HOPS: Automated Detection and Authentication of Pathogen DNA in Archaeological Remains
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Research on Ancient DNA in the Near East Mateusz Baca*1, Martyna Molak2 1 Center for Precolumbian Studies, University of Warsaw, Ul
Bioarchaeology of the Near East, 2:39–61 (2008) Research on ancient DNA in the Near East Mateusz Baca*1, Martyna Molak2 1 Center for Precolumbian Studies, University of Warsaw, ul. Krakowskie Przedmieście 26/28, 00-927 Warsaw, Poland email: [email protected] (corresponding author) 2 Institute of Genetics and Biotechnology, University of Warsaw, ul. Pawińskiego 5a, 05-106 Warsaw, Poland Abstract: In the early 1990s, when studies of ancient DNA became possible, new perspectives of analyzing archaeological data also developed. Nowadays, because the methodology related to ancient DNA research is well developed, it has been used to reveal several aspects of human history and interaction. Here we review the basic concepts, methodologies, and recent developments in the fi eld of ancient DNA studies with a special refe- rence to the Near East. Th is includes not only human but also animal and bacterial DNA. Key words: archaeogenetics, aDNA, mtDNA, tuberculosis, animal domestication Introduction Human genomes accumulate mutations gradually over time. Th e forces of genetic drift and natural selection either cause these changes to disappear or to become established in the popu- lation. By the end of the 1990s, Amorim (1999) introduced the term “archaeogenetics” in reference to using information regarding genetic diff erences between humans to understand demographic events that took place in the past. Pioneering studies of human genetic diversity date back to 1970s when Cavalli-Sforza published a report on the diversity of European populations based on classic protein mark- ers (see Cavalli-Sforza et al. 1994 for a review). In the mid-eighties, great opportunities for studying human diversity arose with the invention of polymerase chain reaction (PCR). -
CHRISTINA “TINA” WARINNER (Last Updated October 18, 2018)
CHRISTINA “TINA” WARINNER (last updated October 18, 2018) Max Planck Institute University of Oklahoma for the Science of Human History (MPI-SHH) Department of Anthropology Department of Archaeogenetics Laboratories of Molecular Anthropology Kahlaische Strasse 10, 07743 Jena, Germany And Microbiome Research (LMAMR) +49 3641686620 101 David L. Boren Blvd, [email protected] Norman, OK 73019 USA www.christinawarinner.com [email protected] http://www.shh.mpg.de/employees/50506/25522 www.lmamr.org APPOINTMENTS W2 Group Leader, Max Planck Institute for the Science of Human History, Germany 2016-present University Professor, Friedrich Schiller University, Jena, Germany 2018-present Presidential Research Professor, Univ. of Oklahoma, USA 2014-present Assistant Professor, Dept. of Anthropology, Univ. of Oklahoma, USA 2014-present Adjunct Professor, Dept. of Periodontics, College of Dentistry, Univ. of Oklahoma, USA 2014-present Visiting Associate Professor, Dept. of Systems Biology, Technical University of Denmark 2015 Research Associate, Dept. of Anthropology, Univ. of Oklahoma, USA 2012-2014 Acting Head of Group, Centre for Evolutionary Medicine, Univ. of Zürich, Switzerland 2011-2012 Research Assistant, Centre for Evolutionary Medicine, Univ. of Zürich, Switzerland 2010-2011 EDUCATION Ph.D., Anthropology, Dept. of Anthropology, Harvard University 2010 Thesis Title: “Life and Death at Teposcolula Yucundaa: Mortuary, Archaeogenetic, and Isotopic Investigations of the Early Colonial Period in Mexico” A.M., Anthropology, Dept. of Anthropology, Harvard University 2008 B.A., with Honors, Anthropology, University of Kansas 2003 B.A., Germanic Literatures and Languages, University of Kansas 2003 SELECTED HONORS, AWARDS, AND FELLOWSHIPS Invited speaker, British Academy, Albert Reckitt Archaeological Lecture (forthcoming) 2019 Invited speaker, EMBL Science and Society (forthcoming, Nov. -
