana Roo, Mexico, reveal conflicting results regarding 14C dating. Here we use U-series techniques for dating a stalagmite overgrowing the pelvis of a human skeleton discovered in the submerged Chan Hol cave. The oldest closed system U/Th age comes from around 21 mm above the pelvis defining the terminus ante quem for the pelvis to 11311±370 y BP. However, the skeleton might be considerable older, probably as old as 13 ky BP as indicated by the speleothem stable isotope data. The Chan Hol individual confirms a late Pleistocene settling of Mesoamerica and represents one of the oldest human osteological remains in America.
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Herrera B, Peart D, Hernandez N, Spradley K, Hubbe M. Morphological variation among late holocene Mexicans: Implications for discussions about the human occupation of the Americas. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2017; 163:75-84. [DOI: 10.1002/ajpa.23186] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Revised: 01/18/2017] [Accepted: 01/24/2017] [Indexed: 11/06/2022]
Affiliation(s)
- Brianne Herrera
- Department of Anthropology; The Ohio State University; Columbus Ohio
| | - Daniel Peart
- Department of Anthropology; The Ohio State University; Columbus Ohio
| | - Nicole Hernandez
- Department of Anthropology; The Ohio State University; Columbus Ohio
| | - Kate Spradley
- Department of Anthropology; Texas State University; San Marcos Texas
| | - Mark Hubbe
- Department of Anthropology; The Ohio State University; Columbus Ohio
- Instituto de Arqueología y Antropología; Universidad Católica del Norte; Chile
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Kehlmaier C, Barlow A, Hastings AK, Vamberger M, Paijmans JLA, Steadman DW, Albury NA, Franz R, Hofreiter M, Fritz U. Tropical ancient DNA reveals relationships of the extinct Bahamian giant tortoise Chelonoidis alburyorum. Proc Biol Sci 2017; 284:20162235. [PMID: 28077774 PMCID: PMC5247498 DOI: 10.1098/rspb.2016.2235] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2016] [Accepted: 11/29/2016] [Indexed: 12/13/2022] Open
Abstract
Ancient DNA of extinct species from the Pleistocene and Holocene has provided valuable evolutionary insights. However, these are largely restricted to mammals and high latitudes because DNA preservation in warm climates is typically poor. In the tropics and subtropics, non-avian reptiles constitute a significant part of the fauna and little is known about the genetics of the many extinct reptiles from tropical islands. We have reconstructed the near-complete mitochondrial genome of an extinct giant tortoise from the Bahamas (Chelonoidis alburyorum) using an approximately 1 000-year-old humerus from a water-filled sinkhole (blue hole) on Great Abaco Island. Phylogenetic and molecular clock analyses place this extinct species as closely related to Galápagos (C. niger complex) and Chaco tortoises (C. chilensis), and provide evidence for repeated overseas dispersal in this tortoise group. The ancestors of extant Chelonoidis species arrived in South America from Africa only after the opening of the Atlantic Ocean and dispersed from there to the Caribbean and the Galápagos Islands. Our results also suggest that the anoxic, thermally buffered environment of blue holes may enhance DNA preservation, and thus are opening a window for better understanding evolution and population history of extinct tropical species, which would likely still exist without human impact.
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Affiliation(s)
- Christian Kehlmaier
- Museum of Zoology, Senckenberg Dresden, A. B. Meyer Building, 01109 Dresden, Germany
| | - Axel Barlow
- Institute for Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Straße 24-25, 14476 Potsdam, OT Golm, Germany
| | - Alexander K Hastings
- Virginia Museum of Natural History, 21 Starling Avenue, Martinsville, VA 24112, USA
| | - Melita Vamberger
- Museum of Zoology, Senckenberg Dresden, A. B. Meyer Building, 01109 Dresden, Germany
| | - Johanna L A Paijmans
- Institute for Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Straße 24-25, 14476 Potsdam, OT Golm, Germany
| | - David W Steadman
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Nancy A Albury
- National Museum of The Bahamas, Marsh Harbour, Abaco, The Bahamas
| | - Richard Franz
- Florida Museum of Natural History, University of Florida, Gainesville, FL 32611, USA
| | - Michael Hofreiter
- Institute for Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Straße 24-25, 14476 Potsdam, OT Golm, Germany
| | - Uwe Fritz
- Museum of Zoology, Senckenberg Dresden, A. B. Meyer Building, 01109 Dresden, Germany
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Bolnick DA, Raff JA, Springs LC, Reynolds AW, Miró-Herrans AT. Native American Genomics and Population Histories. ANNUAL REVIEW OF ANTHROPOLOGY 2016. [DOI: 10.1146/annurev-anthro-102215-100036] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
Studies of Native American genetic diversity and population history have been transformed over the last decade by important developments in anthropological genetics. During this time, researchers have adopted new DNA technologies and computational approaches for analyzing genomic data, and they have become increasingly sensitive to the views of research participants and communities. As new methods are applied to long-standing questions, and as more research is conducted in collaboration with indigenous communities, we are gaining new insights into the history and diversity of indigenous populations. This review discusses the recent methodological advances and genetic studies that have improved our understanding of Native American genomics and population histories. We synthesize current knowledge about Native American genomic variation and build a model of population history in the Americas. We also discuss the broader implications of this research for anthropology and related disciplines, and we highlight challenges and other considerations for future research.
