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5 results on '"International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE)"'

1. Global epidemiology of non-influenza RNA respiratory viruses: data gaps and a growing need for surveillance

Author

Julian W Tang, Tommy T Lam, Hassan Zaraket, W Ian Lipkin, Steven J Drews, Todd F Hatchette, Jean-Michel Heraud, Marion P Koopmans, Ashta Mary Abraham, Amal Baraket, Seweryn Bialasiewicz, Miguela A Caniza, Paul KS Chan, Cheryl Cohen, André Corriveau, Benjamin J Cowling, Marcela Echavarria, Ron Fouchier, Pieter LA Fraaij, Todd F Hachette, Hamid Jalal, Lance Jennings, Alice Kabanda, Herve A Kadjo, Mohammed Rafiq Khanani, Evelyn SC Koay, Mel Krajden, Hong Kai Lee, W. Ian Lipkin, Julius Lutwama, David Marchant, Hidekazu Nishimura, Pagbajabyn Nymadawa, Benjamin A Pinsky, Sanjiv Rughooputh, Joseph Rukelibuga, Taslimarif Saiyed, Anita Shet, Theo Sloots, JJ Muyembe Tamfum, Stefano Tempia, Sarah Tozer, Florette Treurnicht, Matti Waris, Aripuana Watanabe, Emile Okitolonda Wemakoy, University Hospitals Leicester, The University of Hong Kong (HKU), American University of Beirut [Beyrouth] (AUB), Columbia University [New York], University of Alberta, International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE), Dalhousie University [Halifax], Unité de Virologie [Antananarivo, Madagascar] (IPM), Institut Pasteur de Madagascar, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Erasmus University Medical Center [Rotterdam] (Erasmus MC), Institut Pasteur de Côte d'Ivoire, Réseau International des Instituts Pasteur (RIIP), and Virology

Subjects
0301 basic medicine, medicine.medical_specialty, viruses, MESH: Global Health, Disease, medicine.disease_cause, Virus, MESH: Population Surveillance, 03 medical and health sciences, 0302 clinical medicine, Human metapneumovirus, [SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases, Epidemiology, medicine, Global health, 030212 general & internal medicine, Coronavirus, [SDV.MHEP.ME]Life Sciences [q-bio]/Human health and pathology/Emerging diseases, MESH: Humans, biology, virus diseases, [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, biology.organism_classification, Virology, 3. Good health, 030104 developmental biology, Infectious Diseases, Preparedness, MESH: Respiratory Tract Infections, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, Rhinovirus, MESH: RNA Viruses
Abstract

International audience; Together with influenza, the non-influenza RNA respiratory viruses (NIRVs), which include respiratory syncytial virus, parainfluenza viruses, coronavirus, rhinovirus, and human metapneumovirus, represent a considerable global health burden, as recognised by WHO's Battle against Respiratory Viruses initiative. By contrast with influenza viruses, little is known about the contemporaneous global diversity of these viruses, and the relevance of such for development of pharmaceutical interventions. Although far less advanced than for influenza, antiviral drugs and vaccines are in different stages of development for several of these viruses, but no interventions have been licensed. This scarcity of global genetic data represents a substantial knowledge gap and impediment to the eventual licensing of new antiviral drugs and vaccines for NIRVs. Enhanced genetic surveillance will assist and boost research and development into new antiviral drugs and vaccines for these viruses. Additionally, understanding the global diversity of respiratory viruses is also part of emerging disease preparedness, because non-human coronaviruses and paramyxoviruses have been listed as priority concerns in a recent WHO research and development blueprint initiative for emerging infectious diseases. In this Personal View, we explain further the rationale for expanding the genetic database of NIRVs and emphasise the need for greater investment in this area of research.