The Global History of Paleopathology
OUP UNCORRECTED PROOF – FIRST-PROOF, 01/31/12, NEWGEN TH E GLOBA L H ISTORY OF PALEOPATHOLOGY 000_JaneBuikstra_FM.indd0_JaneBuikstra_FM.indd i 11/31/2012/31/2012 44:03:58:03:58 PPMM OUP UNCORRECTED PROOF – FIRST-PROOF, 01/31/12, NEWGEN 000_JaneBuikstra_FM.indd0_JaneBuikstra_FM.indd iiii 11/31/2012/31/2012 44:03:59:03:59 PPMM OUP UNCORRECTED PROOF – FIRST-PROOF, 01/31/12, NEWGEN TH E GLOBA L H ISTORY OF PALEOPATHOLOGY Pioneers and Prospects EDITED BY JANE E. BUIKSTRA AND CHARLOTTE A. ROBERTS 3 000_JaneBuikstra_FM.indd0_JaneBuikstra_FM.indd iiiiii 11/31/2012/31/2012 44:03:59:03:59 PPMM OUP UNCORRECTED PROOF – FIRST-PROOF, 01/31/12, NEWGEN 1 Oxford University Press Oxford University Press, Inc., publishes works that further Oxford University’s objective of excellence in research, scholarship, and education. Oxford New York Auckland Cape Town Dar es Salaam Hong Kong Karachi Kuala Lumpur Madrid Melbourne Mexico City Nairobi New Delhi Shanghai Taipei Toronto With o! ces in Argentina Austria Brazil Chile Czech Republic France Greece Guatemala Hungary Italy Japan Poland Portugal Singapore South Korea Switzerland " ailand Turkey Ukraine Vietnam Copyright © #$%# by Oxford University Press, Inc. Published by Oxford University Press, Inc. %&' Madison Avenue, New York, New York %$$%( www.oup.com Oxford is a registered trademark of Oxford University Press All rights reserved. No part of this publication may be reproduced, stored in a retrieval system, or transmitted, in any form or by any means, electronic, mechanical, photocopying, recording, or otherwise, without the prior permission of Oxford University Press. CIP to come ISBN-%): ISBN $–%&- % ) * + & ' ( , # Printed in the United States of America on acid-free paper 000_JaneBuikstra_FM.indd0_JaneBuikstra_FM.indd iivv 11/31/2012/31/2012 44:03:59:03:59 PPMM OUP UNCORRECTED PROOF – FIRST-PROOF, 01/31/12, NEWGEN To J. -
Course Outline of Record Los Medanos College 2700 East Leland Road Pittsburg CA 94565 (925) 439-2181
Course Outline of Record Los Medanos College 2700 East Leland Road Pittsburg CA 94565 (925) 439-2181 Course Title: Introduction to Archaeology Subject Area/Course Number: ANTHR-004 New Course OR Existing Course Instructor(s)/Author(s): Liana Padilla-Wilson Subject Area/Course No.: Anthropology Units: 3 Course Name/Title: Introduction to Archaeology Discipline(s): Anthropology Pre-Requisite(s): None Co-Requisite(s): None Advisories: Eligibility for ENGL-100 Catalog Description: This course is an introduction to the fundamental principles of method and theory in archaeology, beginning with the goals of archaeology, going on to consider the basic concepts of culture, time, and space, and discussing the finding and excavation of archaeological sites. Students will analyze the basic methods and theoretical approaches used by archaeologist to reconstruct the past and understand human prehistory. This includes human origins, the peoples of the globe, the origins of agriculture, ancient civilization including the Maya civilization, Classical and Historical archaeological, and finally the relevance of Archaeology today. The course includes an analysis of the nature of scientific inquiry; the history and interdisciplinary nature of archaeological research; dating techniques, methods of survey, excavation, analysis, and interpretation; cultural resource management, professional ethics; and cultural change and sequences. The inclusion of the interdisciplinary approach utilized in this field will provide students with the most up to data interpretation of human origins, the reconstruction of human behavior, and the emergence of cultural, identity, and human existence. Schedule Description : Do you want to be an archaeologist? Have you always wanted to do real life archaeological excavations? In this course you will play a detective, but the mysteries are far more complex and harder to solve than most crimes. -