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Affiliation(s)
- Deborah A. Bolnick
- Department of Anthropology, University of Texas at Austin, Austin, Texas 78712;, , ,
- Population Research Center, University of Texas at Austin, Austin, Texas 78712
| | - Jennifer A. Raff
- Department of Anthropology, University of Kansas, Lawrence, Kansas 66045-7556
| | - Lauren C. Springs
- Department of Anthropology, University of Texas at Austin, Austin, Texas 78712;, , ,
| | - Austin W. Reynolds
- Department of Anthropology, University of Texas at Austin, Austin, Texas 78712;, , ,
- Department of Integrative Biology, University of Texas at Austin, Austin, Texas 78712
| | - Aida T. Miró-Herrans
- Department of Anthropology, University of Texas at Austin, Austin, Texas 78712;, , ,
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Galland M, Friess M. A three-dimensional geometric morphometrics view of the cranial shape variation and population history in the New World. Am J Hum Biol 2016; 28:646-61. [PMID: 26924543 DOI: 10.1002/ajhb.22845] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/14/2015] [Revised: 11/25/2015] [Accepted: 01/30/2016] [Indexed: 01/10/2023] Open
Abstract
OBJECTIVES Craniofacial variation in past and present Amerindians has been attributed to the effect of multiple founder events, or to one major migration followed by in situ differentiation and possibly recurrent contacts among Circum-Arctic groups. Our study aims to: (i) detect morphological differences that may indicate several migrations; (ii) test for the presence of genetic isolation; and (iii) test the correlation between shape data and competing settlement hypotheses by taking into account geography, chronology, climate effects, the presence of genetic isolation and recurrent gene flow. METHODS We analyzed a large sample of three-dimensional (3D) cranial surface scans (803 specimens) including past and modern groups from America and Australasia. Shape variation was investigated using geometric morphometrics. Differential external gene flow was evaluated by applying genetic concepts to morphometric data (Relethford-Blangero approach). Settlement hypotheses were tested using a matrix correlation approach (Mantel tests). RESULTS Our results highlight the strong dichotomy between Circum-Arctic and continental Amerindians as well as the impact of climate adaptation, and possibly recurrent gene flow in the Circum-Arctic area. There is also evidence for the impact of genetic isolation on phenetic variation in Baja California. Several settlement hypotheses are correlated with our data. CONCLUSIONS The three approaches used in this study highlight the importance of local processes especially in Baja California, and caution against the use of overly simplistic models when searching for the number of migration events. The results stress the complexity of the settlement of the Americas as well as the mosaic nature of the processes involved in this process. Am. J. Hum. Biol. 28:646-661, 2016. © 2016 Wiley Periodicals, Inc.
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Affiliation(s)
- Manon Galland
- School of Archaeology and Earth Institute, University College Dublin, Dublin, Ireland. .,Département Hommes, Natures, Sociétés & UMR 7206, Muséum national d'Histoire naturelle, Paris, France.
| | - Martin Friess
- Département Hommes, Natures, Sociétés & UMR 7206, Muséum national d'Histoire naturelle, Paris, France
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Two contemporaneous mitogenomes from terminal Pleistocene burials in eastern Beringia. Proc Natl Acad Sci U S A 2015; 112:13833-8. [PMID: 26504230 DOI: 10.1073/pnas.1511903112] [Citation(s) in RCA: 49] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023] Open
Abstract
Pleistocene residential sites with multiple contemporaneous human burials are extremely rare in the Americas. We report mitochondrial genomic variation in the first multiple mitochondrial genomes from a single prehistoric population: two infant burials (USR1 and USR2) from a common interment at the Upward Sun River Site in central Alaska dating to ∼11,500 cal B.P. Using a targeted capture method and next-generation sequencing, we determined that the USR1 infant possessed variants that define mitochondrial lineage C1b, whereas the USR2 genome falls at the root of lineage B2, allowing us to refine younger coalescence age estimates for these two clades. C1b and B2 are rare to absent in modern populations of northern North America. Documentation of these lineages at this location in the Late Pleistocene provides evidence for the extent of mitochondrial diversity in early Beringian populations, which supports the expectations of the Beringian Standstill Model.
