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Articles by Anders Bergström
Paleogenomes reveal the evolutionary relationship between modern and cave lions
Results and discussion We generated whole-genome sequences from 10 cave lion samples, following an initial screening of 52 specimens. Mean coverage of these samples was 3.5× (min 0.3×, max 19.5×). We radiocarbon dated one sample that had not been dated previously and used mitochondrial tip-dating17 to estimate the ages of samples with non-finite 14C dates (n = 4; Table S1). We also sequenced a museum specimen of one historic lion from the now-extinct Southwest Asian population.
Genomic history of early dogs in Europe
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13 hours ago Nathan Newby, a hero hospital patient who stopped a “lone-wolf terrorist” from detonating a bomb at Leeds hospital’s maternity wing, says the would-be attacker “asked for a cuddle.” Mohammad Farooq was jailed last year for life with a minimum term of 37 years after taking a home-made pressure cooker bomb into St James’s Hospital, intending to “kill as many nurses as possible”. Mr Newby will receive the George Medal, the second-highest civilian gallantry award, for his bravery.
By Anders Bergström, Anja Furtwängler, Sarah Johnston, Erika Rosengren, Abagail Breidenstein, Jesse McCabe, Jessica Peto, Mia Williams Verified, Monica Kelly, Mónica Kelly, Frankie Tait, Chris Baumann, Rita Radzeviciute, Christopher Barrington, Kyriaki Anastasiadou, Alexandre Gilardet, Isabelle Glocke, Mattias Sherman, Anastasia Brativnyk, Alexander Herbig, Kay Prüfer, Saskia Pfrengle, Joscha Gretzinger, Tatiana Feuerborn, Ella Reiter, Anna Linderholm, Sophy Charlton, Fernando Racimo, Lea Mikkola, Hugo Anderson-Whymark, Douglas Baird, Anne Birgitte Gotfredsen, Hervé Bocherens, Anne Bridault, Rainer Brocke, Dorothée G. Drucker, Andrew Fairbairn, Laurent A. F. Frantz, Boris Gasparyan, Liane Giemsch, Mietje Germonpré, Luc Janssens, Andrew W. Kandel, Kurt H. Kjær, Daniel Loponte, Ola Magnell, Louise Martin, Susanne C. Münzel, Gökhan Mustafaoğlu, Bjørnar Måge, Angela Perri, Franziska Pfenninger, Annelise Roman-Binois, Özlem Sarıtaş, Katharina Schäppi, J. Sheridan, Karl-Göran Sjögren, Jan Storå, Lasse Sørensen, Yvonne Tafelmaier, Florian Ter-Nedden, Olaf Thalmann, Greger Larson, Verena J. Schuenemann, Johannes Krause, Pontus Skoglund
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Dogs were widely distributed across western Eurasia during the Palaeolithic
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Abstract Archaeological evidence suggests that dogs diverged from wolves during the Palaeolithic, more than 15,000 years ago1,2,3,4,5,6,7. The earliest unequivocal genetic evidence, however, is associated with dog remains from Mesolithic archaeological contexts approximately 10,900 years ago8,9.
By William Marsh, Lachie Scarsbrook, Eren Yüncü, Lizzie Hodgson, Audrey Lin, Maria De Iorio, Olaf Thalmann, Mark Thomas Verified, Mahaut Goor, Anders Bergström, Angela Noseda, Sarieh Amiri, Fereidoun Biglari, Dušan Borić, Katia Bougiouri, Alberto Carmagnini, Maddalena Giannì, Tom Higham, Ophélie Lebrasseur, Anna Linderholm, Marcello A. Mannino, Caroline Middleton, Gökhan Mustafaoğlu, Angela Perri, Joris Peters, Mike Richards, Özlem Sarıtaş, Pontus Skoglund, Rhiannon Stevens, Chris Stringer, Kristina Tabbada, Helen M. Talbot, Laura G. Van der Sluis, Silvia M. Bello, Vesna Dimitrijevic, Louise Martin, Marjan Mashkour, Simon A. Parfitt, Sonja Vukovic, Selina Brace, Oliver E. Craig, Douglas Baird, Sophy Charlton, Greger Larson, Ian Barnes, Laurent A. F. Frantz
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Nature
Verified
Genomic history of early dogs in Europe
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Abstract The earliest morphologically identifiable dogs are from Europe and date to at least 14,000 years ago1,2,3,4,5, although early remains are also found in other regions. The origin of early dogs in Europe, and their relationships to other dogs, has remained elusive in the absence of genome-wide data.