Published
2017

2. The challenges of characterising nanoparticulate catalysts: general discussion

Author

Soulantika, Aikaterini, Arrigo, Rosa, Badmus, Kassim, Baletto, Francesca, Boeije, Maurits, Bowker, Michael, Brinkert, Katharina, Bugaev, Aram, Bukhtiyarov, Valerii, Carosso, Michele, Catlow, Richard, Chanerika, Revana, Davies, Philip, Dononelli, Wilke, Freund, Hans-Joachim, Friend, Cynthia, Gallarati, Simone, Gates, Bruce, Genest, Alexander, Gibson, Emma, Hargreaves, Justin, Helveg, Stig, Huang, Haoliang, Hutchings, Graham, Irvine, Nicola, Johnston, Roy, Lai, Stanley, Lamberti, Carlo, Macginley, Joseph, Marchant, David, Murayama, Toru, Nome, Rene, Odarchenko, Yaroslav, Quinson, Jonathan, Rogers, Scott, Russell, Andrea, Said, Said, Sermon, Paul, Shah, Parag, Simoncelli, Sabrina, Soulantica, Katerina, Spolaore, Federico, Tooze, Bob, Torrente-Murciano, Laura, Trunschke, Annette, Willock, David, Zhang, Jiaguang, Laboratoire de physique et chimie des nano-objets (LPCNO), Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Institut National des Sciences Appliquées (INSA)-Université de Toulouse (UT)-Institut de Chimie de Toulouse (ICT), Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Institut de Recherche sur les Systèmes Atomiques et Moléculaires Complexes (IRSAMC), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Imperial College London, Research Center for Nanoscale Structure of Matter, Southern Federal University [Rostov-on-Don] (SFEDU), UCL, Dept Chem, London WC1H 0AJ, England, Fritz-Haber-Institut der Max-Planck-Gesellschaft (FHI), Max Planck Society, Dipartimento di Chimica IFM and NIS, Università degli studi di Torino = University of Turin (UNITO), International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE), Hokkaido University [Sapporo, Japan], Institut de Science des Matériaux de Mulhouse (IS2M), Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Department of Chemical and Biomolecular Engineering, National University of Singapore, National University of Singapore (NUS), Institut de Recherche sur les Systèmes Atomiques et Moléculaires Complexes (IRSAMC), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut National des Sciences Appliquées - Toulouse (INSA Toulouse), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie de Toulouse (ICT-FR 2599), Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Institut de Chimie du CNRS (INC)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut de Chimie du CNRS (INC), Department of Life Sciences, Imperial College London, London, United Kingdom, Università degli studi di Torino (UNITO), and Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)

Subjects
WALLED CARBON NANOTUBES, Materials science, 02 engineering and technology, FUEL-CELL CATALYSTS, [CHIM.CATA]Chemical Sciences/Catalysis, 010402 general chemistry, 021001 nanoscience & nanotechnology, 01 natural sciences, ETHYLENE POLYMERIZATION, Inelastic neutron scattering, 0104 chemical sciences, Catalysis, Chemical engineering, Ethylene polymerization, METAL-ORGANIC FRAMEWORK, RAY-ABSORPTION SPECTROSCOPY, EXTENDED X-RAY, INELASTIC NEUTRON-SCATTERING, Metal-organic framework, PD-BASED CATALYSTS, HYDROGEN STORAGE PROPERTIES, Physical and Theoretical Chemistry, 0210 nano-technology, ALUMINA-SUPPORTED PLATINUM, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2018

3. Population structure of a vector of human diseases: Aedes aegypti in its ancestral range, Africa

Author

Basile Kamgang, Carla A. Sousa, Martin N. Mayanja, Gilbert Le Goff, Panayiota Kotsakiozi, Arlete D. Troco, João Pinto, Athanase Badolo, Andrea Gloria-Soria, Christophe Paupy, Julius J. Lutwama, Diego Ayala, Benjamin R. Evans, Jeffrey R. Powell, Yale University [New Haven], Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE), Diversity, ecology, evolution & Adaptation of arthropod vectors (MIVEGEC-DEEVA), Evolution des Systèmes Vectoriels (ESV), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Centre International de Recherches Médicales de Franceville (CIRMF), Université Joseph Ki-Zerbo [Ouagadougou] (UJZK), Universidade Nova de Lisboa = NOVA University Lisbon (NOVA), Centre international de recherches médicales de Franceville (CIRMF), Organisation Mondiale de la Santé (OMS), Université de Ouagadougou, Universidade Nova de Lisboa (NOVA), and Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)

Subjects
0301 basic medicine, Range (biology), SNP-chip, Aedes aegypti, medicine.disease_cause, migration, Dengue fever, 03 medical and health sciences, lcsh:QH540-549.5, parasitic diseases, medicine, genetics, Chikungunya, Ecology, Evolution, Behavior and Systematics, Nature and Landscape Conservation, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE], Ecology, biology, Phylogenetic tree, Yellow fever, population structure, SNP‐chip, biology.organism_classification, medicine.disease, 3. Good health, [SDV.GEN.GA]Life Sciences [q-bio]/Genetics/Animal genetics, 030104 developmental biology, Geography, Vector (epidemiology), Genetic structure, Africa, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, lcsh:Ecology
Abstract

International audience; Aedes aegypti, the major vector of dengue, yellow fever, chikungunya, and Zika viruses , remains of great medical and public health concern. There is little doubt that the ancestral home of the species is Africa. This mosquito invaded the New World 400-500 years ago and later, Asia. However, little is known about the genetic structure and history of Ae. aegypti across Africa, as well as the possible origin(s) of the New World invasion. Here, we use ~17,000 genome-wide single nucleotide polymor-phisms (SNPs) to characterize a heretofore undocumented complex picture of this mosquito across its ancestral range in Africa. We find signatures of human-assisted migrations, connectivity across long distances in sylvan populations, and of local ad-mixture between domestic and sylvan populations. Finally, through a phylogenetic analysis combined with the genetic structure analyses, we suggest West Africa and especially Angola as the source of the New World's invasion, a scenario that fits well with the historic record of 16th-century slave trade between Africa and Americas.