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Demographic History of Indigenous Populations in Mesoamerica Based on mtDNA Sequence Data. PLoS One 2015; 10:e0131791. [PMID: 26292226 PMCID: PMC4546282 DOI: 10.1371/journal.pone.0131791] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2015] [Accepted: 06/08/2015] [Indexed: 11/19/2022] Open
Abstract
The genetic characterization of Native American groups provides insights into their history and demographic events. We sequenced the mitochondrial D-loop region (control region) of 520 samples from eight Mexican indigenous groups. In addition to an analysis of the genetic diversity, structure and genetic relationship between 28 Native American populations, we applied Bayesian skyline methodology for a deeper insight into the history of Mesoamerica. AMOVA tests applying cultural, linguistic and geographic criteria were performed. MDS plots showed a central cluster of Oaxaca and Maya populations, whereas those from the North and West were located on the periphery. Demographic reconstruction indicates higher values of the effective number of breeding females (Nef) in Central Mesoamerica during the Preclassic period, whereas this pattern moves toward the Classic period for groups in the North and West. Conversely, Nef minimum values are distributed either in the Lithic period (i.e. founder effects) or in recent periods (i.e. population declines). The Mesomerican regions showed differences in population fluctuation as indicated by the maximum Inter-Generational Rate (IGRmax): i) Center-South from the lithic period until the Preclassic; ii) West from the beginning of the Preclassic period until early Classic; iii) North characterized by a wide range of temporal variation from the Lithic to the Preclassic. Our findings are consistent with the genetic variations observed between central, South and Southeast Mesoamerica and the North-West region that are related to differences in genetic drift, structure, and temporal survival strategies (agriculture versus hunter-gathering, respectively). Interestingly, although the European contact had a major negative demographic impact, we detect a previous decline in Mesoamerica that had begun a few hundred years before.
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Skoglund P, Mallick S, Bortolini MC, Chennagiri N, Hünemeier T, Petzl-Erler ML, Salzano FM, Patterson N, Reich D. Genetic evidence for two founding populations of the Americas. Nature 2015. [PMID: 26196601 PMCID: PMC4982469 DOI: 10.1038/nature14895] [Citation(s) in RCA: 186] [Impact Index Per Article: 20.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
Genetic studies have been consistent with a single common origin of Native American groups from Central and South America1-4. However, some morphological studies have suggested a more complex picture, whereby the northeast Asian affinities of present-day Native Americans contrast with a distinctive morphology seen in some of the earliest American skeletons, which share traits with present-day Australasians (indigenous groups in Australia, Melanesia, and island southeast Asia)5-8. Here we analyze genome-wide data to show that some Amazonian Native Americans descend partly from a Native American founding population that carried ancestry more closely related to indigenous Australians, New Guineans and Andaman Islanders than to any present-day Eurasians or Native Americans. This signature is not present to the same extent or at all in present-day Northern and Central Americans or a ~12,600 year old Clovis genome, suggesting a more diverse set of founding populations of the Americas than previously accepted.
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Affiliation(s)
- Pontus Skoglund
- Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.,Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA
| | - Swapan Mallick
- Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.,Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA.,Howard Hughes Medical Institute, Harvard Medical School, Boston, Massachusetts 02115, USA
| | - Maria Cátira Bortolini
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, 91501-970 Porto Alegre, RS, Brazil
| | - Niru Chennagiri
- Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.,Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA
| | - Tábita Hünemeier
- Departamento de Genética e Biologia Evolutiva, Universidade de São Paulo, 05508-090, SP, Brazil
| | | | - Francisco Mauro Salzano
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, 91501-970 Porto Alegre, RS, Brazil
| | - Nick Patterson
- Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA
| | - David Reich
- Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA.,Broad Institute of Harvard and MIT, Cambridge, Massachusetts 02142, USA.,Howard Hughes Medical Institute, Harvard Medical School, Boston, Massachusetts 02115, USA
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Raghavan M, Steinrücken M, Harris K, Schiffels S, Rasmussen S, DeGiorgio M, Albrechtsen A, Valdiosera C, Ávila-Arcos MC, Malaspinas AS, Eriksson A, Moltke I, Metspalu M, Homburger JR, Wall J, Cornejo OE, Moreno-Mayar JV, Korneliussen TS, Pierre T, Rasmussen M, Campos PF, de Barros Damgaard P, Allentoft ME, Lindo J, Metspalu E, Rodríguez-Varela R, Mansilla J, Henrickson C, Seguin-Orlando A, Malmström H, Stafford T, Shringarpure SS, Moreno-Estrada A, Karmin M, Tambets K, Bergström A, Xue Y, Warmuth V, Friend AD, Singarayer J, Valdes P, Balloux F, Leboreiro I, Vera JL, Rangel-Villalobos H, Pettener D, Luiselli D, Davis LG, Heyer E, Zollikofer CPE, Ponce de León MS, Smith CI, Grimes V, Pike KA, Deal M, Fuller BT, Arriaza B, Standen V, Luz MF, Ricaut F, Guidon N, Osipova L, Voevoda MI, Posukh OL, Balanovsky O, Lavryashina M, Bogunov Y, Khusnutdinova E, Gubina M, Balanovska E, Fedorova S, Litvinov S, Malyarchuk B, Derenko M, Mosher MJ, Archer D, Cybulski J, Petzelt B, Mitchell J, Worl R, Norman PJ, Parham P, Kemp BM, Kivisild T, Tyler-Smith C, Sandhu MS, Crawford M, Villems R, Smith DG, Waters MR, Goebel T, Johnson JR, Malhi RS, Jakobsson M, Meltzer DJ, Manica A, Durbin R, Bustamante CD, Song YS, Nielsen R, Willerslev E. POPULATION GENETICS. Genomic evidence for the Pleistocene and recent population history of Native Americans. Science 2015. [PMID: 26198033 DOI: 10.1126/science.aab3884] [Citation(s) in RCA: 252] [Impact Index Per Article: 28.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
How and when the Americas were populated remains contentious. Using ancient and modern genome-wide data, we found that the ancestors of all present-day Native Americans, including Athabascans and Amerindians, entered the Americas as a single migration wave from Siberia no earlier than 23 thousand years ago (ka) and after no more than an 8000-year isolation period in Beringia. After their arrival to the Americas, ancestral Native Americans diversified into two basal genetic branches around 13 ka, one that is now dispersed across North and South America and the other restricted to North America. Subsequent gene flow resulted in some Native Americans sharing ancestry with present-day East Asians (including Siberians) and, more distantly, Australo-Melanesians. Putative "Paleoamerican" relict populations, including the historical Mexican Pericúes and South American Fuego-Patagonians, are not directly related to modern Australo-Melanesians as suggested by the Paleoamerican Model.