Curriculum Vitae Johannes Krause
Curriculum vitae Johannes Krause Born 1980 in Leinefelde, Thuringia, Germany Contact Max Planck Institute for Evolutionary Anthropology Department of Archaeogenetics Deutscher Platz 6 04103 Leipzig, GERMANY E-mail [email protected] Webpage https://www.eva.mpg.de/archaeogenetics/staff.html Research Focus • Ancient DNA • Archaeogenetics • Human Evolution • Ancient Pathogen Genomics • Comparative and Evolutionary Genomics • Human Immunogenetics Present Positions since 2020 Director, Max Planck Institute for Evolutionary Anthropology, Leipzig, Department of Archaeogenetics since 2018 Full Professor for Archaeogenetics, Institute of Zoology and Evolutionary Research, Friedrich Schiller University Jena since 2016 Director, Max-Planck – Harvard Research Center for the Archaeoscience of the Ancient Mediterranean (MHAAM) since 2015 Honorary Professor for Archaeo- and Paleogenetics, Institute for Archaeological Sciences, Eberhard Karls University Tuebingen Professional Career 2014 - 2020 Director, Max Planck Institute for the Science of Human History, Jena, Department of Archaeogenetics 2013 - 2015 Full Professor (W3) for Archaeo- and Paleogenetics, Institute for Archaeological Sciences, Eberhard Karls University Tuebingen 2010 - 2013 Junior Professor (W1) for Palaeogenetics, Institute for Archaeological Sciences, Eberhard Karls University Tuebingen 2008 - 2010 Postdoctoral Fellow at the Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics, Leipzig, Germany. Research: Ancient human genetics and genomics 2005 - -
AIA Bulletin, Fiscal Year 2005
ARCHAEOLOGICAL INSTITUTE OF AMERICA A I A B U L L E T I N Volume 96 Fiscal Year 2005 AIA BULLETIN, Fiscal Year 2005 Table of Contents GOVERNING BOARD Governing Board . 3 AWARD CITATIONS Gold Medal Award for Distinguished Archaeological Achievement . 4 Pomerance Award for Scientific Contributions to Archaeology . 5 Martha and Artemis Joukowsky Distinguished Service Award . 6 James R . Wiseman Book Award . 6 Excellence in Undergraduate Teaching Award . 7 Conservation and Heritage Management Award . 8 Outstanding Public Service Award . 8 ANNUAL REPORTS Report of the President . 10 Report of the First Vice President . 12 Report of the Vice President for Professional Responsibilities . 13 Report of the Vice President for Publications . 15 Report of the Vice President for Societies . 16 Report of the Vice President for Education and Outreach . 17 Report of the Treasurer . 19 Report of the Editor-in-Chief, American Journal of Archaeology . 24 Report of the Development Committee . 26 MINUTES OF MEETINGS Executive Committee: August 13, 2004 . 28 Executive Committee: September 10, 2004 . 32 Governing Board: October 16, 2004 . 36 Executive Committee: December 8, 2004 . 44 Governing Board: January 6, 2005 . 48 nstitute of America nstitute I 126th Council: January 7, 2005 . 54 Executive Committee: February 11, 2005 . 62 Executive Committee: March 9, 2005 . 66 Executive Committee: April 12, 2005 . 69 Governing Board: April 30, 2005 . 70 R 2006 LECTURES AND PROGRAMS BE M Special Lectures . 80 TE P AIA National Lecture Program . 81 E S 96 (July 2004–June 2005) Volume BULLETIN, the Archaeological © 2006 by Copyright 2 ARCHAEOLOgic AL INStitute OF AMERic A ROLL OF SPECIAL MEMBERS . -