Published
2018

4. Genomic analyses inform on migration events during the peopling of Eurasia

Author

N. V. Ekomasova, Elza Khusnutdinova, Andrea Bamberg Migliano, Vedrana Škaro, Georgi Hudjashov, L. A. Atramentova, Murray P. Cox, Evelin Mihailov, Marta Mirazón Lahr, Mait Metspalu, Herawati Sudoyo, Monika Karmin, Alexia Cardona, Florin Mircea Iliescu, Melissa A. Wilson Sayres, Bayazit Yunusbayev, Dilbar Dalimova, Boris Malyarchuk, Michael D. Petraglia, Rita Khusainova, Grigor Zoraqi, Mark G. Thomas, Gazi Nurun Nahar Sultana, Irina Evseeva, Kuvat T. Momynaliev, François-Xavier Ricaut, Jainagul Isakova, A. S. Karunas, Reedik Mägi, Joseph Lachance, Kristiina Tambets, Lejla Mulahasanovic, Elena Balanovska, S M Abdullah, Levon Yepiskoposyan, Oleg Balanovsky, Nicolas Brucato, Yali Xue, Lauri Saag, Andrea Manica, Christina A. Eichstaedt, Mario Mitt, Florian Clemente, Ene Metspalu, Sardana A. Fedorova, Chris Tyler-Smith, Andres Metspalu, Charlotte E. Inchley, Pagbajabyn Nymadawa, Matthew Leavesley, Marina Gubina, Guy S. Jacobs, David M. Lambert, Craig Muller, Thierry Letellier, Elvira Pocheshkhova, Qasim Ayub, Joseph Wee, Pascale Gerbault, Zhaxylyk Sabitov, Doron M. Behar, Nikolay A. Barashkov, Dragan Primorac, Christiana L. Scheib, Tiago Antao, Evelyn Jagoda, Olga Utevska, Jeffrey D. Wall, Sarah A. Tishkoff, Toomas Kivisild, Gyaneshwer Chaubey, Shahlo Turdikulova, Eske Willerslev, Alena Kushniarevich, Lehti Saag, Chandana Basu Mallick, I. M. Khidiyatova, Ludmila P. Osipova, Alexander Mörseburg, Hovhannes Sahakyan, Damir Marjanović, Larisa Damba, Richard Villems, Anders Eriksson, Miroslava Derenko, Sergei Litvinov, Daniel Lawson, Rasmus Nielsen, V. L. Akhmetova, Maru Mormina, Mari Järve, Luca Pagani, George Andriadze, Michael DeGiorgio, Mikhail Voevoda, Daria V. Lichman, Michael C. Westaway, Sarah Kaewert, Wellcome Trust Genome Campus, The Wellcome Trust Sanger Institute [Cambridge], Human Evolution, University of Pennsylvania [Philadelphia], Institute of Molecular Biology and Medicine, International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE), Department of Oncology, Human Genetics, Physiopathologie mitochondriale, Université Bordeaux Segalen - Bordeaux 2-Institut National de la Santé et de la Recherche Médicale (INSERM), Leverhulme Centre for Human Evolutionary Studies University of Cambridge, University of Cambridge [UK] (CAM), The Estonian Genome Center, University of Tartu, Institute of Cytology and Genetics, Russian Academy of Sciences [Moscow] (RAS), School of Archaeology, University of Oxford [Oxford], Russian Academy of Medical Sciences, Institute of Biochemistry and Genetics [Bashkortostan Republic, Russia], Russian Academy of Sciences / Ufa Scientific Centre [Bashkortostan Republic, Russia]], Dept Integrat Biol, UMR 6578 : Anthropologie Bio-Culturelle (UAABC), Université de la Méditerranée - Aix-Marseille 2-Centre National de la Recherche Scientifique (CNRS), Section for GeoGenetics, Globe Institute, Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU), Swedish Institute of Space Physics [Uppsala] (IRF), University of Pennsylvania, University of Oxford, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Eriksson, Anders [0000-0003-3436-3726], Cardona, Alexia [0000-0002-7877-5565], Scheib, Christiana [0000-0003-4158-8296], Jacobs, Guy [0000-0002-4698-7758], Mirazon Lahr, Marta [0000-0001-5752-5770], Manica, Andrea [0000-0003-1895-450X], Willerslev, Eske [0000-0002-7081-6748], Kivisild, Toomas [0000-0002-6297-7808], and Apollo - University of Cambridge Repository