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Affiliation(s)
- Maanasa Raghavan
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Matthias Steinrücken
- Computer Science Division, University of California, Berkeley, CA 94720, USA.,Department of Statistics, University of California, Berkeley, CA 94720, USA.,Department of Biostatistics and Epidemiology, University of Massachusetts, Amherst, MA 01003, USA
| | - Kelley Harris
- Department of Mathematics, University of California, Berkeley, CA 94720, USA
| | - Stephan Schiffels
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
| | - Simon Rasmussen
- Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark, Kemitorvet, Building 208, 2800 Kongens Lyngby, Denmark
| | - Michael DeGiorgio
- Departments of Biology and Statistics, Pennsylvania State University, 502 Wartik Laboratory, University Park, PA 16802, USA
| | - Anders Albrechtsen
- The Bioinformatics Centre, Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen, Denmark
| | - Cristina Valdiosera
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,Department of Archaeology and History, La Trobe University, Melbourne, Victoria 3086, Australia
| | - María C Ávila-Arcos
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA
| | - Anna-Sapfo Malaspinas
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Anders Eriksson
- Department of Zoology, University of Cambridge, Downing Street, Cambridge CB2 3EJ, UK.,Integrative Systems Biology Laboratory, King Abdullah University of Science and Technology (KAUST), Thuwal, 23955-6900, Kingdom of Saudi Arabia
| | - Ida Moltke
- The Bioinformatics Centre, Department of Biology, University of Copenhagen, Ole Maaløes Vej 5, 2200 Copenhagen, Denmark
| | - Mait Metspalu
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Department of Evolutionary Biology, University of Tartu, Tartu 51010, Estonia
| | - Julian R Homburger
- Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA
| | - Jeff Wall
- Institute for Human Genetics, University of California San Francisco, 513 Parnassus Avenue, San Francisco, CA 94143, USA
| | - Omar E Cornejo
- School of Biological Sciences, Washington State University, PO Box 644236, Heald 429, Pullman, Washington 99164, USA
| | - J Víctor Moreno-Mayar
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Thorfinn S Korneliussen
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Tracey Pierre
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Morten Rasmussen
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA
| | - Paula F Campos
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,CIMAR/CIIMAR, Centro Interdisciplinar de Investigação Marinha e Ambiental, Universidade do Porto, Rua dos Bragas 289, 4050-123 Porto, Portugal
| | - Peter de Barros Damgaard
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Morten E Allentoft
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - John Lindo
- Department of Anthropology, University of Illinois at Urbana-Champaign, 607 S. Mathews Ave, Urbana, IL 61801, USA
| | - Ene Metspalu
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Department of Evolutionary Biology, University of Tartu, Tartu 51010, Estonia
| | - Ricardo Rodríguez-Varela
- Centro Mixto, Universidad Complutense de Madrid-Instituto de Salud Carlos III de Evolución y Comportamiento Humano, Madrid, Spain
| | - Josefina Mansilla
- Instituto Nacional de Antropología e Historia, Moneda 13, Centro, Cuauhtémoc, 06060 Mexico Mexico City, Mexico
| | - Celeste Henrickson
- University of Utah, Department of Anthropology, 270 S 1400 E, Salt Lake City, Utah 84112, USA
| | - Andaine Seguin-Orlando
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
| | - Helena Malmström
- Department of Evolutionary Biology and Science for Life Laboratory, Uppsala University, Norbyvägen 18D, SE-752 36 Uppsala, Sweden
| | - Thomas Stafford
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,AMS 14C Dating Centre, Department of Physics and Astronomy, Aarhus University, Ny Munkegade 120, 8000 Aarhus, Denmark
| | - Suyash S Shringarpure
- Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA
| | - Andrés Moreno-Estrada
- Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA.,Laboratorio Nacional de Genómica para la Biodiversidad (LANGEBIO), CINVESTAV, Irapuato, Guanajuato 36821, Mexico
| | - Monika Karmin
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Department of Evolutionary Biology, University of Tartu, Tartu 51010, Estonia
| | - Kristiina Tambets
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia
| | - Anders Bergström
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
| | - Yali Xue
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
| | - Vera Warmuth
- UCL Genetics Institute, Gower Street, London WC1E 6BT, UK.,Evolutionsbiologiskt Centrum, Norbyvägen 18D, 75236 Uppsala, Sweden