Ancient DNA in Physical Anthropology: a Review Jacqueline E Broida
Ancient DNA in Physical Anthropology: A Review by Jacqueline E Broida B.A., Miami University, 2006 A thesis submitted to the Graduate School of the University of Colorado in partial fulfillment Of the requirement for the degree of Master of Arts Department of Anthropology 2011 This thesis entitled: Ancient DNA in Physical Anthropology: A Review Written by Jacqueline E Broida Has been approved for the Department of Anthropology X Dennis Van Gerven X Darna Dufour X Herbert Covert Date _________ The final copy of this thesis has been examined by the signatories, and we Find that both the content and the form meet acceptable presentation standards Of scholarly work in the above mentioned discipline. Broida, Jacqueline E (Masters, Biological Anthropology) Ancient DNA in Physical Anthropology: A Review Thesis directed by Full Professor Dennis VanGerven The field of ancient DNA began in 1984 with the sequencing of quagga—an extinct member of the horse family—DNA and the development of PCR (Higuchi et al., 1984). Since then, ancient DNA has been used in physical anthropology. Ancient DNA has a variety of applications in anthropology including phylogentic relationships and human evolution, movement and migration, the study of hominin ancestors, sex determination, agriculture, animal domestication, nutrition, diseases, historical kinships, and primate conservation. In particular aDNA technology has given anthropologists the opportunity to study the history and pre-history of the agricultural expansion in the Pacific as well as the ability to learn more about the Neanderthals: what their mitochondrial genome was like, how much their genome differed from the modern human genome, their pigmentation, and their position in hominin phylogeny. -
European Meeting of the Paleopathology Association
. 14TH EUROPEAN MEETING OF THE PALEOPATHOLOGY ASSOCIATION PROGRAM - ABSTRACTS 14TH EMPPA 2002 COIMBRA, 28 – 31 AUGUST, 2002 http://emppa2002.uc.pt [email protected] EDITOR DEPARTAMENTO DE ANTROPOLOGIA FACULDADE DE CIÊNCIAS E TECNOLOGIA UNIVERSIDADE DE COIMBRA PORTUGAL ISBN 972 - 9006 - 42 - 3 Copyright © 2002, Departamento de Antropologia da Universidade de Coimbra . 14TH EUROPEAN MEETING OF THE PALEOPATHOLOGY ASSOCIATION HONORARY COMMITTEE Minister of Science and High Education, Prof. Dr. Pedro Lynce Rector of the University of Coimbra, Prof. Dr. Fernando Rebelo President of the Direction Board of the Faculty of Sciences and Technology of the University of Coimbra, Prof. Dr. Lélio Quaresma Mayor of Coimbra, Dr. Carlos Encarnação President of the Paleopathology Association, Prof. Dr. Michael Schultz Emerita President of the Paleopathology Association, Ms. Eve Cockburn Professor Decano in Anthropology, Prof. Dr. Manuel Laranjeira Rodrigues de Areia President of the Department of Anthropology of the Faculty of Sciences and Technology of the University of Coimbra, Prof. Dr. Cristina Padez Coordinator of the Anthropological Museum, University of Coimbra, Prof. Dr. Paulo Gama SCIENTIFIC COMMITTEE Don Brothwell (UK) Alejandro Pérez-Pérez (Spain) Domingo Campillo (Spain) Mary Lucas Powell (USA) Luigi Capasso (Italy) Charlotte Roberts (United Kingdom) Éric Crubézy (France) Conrado Rodriguez-Martín (Spain) Eugénia Cunha (Portugal) Michael Schultz (Germany) Olivier Dutour (France) Sheila Mendonça de Souza (Brazil) Francisco Etxeberria (Spain) Eugen -
Jochen Holger Schutkowski