Subjects
0301 basic medicine, History, Native Hawaiian or Other Pacific Islander, Biological anthropology, [SHS.ANTHRO-BIO]Humanities and Social Sciences/Biological anthropology, Population Dynamics, Datasets as Topic, Evolutionary biology, Balancing selection, Genome, genome, peopling, Eurasia, 0302 clinical medicine, Effective population size, History, Ancient, Neanderthals, Genetics, education.field_of_study, Multidisciplinary, Continental Population Groups, Human migration, Fossils, Medicine (all), Genomics, 3. Good health, Europe, Oceanic Ancestry Group, Human, Biotechnology, Estonia, Gene Flow, Genome evolution, Heterozygote, Asia, General Science & Technology, 1.1 Normal biological development and functioning, Human Migration, Population, Biology, Evolutionary genetics, Article, Ancient, Africa, Animals, Genetics, Population, Genome, Human, Humans, New Guinea, 03 medical and health sciences, education, business.industry, Human evolutionary genetics, Racial Groups, Human Genome, 030104 developmental biology, Generic health relevance, business, 030217 neurology & neurosurgery
Abstract

High-coverage whole-genome sequence studies have so far focused on a limited number1 of geographically restricted populations2, 3, 4, 5, or been targeted at specific diseases, such as cancer6. Nevertheless, the availability of high- resolution genomic data has led to the development of new methodologies for inferring population history7, 8, 9 and refuelled the debate on the mutation rate in humans10. Here we present the Estonian Biocentre Human Genome Diversity Panel (EGDP), a dataset of 483 high-coverage human genomes from 148 populations worldwide, including 379 new genomes from 125 populations, which we group into diversity and selection sets. We analyse this dataset to refine estimates of continent-wide patterns of heterozygosity, long- and short-distance gene flow, archaic admixture, and changes in effective population size through time as well as for signals of positive or balancing selection. We find a genetic signature in present-day Papuans that suggests that at least 2% of their genome originates from an early and largely extinct expansion of anatomically modern humans (AMHs) out of Africa. Together with evidence from the western Asian fossil record11, and admixture between AMHs and Neanderthals predating the main Eurasian expansion12, our results contribute to the mounting evidence for the presence of AMHs out of Africa earlier than 75, 000 years ago.