| | - Andrew D Friend
- Department of Geography, University of Cambridge, Downing Place, Cambridge CB2 3EN, UK
| | - Joy Singarayer
- Centre for Past Climate Change and Department of Meteorology, University of Reading, Earley Gate, PO Box 243, Reading, UK
| | - Paul Valdes
- School of Geographical Sciences, University Road, Clifton, Bristol BS8 1SS, UK
| | | | - Ilán Leboreiro
- Instituto Nacional de Antropología e Historia, Moneda 13, Centro, Cuauhtémoc, 06060 Mexico Mexico City, Mexico
| | - Jose Luis Vera
- Escuela Nacional de AntropologÍa e Historia, Periférico Sur y Zapote s/n. Colonia Isidro Fabela, Tlalpan, Isidro Fabela, 14030 Mexico City, Mexico
| | | | - Davide Pettener
- Dipartimento di Scienze Biologiche, Geologiche e Ambientali (BiGeA), Università di Bologna, Via Selmi 3, 40126 Bologna, Italy
| | - Donata Luiselli
- Dipartimento di Scienze Biologiche, Geologiche e Ambientali (BiGeA), Università di Bologna, Via Selmi 3, 40126 Bologna, Italy
| | - Loren G Davis
- Department of Anthropology, Oregon State University, 238 Waldo Hall, Corvallis, OR, 97331 USA
| | - Evelyne Heyer
- Museum National d'Histoire Naturelle, CNRS, Université Paris 7 Diderot, Sorbonne Paris Cité, Sorbonne Universités, Unité Eco-Anthropologie et Ethnobiologie (UMR7206), Paris, France
| | - Christoph P E Zollikofer
- Anthropological Institute and Museum, University of Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland
| | - Marcia S Ponce de León
- Anthropological Institute and Museum, University of Zürich, Winterthurerstrasse 190, 8057 Zürich, Switzerland
| | - Colin I Smith
- Department of Archaeology and History, La Trobe University, Melbourne, Victoria 3086, Australia
| | - Vaughan Grimes
- Department of Archaeology, Memorial University, Queen's College, 210 Prince Philip Drive, St. John's, Newfoundland, A1C 5S7, Canada.,Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, Leipzig 04103, Germany
| | - Kelly-Anne Pike
- Department of Archaeology, Memorial University, Queen's College, 210 Prince Philip Drive, St. John's, Newfoundland, A1C 5S7, Canada
| | - Michael Deal
- Department of Archaeology, Memorial University, Queen's College, 210 Prince Philip Drive, St. John's, Newfoundland, A1C 5S7, Canada
| | - Benjamin T Fuller
- Department of Earth System Science, University of California, Irvine, Keck CCAMS Group, B321 Croul Hall, Irvine, California, 92697, USA
| | - Bernardo Arriaza
- Instituto de Alta Investigación, Universidad de Tarapacá, 18 de Septiembre 2222, Carsilla 6-D Arica, Chile
| | - Vivien Standen
- Departamento de Antropologia, Universidad de Tarapacá, 18 de Septiembre 2222. Casilla 6-D Arica, Chile
| | - Maria F Luz
- Fundação Museu do Homem Americano, Centro Cultural Sérgio Motta, Campestre, 64770-000 Sao Raimundo Nonato, Brazil
| | - Francois Ricaut
- Laboratoire d'Anthropologie Moléculaire et Imagérie de Synthèse UMR-5288, CNRS, Université de Toulouse, 31073 Toulouse, France
| | - Niede Guidon
- Fundação Museu do Homem Americano, Centro Cultural Sérgio Motta, Campestre, 64770-000 Sao Raimundo Nonato, Brazil
| | - Ludmila Osipova
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prospekt Lavrentyeva 10, 630090 Novosibirsk, Russia.,Novosibirsk State University, 2 Pirogova Str., 630090 Novosibirsk, Russia
| | - Mikhail I Voevoda
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prospekt Lavrentyeva 10, 630090 Novosibirsk, Russia.,Institute of Internal Medicine, Siberian Branch of RAS, 175/1 ul. B. Bogatkova, Novosibirsk 630089, Russia.,Novosibirsk State University, Laboratory of Molecular Epidemiology and Bioinformatics, 630090 Novosibirsk, Russia
| | - Olga L Posukh
- Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Prospekt Lavrentyeva 10, 630090 Novosibirsk, Russia.,Novosibirsk State University, 2 Pirogova Str., 630090 Novosibirsk, Russia
| | - Oleg Balanovsky
- Vavilov Institute of General Genetics, Gubkina 3, 119333 Moscow, Russia.,Research Centre for Medical Genetics, Moskvorechie 1, 115478 Moscow, Russia
| | | | - Yuri Bogunov
- Vavilov Institute of General Genetics, Gubkina 3, 119333 Moscow, Russia
| | - Elza Khusnutdinova
- Institute of Biochemistry and Genetics, Ufa Scientific Center of RAS, Prospekt Oktyabrya 71, 450054 Ufa, Russia.,Department of Genetics and Fundamental Medicine, Bashkir State University, Zaki Validi 32, 450076 Ufa, Russia
| | - Marina Gubina
- Fundação Museu do Homem Americano, Centro Cultural Sérgio Motta, Campestre, 64770-000 Sao Raimundo Nonato, Brazil
| | - Elena Balanovska
- Research Centre for Medical Genetics, Moskvorechie 1, 115478 Moscow, Russia
| | - Sardana Fedorova
- Department of Molecular Genetics, Yakut Scientific Centre of Complex Medical Problems, Sergelyahskoe Shosse 4, 677010 Yakutsk, Russia.,Laboratory of Molecular Biology, Institute of Natural Sciences, M.K. Ammosov North-Eastern Federal University, 677000 Yakutsk, Russia