Jochen Holger Schutkowski Biological anthropologist specializing in scientific studies to reconstruct diet, disease, and mobility in ancient populations As a teacher of osteology for archaeology and anthropology students Holger Schutkowski often had to be inventive. On one occasion he faced a long wait from suppliers for models of human teeth in order to demonstrate natural variation and sampling strategies so had casts made of his own masticators. Fully up to the job the casts are still in use, showing not only his appetite for home-spun solutions but also a preference for circumventing officialdom and bureaucracy when it suited him. Human remains fascinated Holger, and his enthusiasm was infectious. Colleagues recall his patience when excavating complicated prehistoric burials, and his precision when laying out ancient skeletons in the laboratory for analysis. Ethical considerations were always at the forefront of his thinking and led to his involvement in the Working Group on the Revision of Burial Legislation led by the Ministry of Justice in 2011. He was soon afterwards appointed Chairman of the influential Advisory Panel on the Archaeology of Burials in England (APABE), a tricky time as deep-seated concerns about the storage and treatment of human remains found voice through protest groups and the popular press, challenging museums and researchers to rethink working practices and tighten up established systems. As colleague Simon Mays recalls, ‘his unfailing good humour and people-skills allowed many potentially difficult situations to be successfully resolved through compromise and consensus’. Research into the life and death of individuals and whole communities lay at the heart of his academic work. -
EAA2021 Sessions 14 July-1.Pdf
ORGANISERS 27th EAA Annual Meeting (Kiel Virtual, 2021) - Sessions Names, titles and affiliations are reproduced as submitted by the session organisers and/or authors. Language and wording were not revised. Technical editing: Kateřina Kleinová (EAA) Design and layout: Kateřina Kleinová (EAA) Design cover page: Janine Cordts (Institut für Ur- und Frühgeschichte Universität Kiel) European Association of Archaeologists Prague, June 2021 © European Association of Archaeologists, 2021 Tuesday 7 September 2021 #EAA2021 5 UNDERSTANDING PREHISTORIC DEMOGRAPHY Time: 9:00 - 16:30 CEST, 7 September 2021 Theme: 5. Assembling archaeological theory and the archaeological sciences Format: Regular session Organisers: Armit, Ian (University of York) - Damm, Charlotte (University of Tromso) - Črešnar, Matija (University of Ljubljana) ABSTRACTS 9:00 INTRODUCTION 9:15 THE COLOGNE PROTOCOL: ESTIMATING PAST POPULATION DENSITIES Schmidt, Isabell (University of Cologne) - Hilpert, Johanna (Kiel University - CAU) - Kretschmer, Inga (Landesamt für Denkmalpflege Stuttgart) - Peters, Robin (Landschaftsverband Rheinland) - Broich, Manue - Schiesberg, Sara - Vo- gels, Oliver - Wendt, Karl Peter - Zimmermann, Andreas - Maier, Andreas (University of Cologne) 9:30 DWELLINGS, SETTLEMENT ORGANISATION AND POPULATION FLUCTUATIONS: A MULTI-SCALAR CASE STUDY FROM ARCTIC NORWAY Damm, Charlotte (Arctic University of Norway) 9:45 EXPLORING LOCAL GEOGRAPHICAL CONDITIONS UNDERPINNING REGIONAL DEMOGRAPHIC CHANGE AMONG HUNTER-FISHER-GATHERERS IN SOUTHWEST COASTAL NORWAY (11,500-4300 CAL BP) Lundström, Victor - Bergsvik, Knut (University Museum, University of Bergen) 10:00 TERRITORIES, STRATEGIES AND TWO GENERATIONS Odgaard, Ulla (Independent researcher) 10:15 POPULATION DYNAMICS AND THE EXPANSION OF AGRICULTURE. ASSESSING THE RADIOCARBON GAPS DURING THE NEOLITHIZATION PROCESS IN THE WESTERN MEDITERRANEAN Cortell-Nicolau, Alfredo (Departament de Prehistòria, Arqueologia i Història Antiga. Universitat de València) - Crema, Enrico (Department of Archaeology. -
The Fourth Genetime Workshop 'Domestication of Plants & Animals'