Published
2016

5. A recent bottleneck of Y chromosome diversity coincides with a global change in culture

Author

Sardana A. Fedorova, Ene Metspalu, Anne-Mai Ilumäe, Siiri Rootsi, Lisenka E.L.M. Vissers, François-Xavier Ricaut, Tatiana M. Karafet, David M. Lambert, Richard Villems, Elza Khusnutdinova, Denis Pierron, Daria V. Lichman, Pradiptajati Kusuma, Shahlo Turdikulova, Alena Kushniarevich, Boris Malyarchuk, Anders Eriksson, Bayazit Yunusbayev, Olga Utevska, Ludmila P. Osipova, Christina A. Eichstaedt, Monika Karmin, S. S. Litvinov, Knut Johnsen, Joseph Wee Tien Seng, Reedik Mägi, Alexia Cardona, Oleg Balanovsky, Dragan Primorac, Dilbar Dalimova, Pagbajabyn Nymadawa, Krishna R. Veeramah, Andrea Manica, Rita Khusainova, I. M. Khidiyatova, Michael F. Hammer, Kuvat T. Momynaliev, Sarah A. Tishkoff, Toomas Kivisild, Michael C. Westaway, Zhaxylyk Sabitov, Tarmo Puurand, S M Abdullah, Lejla Kovacevic, Levon Yepiskoposyan, Chris Tyler-Smith, Mario Mitt, Rane Willerslev, Mark G. Thomas, Qasim Ayub, Gazi Nurun Nahar Sultana, Jainagul Isakova, Christian Gilissen, Kristiina Tambets, Craig Muller, Gyaneshwer Chaubey, Thorfinn Sand Korneliussen, Miroslava Derenko, Farida Akhatova, V. L. Akhmetova, Joris A. Veltman, Ulvi Gerst Talas, Hovhannes Sahakyan, Maru Mormina, L. A. Atramentova, Andrea Bamberg Migliano, Vedrana Škaro, Georgi Hudjashov, N. N. Trofimova, Rasmus Nielsen, Mari Järve, Luca Pagani, George Andriadze, Evelin Mihailov, Lauri Saag, Michael DeGiorgio, Mikk Eelmets, Harilanto Razafindrazaka, Irina Evseeva, Murray P. Cox, Elvira Pocheshkhova, Nikolay A. Barashkov, Eva Liis Loogväli, Neil Bradman, Joseph Lachance, Grigor Zoraqi, Eske Willerslev, Melissa A. Wilson Sayres, Elena Balanovska, Fernando L. Mendez, Peter A. Underhill, Doron M. Behar, Mário Vicente, Maido Remm, Mait Metspalu, Yali Xue, Florian Clemente, Andres Metspalu, Zuzana Faltyskova, Damir Marjanović, Dept Evolutionary Biol, University of Tartu, Leverhulme Centre for Human Evolutionary Studies University of Cambridge, University of Cambridge [UK] (CAM), Human Evolution, The Wellcome Trust Sanger Institute [Cambridge], University of Pennsylvania, Human Genetics, Centre National de la Recherche Scientifique (CNRS), Anthropologie Moléculaire et Imagerie de Synthèse (AMIS), Université Toulouse III - Paul Sabatier (UT3), Université de Toulouse (UT)-Université de Toulouse (UT)-Centre National de la Recherche Scientifique (CNRS), Aix Marseille Université (AMU), Environmental Futures Research Institute, Griffith University [Brisbane], Institute of Molecular Biology and Medicine, International Network for the Sequencing of resPIRratory vIrusEs (INSPIRE), Department of Oncology, Radboud University Medical Center [Nijmegen], The Estonian Genome Center, Swedish Institute of Space Physics [Uppsala] (IRF), Marketing Department, Institute of Cytology and Genetics, Russian Academy of Sciences [Moscow] (RAS), Russian Academy of Medical Sciences, Institute of Biochemistry and Genetics [Bashkortostan Republic, Russia], Russian Academy of Sciences / Ufa Scientific Centre [Bashkortostan Republic, Russia]], Wellcome Trust Genome Campus, Department of Psychiatry and Behavioral Sciences [Stanford], Stanford Medicine, Stanford University-Stanford University, Section for GeoGenetics, Globe Institute, Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH)-Faculty of Health and Medical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Dept Integrat Biol, UMR 6578 : Anthropologie Bio-Culturelle (UAABC), Université de la Méditerranée - Aix-Marseille 2-Centre National de la Recherche Scientifique (CNRS), Université Tartu, University of Pennsylvania [Philadelphia], Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU)-Faculty of Health and Medical Sciences, and University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU)

Subjects
Male, Most recent common ancestor, Population, [SHS.ANTHRO-BIO]Humanities and Social Sciences/Biological anthropology, bottleneck, Y chromosome diversity, global change in culture, Human genetic variation, Biology, DNA, Mitochondrial, Haplogroup, Bottleneck, Evolution, Molecular, 03 medical and health sciences, Genetics, Humans, education, Phylogeny, Genetics (clinical), 030304 developmental biology, 0303 health sciences, education.field_of_study, Neurodevelopmental disorders Donders Center for Medical Neuroscience [Radboudumc 7], Chromosomes, Human, Y, Base Sequence, Models, Genetic, Research, Racial Groups, 030305 genetics & heredity, Haplotype, Genetic Variation, Sequence Analysis, DNA, Genetics, Population, Ancient DNA, Haplotypes, Evolutionary biology, Biological dispersal
Abstract

It is commonly thought that human genetic diversity in non-African populations was primarily shaped by a recent out-of-Africa dispersal. Here we present a large geographical Y chromosome study using 459 high coverage sequences, including 302 newly reported here. We date the Y chromosomal Most Recent Common Ancestor (MRCA) in Africa at 254 (95% CI 192- 307) kya and differentiation of African and non-African lineages 52-121 kya. The age estimates for major non-African founder haplogroups cluster closely in a narrow time interval at 47-52 kya, consistent with a rapid initial colonization model of Eurasia and Oceania after the out-of-Africa bottleneck. We find that the highest basal Y chromosome diversity outside Africa has been preserved in South and Southeast Asians while extant Y chromosome diversity in Europe and the Near East stems from a small number of mid-Holocene founders. In contrast to demographic reconstructions based on mtDNA, we infer a second strong bottleneck, followed by a fast recovery in Old World populations dating to the last 10 ky. We hypothesize that this bottleneck is caused by cultural changes affecting variance of reproductive success among males.

Published
2015

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