| | - Sergey Litvinov
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Institute of Biochemistry and Genetics, Ufa Scientific Center of RAS, Prospekt Oktyabrya 71, 450054 Ufa, Russia
| | - Boris Malyarchuk
- Institute of Biological Problems of the North, Russian Academy of Sciences, Portovaya Street 18, Magadan 685000, Russia
| | - Miroslava Derenko
- Institute of Biological Problems of the North, Russian Academy of Sciences, Portovaya Street 18, Magadan 685000, Russia
| | - M J Mosher
- Department of Anthropology, Western Washington University, Bellingham Washington 98225, USA
| | - David Archer
- Department of Anthropology, Northwest Community College, 353 Fifth Street, Prince Rupert, British Columbia V8J 3L6, Canada
| | - Jerome Cybulski
- Canadian Museum of History, 100 Rue Laurier, Gatineau, Quebec K1A 0M8, Canada.,University of Western Ontario, London, Ontario N6A 3K7, Canada.,Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada
| | - Barbara Petzelt
- Metlakatla Treaty Office, PO Box 224, Prince Rupert, BC, Canada V8J 3P6
| | | | - Rosita Worl
- Sealaska Heritage Institute, 105 S. Seward Street, Juneau, Alaska 99801, USA
| | - Paul J Norman
- Department of Structural Biology, Stanford University School of Medicine, D100 Fairchild Science Building, Stanford, California 94305-5126, USA
| | - Peter Parham
- Department of Structural Biology, Stanford University School of Medicine, D100 Fairchild Science Building, Stanford, California 94305-5126, USA
| | - Brian M Kemp
- School of Biological Sciences, Washington State University, PO Box 644236, Heald 429, Pullman, Washington 99164, USA.,Department of Anthropology, Washington State University, Pullman Washington 99163, USA
| | - Toomas Kivisild
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Division of Biological Anthropology, University of Cambridge, Henry Wellcome Building, Fitzwilliam Street, CB2 1QH, Cambridge, UK
| | - Chris Tyler-Smith
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
| | - Manjinder S Sandhu
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK.,Dept of Medicine, University of Cambridge, MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK
| | - Michael Crawford
- Laboratory of Biological Anthropology, University of Kansas, 1415 Jayhawk Blvd., 622 Fraser Hall, Lawrence, Kansas 66045, USA
| | - Richard Villems
- Estonian Biocentre, Evolutionary Biology Group, Tartu 51010, Estonia.,Department of Evolutionary Biology, University of Tartu, Tartu 51010, Estonia
| | - David Glenn Smith
- Molecular Anthropology Laboratory, 209 Young Hall, Department of Anthropology, University of California, One Shields Avenue, Davis, California 95616, USA
| | - Michael R Waters
- Center for the Study of the First Americans, Texas A&M University, College Station, Texas 77843-4352, USA.,Department of Anthropology, Texas A&M University, College Station, Texas 77843-4352, USA.,Department of Geography, Texas A&M University, College Station, Texas 77843-4352, USA
| | - Ted Goebel
- Center for the Study of the First Americans, Texas A&M University, College Station, Texas 77843-4352, USA
| | - John R Johnson
- Santa Barbara Museum of Natural History, 2559 Puesta del Sol, Santa Barbara, CA 93105, USA
| | - Ripan S Malhi
- Department of Anthropology, University of Illinois at Urbana-Champaign, 607 S. Mathews Ave, Urbana, IL 61801, USA.,Carle R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, Urbana, 61801, USA
| | - Mattias Jakobsson
- Department of Evolutionary Biology and Science for Life Laboratory, Uppsala University, Norbyvägen 18D, SE-752 36 Uppsala, Sweden
| | - David J Meltzer
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark.,Department of Anthropology, Southern Methodist University, Dallas, Texas 75275, USA
| | - Andrea Manica
- Department of Zoology, University of Cambridge, Downing Street, Cambridge CB2 3EJ, UK
| | - Richard Durbin
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton CB10 1SA, UK
| | - Carlos D Bustamante
- Department of Genetics, School of Medicine, Stanford University, 300 Pasteur Dr. Lane Bldg Room L331, Stanford, California 94305, USA
| | - Yun S Song
- Computer Science Division, University of California, Berkeley, CA 94720, USA.,Department of Statistics, University of California, Berkeley, CA 94720, USA.,Department of Integrative Biology, University of California, 3060 Valley Life Sciences Bldg #3140, Berkeley, CA 94720, USA
| | - Rasmus Nielsen
- Department of Integrative Biology, University of California, 3060 Valley Life Sciences Bldg #3140, Berkeley, CA 94720, USA
| | - Eske Willerslev
- Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen, Øster Voldgade 5-7, 1350 Copenhagen, Denmark