The Fourth GeneTime Workshop ‘Domestication of Plants & Animals’ Tuesday 4th and Wednesday 5th September 2007 McDonald Institute for Archaeological Research University of Cambridge Hosted by: Molecular Population Genetics Laboratory Smurfit Institute, Trinity College Dublin, Ireland 1 Registered Participants Title: Surname: Name: E-mail: Department/Institute: Organisation: Dr. Bower Mim [email protected] McDonald Institute for Archaeological Research University of Cambridge Prof. Bradley Daniel [email protected] Smurfit Institute of Genetics Trinity College Dublin Mr. Campana Michael [email protected] McDonald Institute for Archaeological Research University of Cambridge Ms. Campos Paula [email protected] Biological Institute University of Copenhagen Prof. Collins Matthew [email protected] BioArch University of York Dr. Craig Oliver [email protected] Department of Archaeology University of York Ms. Demarchi Beatrice [email protected] BioArch University of York Dr. Edwards Ceiridwen [email protected] Smurfit Institute of Genetics Trinity College Dublin Ms. Elsner Julia [email protected] Institute of Anthropology Johannes Gutenberg-University, Mainz Dr. Finlay Emma [email protected] Smurfit Institute of Genetics Trinity College Dublin Dr. Gilbert Tom [email protected] Biological Institute University of Copenhagen Dr. Hunt Harriet [email protected] McDonald Institute for Archaeological Research University of Cambridge Ms. Jung Simone [email protected] Smurfit Institute of Genetics Trinity College Dublin Dr. Larson Greger [email protected] Department of Medical Biochemistry and Microbiology Uppsala University Dr. Lister Diane [email protected] McDonald Institute for Archaeological Research University of Cambridge Mr. McGrory Simon [email protected] BioArch University of York Mr. Oliveira Hugo [email protected] McDonald Institute for Archaeological Research University of Cambridge Mr. -
Osteoporosis and Paleopathology: a Review
doi 10.4436/JASS.92003 JASs Invited Reviews Journal of Anthropological Sciences Vol. 92 (2014), pp. 119-146 Osteoporosis and paleopathology: a review Francisco Curate Research Centre for Anthropology and Health, University of Coimbra, Rua Arco da Traição, 7, 3000 Coimbra, Portugal e-mail: [email protected] Summary - Osteoporosis is a complex and heterogeneous disorder, of multi-factor aetiology. It is the most frequent metabolic bone disorder, affecting an increasing number of post-menopausal women and aging individuals from both sexes. Although first recognized more than 250 years ago, the clinical and epidemiological knowledge about osteoporosis is largely limited to the last 70 years. Within the conceptual frames of paleopathology, disease is necessarily perceived in a space without depth (the skeleton) and of coincidence without development (the crucial moment of death) – but is also interpreted in a time interval which adds an historical gaze to its “biography”. The study of osteoporosis in past populations (which faced sociocultural conditions utterly different from the genus vitae experienced by modern communities) supplements diachronic depth to the knowledge about bone modifications related to age, menopausal status or lifestyle. This article aims to provide a comprehensive record on the history of osteoporosis and fragility fractures as perceived by the biomedical, historical and, particularly, paleopathological sciences. As such, the main focus of this review is to present an exhaustive and historical-framed exposition of the studies of osteoporosis, bone loss and associated fractures within the field of paleopathology and, to a lesser extent, in the history of medicine. A biomedical-oriented synopsis of the main operational definitions, etiological agents and epidemiological features of osteoporosis and osteoporotic fractures is also provided Keywords - Osteoporosis, Bone loss, Fractures, History of medicine, Paleopathology.