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de Azevedo S, Bortolini MC, Bonatto SL, Hünemeier T, Santos FR, González-José R. Ancient remains and the first peopling of the Americas: Reassessing the Hoyo Negro skull. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2015; 158:514-21. [PMID: 26174009 DOI: 10.1002/ajpa.22801] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/28/2015] [Revised: 06/05/2015] [Accepted: 06/10/2015] [Indexed: 11/10/2022]
Abstract
OBJECTIVE A noticeably well-preserved ∼12.500 years-old skeleton from the Hoyo Negro cave, Yucatán, México, was recently reported, along with its archaeological, genetic and skeletal characteristics. Based exclusively on an anatomical description of the skull (HN5/48), Chatters and colleagues stated that this specimen can be assigned to a set of ancient remains that differ from modern Native Americans, the so called "Paleoamericans". Here, we aim to further explore the morphological affinities of this specimen with a set of comparative cranial samples covering ancient and modern periods from Asia and the Americas. METHODS Images published in the original article were analyzed using geometric morphometrics methods. Shape variables were used to perform Principal Component and Discriminant analysis against the reference samples. RESULTS Even thought the Principal Component Analysis suggests that the Hoyo Negro skull falls in a subregion of the morphospace occupied by both "Paleoamericans" and some modern Native Americans, the Discriminant analyses suggest greater affinity with a modern Native American sample. DISCUSSION These results reinforce the idea that the original population that first occupied the New World carried high levels of within-group variation, which we have suggested previously on a synthetic model for the settlement of the Americas. Our results also highlight the importance of developing formal classificatory test before deriving settlement hypothesis purely based on macroscopic descriptions.
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Affiliation(s)
- Soledad de Azevedo
- Centro Nacional Patagónico, Consejo Nacional de Investigaciones Científicas y Técnicas, Bvd. Brown 2915, U9120ACD, Puerto Madryn, Argentina
| | - Maria C Bortolini
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, 91501-970, Porto Alegre, RS, Brazil
| | - Sandro L Bonatto
- Faculdade de Biociências, Pontifícia Universidade Católica do Rio Grande do Sul. Av. Ipiranga 6681, 90610-001, Porto Alegre, RS, Brazil
| | - Tábita Hünemeier
- Departamento de Genética, Instituto de Biociências, Universidade Federal do Rio Grande do Sul, 91501-970, Porto Alegre, RS, Brazil
| | - Fabrício R Santos
- Departamento de Biologia Geral, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, 31270-910, Belo Horizonte, MG, Brazil
| | - Rolando González-José
- Centro Nacional Patagónico, Consejo Nacional de Investigaciones Científicas y Técnicas, Bvd. Brown 2915, U9120ACD, Puerto Madryn, Argentina
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43
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Gruber K. Here, there, and everywhere: From PCRs to next-generation sequencing technologies and sequence databases, DNA contaminants creep in from the most unlikely places. EMBO Rep 2015; 16:898-901. [PMID: 26150097 DOI: 10.15252/embr.201540822] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
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44
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Kemp BM, Lindo J, Bolnick DA, Malhi RS, Chatters JC. Anthropology. Response to Comment on "Late Pleistocene human skeleton and mtDNA link Paleoamericans and modern Native Americans". Science 2015; 347:835. [PMID: 25700511 DOI: 10.1126/science.1261188] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
Prüfer and Meyer raise concerns over the mitochondrial DNA (mtDNA) results we reported for the Hoyo Negro individual, citing failure of a portion of these data to conform to their expectations of ancient DNA (aDNA). Because damage patterns in aDNA vary, outright rejection of our findings on this basis is unwarranted, especially in light of our other observations.
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Affiliation(s)
- Brian M Kemp
- Department of Anthropology and School of Biological Sciences, Washington State University, Pullman, WA 99164, USA.
| | - John Lindo
- Department of Anthropology, University of Illinois, Urbana, IL 61801, USA
| | - Deborah A Bolnick
- Department of Anthropology and Population Research Center, University of Texas at Austin, Austin, TX 78712, USA
| | - Ripan S Malhi
- Department of Anthropology, University of Illinois, Urbana, IL 61801, USA. Institute for Genomic Biology, University of Illinois, Urbana, IL 61801, USA
| | - James C Chatters
- Applied Paleoscience and DirectAMS, 10322 Northeast 190th Street, Bothell, WA 98011, USA.
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45
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Prüfer K, Meyer M. Anthropology. Comment on "Late Pleistocene human skeleton and mtDNA link Paleoamericans and modern Native Americans". Science 2015; 347:835. [PMID: 25700510 DOI: 10.1126/science.1260617] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022]
Abstract
Chatters et al. (Reports, 16 May 2014, p. 750) reported the retrieval of DNA sequences from a 12,000- to 13,000-year-old human tooth discovered in an underwater cave in Mexico's Yucatan peninsula. They propose that this ancient human individual's mitochondrial DNA (mtDNA) belongs to haplogroup D1. However, our analysis of postmortem damage patterns finds no evidence for an ancient origin of these sequences.
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Affiliation(s)
- Kay Prüfer
- Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
| | - Matthias Meyer
- Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
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46
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Strauss A, Hubbe M, Neves WA, Bernardo DV, Atuí JPV. The cranial morphology of the Botocudo Indians, Brazil. AMERICAN JOURNAL OF PHYSICAL ANTHROPOLOGY 2015; 157:202-16. [PMID: 25663638 DOI: 10.1002/ajpa.22703] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2014] [Accepted: 01/13/2015] [Indexed: 01/25/2023]
Abstract
The Botocudo Indians were hunter-gatherer groups that occupied the East-Central regions of Brazil decimated during the colonial period in the country. During the 19th century, craniometric studies suggested that the Botocudo resembled more the Paleoamerican population of Lagoa Santa than typical Native Americans groups. These results suggest that the Botocudo Indians might represent a population that retained the biological characteristics of early groups of the continent, remaining largely isolated from groups that gave origin to the modern Native South American variation. Moreover, recently, some of the Botocudo remains have been shown to have mitochondrial and autosomal DNA lineages currently found in Polynesian populations. Here, we explore the morphological affinities of Botocudo skulls within a worldwide context. Distinct multivariate analyses based on 32 craniometric variables show that 1) the two individuals with Polynesian DNA sequences have morphological characteristics that fall within the Polynesian and Botocudo variation, making their assignation as Native American specimens problematic, and 2) there are high morphological affinities between Botocudo, Early Americans, and the Polynesian series of Easter Island, which support the early observations that the Botocudo can be seen as retaining the Paleoamerican morphology, particularly when the neurocranium is considered. Although these results do not elucidate the origin of the Polynesian DNA lineages among the Botocudo, they support the hypothesis that the Botocudo represent a case of late survival of ancient Paleoamerican populations, retaining the morphological characteristics of ancestral Late Pleistocene populations from Asia.
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Affiliation(s)
- André Strauss
- Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
| | - Mark Hubbe
- Department of Anthropology, The Ohio State University, Columbus, OH.,Instituto de Investigaciones Arqueológicas y Museo, Universidad Católica del Norte, San Pedro de Atacama, Chile
| | - Walter A Neves
- Laboratório de Estudos Evolutivos Humanos, Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, Brazil
| | - Danilo V Bernardo
- Instituto de Ciências Humanas e da Informação, Universidade Federal do Rio Grande, Rio Grande, Brazil
| | - João Paulo V Atuí
- Laboratório de Estudos Evolutivos Humanos, Departamento de Genética e Biologia Evolutiva, Instituto de Biociências, Universidade de São Paulo, São Paulo, Brazil
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Anderson DG, Smallwood AM, Miller DS. Pleistocene Human Settlement in the Southeastern United States: Current Evidence and Future Directions. ACTA ACUST UNITED AC 2015. [DOI: 10.1179/2055556314z.00000000012] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022]
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Kennett DJ, Asmerom Y, Kemp BM, Polyak V, Bolnick DA, Malhi RS, Culleton BJ. Early Americans: misstated results. Science 2014; 345:390. [PMID: 25061196 DOI: 10.1126/science.345.6195.390-a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/02/2022]
Affiliation(s)
- Douglas J Kennett
- Department of Anthropology and Institutes of Energy and the Environment, Pennsylvania State University, University Park, PA 16802, USA.
| | - Yemane Asmerom
- Department of Earth and Planetary Sciences, University of New Mexico, Albuquerque, NM 87131-0001, USA
| | - Brian M Kemp
- Department of Anthropology and School of Biological Sciences, Washington State University, Pullman, WA 99164, USA
| | - Victor Polyak
- Department of Earth and Planetary Sciences, University of New Mexico, Albuquerque, NM 87131-0001, USA
| | - Deborah A Bolnick
- Department of Anthropology and Population Research Center, University of Texas at Austin, Austin, TX 78712, USA
| | - Ripan S Malhi
- Institute of Genomic Biology, University of Illinois, Urbana-Champaign, IL 61801, USA
| | - Brendan J Culleton
- Department of Anthropology and Institutes of Energy and the Environment, Pennsylvania State University, University Park, PA 16802, USA
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Siberian origin for Native Americans. Nature 2014. [DOI: 10.1038/509403d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
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