By Anders Bergström, Anja Furtwängler, Sarah Johnston, Erika Rosengren, Abagail Breidenstein, Thomas Booth, Jesse McCabe, Jessica Peto, Mia Williams Verified, Monica Kelly, Mónica Kelly, Frankie Tait, Chris Baumann, Rita Radzeviciute, Christopher Barrington, Kyriaki Anastasiadou, Alexandre Gilardet, Isabelle Glocke, Mattias Sherman, Anastasia Brativnyk, Alexander Herbig, Kay Prüfer, Saskia Pfrengle, Joscha Gretzinger, Tatiana Feuerborn, Ella Reiter, Anna Linderholm, Sophy Charlton, Fernando Racimo, Lea Mikkola, Hugo Anderson-Whymark, Douglas Baird, Anne Birgitte Gotfredsen, Hervé Bocherens, Anne Bridault, Rainer Brocke, Dorothée G. Drucker, Andrew Fairbairn, Laurent A. F. Frantz, Boris Gasparyan, Liane Giemsch, Mietje Germonpré, Luc Janssens, Andrew W. Kandel, Kurt H. Kjær, Daniel Loponte, Ola Magnell, Louise Martin, Susanne C. Münzel, Gökhan Mustafaoğlu, Bjørnar Måge, Angela Perri, Franziska Pfenninger, Annelise Roman-Binois, Özlem Sarıtaş, Katharina Schäppi, J. Sheridan, Karl-Göran Sjögren, Jan Storå, Lasse Sørensen, Yvonne Tafelmaier, Florian Ter-Nedden, Olaf Thalmann, Greger Larson, Verena J. Schuenemann, Johannes Krause, Pontus Skoglund
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Nature
Verified
The Entrance, the Floor, and the Tile : Unfolding Material Histories at Museum Renovation Sites in Berlin, Stockholm, and London
Nyckelord: HUMANIORA; HUMANITIES; Architecture; Architectural theory and history; Building materials; Construction sites; Following as method; Labour and building; Material history; Microhistory; National museums; Renovation sites; Renovation studies; Transnational history; Museumsinsel Berlin; Nationalmuseum Stockholm; V A London; Architecture; Arkitektur; Arkitekturens historia och teori; History and Theory of Architecture; Sammanfattning: What can building materials and renovation...
Improving data archiving practices in ancient genomics - Scientific Data
Abstract Ancient DNA is producing a rich record of past genetic diversity in humans and other species. However, unless the primary data is appropriately archived, its long-term value will not be fully realised. I surveyed publicly archived data from 42 recent ancient genomics studies. Half of the studies archived incomplete datasets, preventing accurate replication and representing a loss of data of potential future use. No studies met all criteria that could be considered best practice.
Ancient and recent origins of shared polymorphisms in yeast - Nature Ecology & Evolution
Abstract Shared genetic polymorphisms between populations and species can be ascribed to ancestral variation or to more recent gene flow. Here, we mapped shared polymorphisms in Saccharomyces cerevisiae and its sister species Saccharomyces paradoxus, which diverged 4–6 million years ago. We used a dense map of single-nucleotide diagnostic markers (mean distance 15.6 base pairs) in 1,673 sequenced S. cerevisiae isolates to catalogue 3,852 sequence blocks (≥5 consecutive markers) introgressed from S.
Shared chromosomal segments connect ancient human societies - Nature Genetics
Long segments of the genome that are shared ‘identical by descent’ (IBD) demonstrate recent relatedness between individuals. A new computational method robustly identifies shared IBD segments in human ancient DNA data, providing insights into the mobility and demography of prehistoric human societies.
Yersinia pestis genomes reveal plague in Britain 4000 years ago - Nature Communications
Abstract Extinct lineages of Yersinia pestis, the causative agent of the plague, have been identified in several individuals from Eurasia between 5000 and 2500 years before present (BP). One of these, termed the ‘LNBA lineage’ (Late Neolithic and Bronze Age), has been suggested to have spread into Europe with human groups expanding from the Eurasian steppe.
Improving data archiving practices in ancient genomics
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XEN 45 gel stent implantation
Introduction Primary open-angle glaucoma is characterized by chronic progressive loss of the retinal nerve fiber layer and reduction of the optic nerve border, resulting in progressive reduction of the visual field.
Grey wolf genomic history reveals a dual ancestry of dogs - Nature
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Sampling, DNA preparation and sequencing Stockholm Samples LOW002, LOW003, LOW006, LOW007, LOW008 and PON012 were processed at the Archaeological Research Laboratory at Stockholm University, Sweden, following methods previously described8.
By Anders Bergström, Laurent A. F. Frantz, Mikkel-Holger S. Sinding, Ophélie Lebrasseur, Daniel Fernandes, Morgane Ollivier, Michael Westbury, Jazmín Ramos-Madrigal, Tatiana Feuerborn, Nicholas J. Conard, James Haile, Anna Linderholm, Ian Barnes, Chris Baumann, Hervé Bocherens, Selina Brace, Dorothée G. Drucker, Mietje Germonpré, Richard Jennings, Yaroslav V. Kuzmin, Ludovic Orlando, Alan K. Outram, Angela Perri, Valerii V. Plotnikov, Mikhail Sablin, Philippe Crombé, Anders J. Hansen, Jennifer Leonard, Ron Pinhasi, Beth Shapiro, Greger Larson, Johannes Krause, Love Dalén
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Nature
Verified
Genome-scale sequencing and analysis of human, wolf, and bison DNA from 25,000-year-old sediment
Highlights • A single shotgun-sequenced Pleistocene sediment yielded genomic data of three mammals • Sediment genome sequencing can produce data comparable to that from skeletal remains • A pre-LGM human lineage from the Caucasus was an ancestral component of West Eurasia • ∼0.01X wolf and bison environmental genomes, suggesting reshaping of populations Summary Cave sediments have been shown to preserve ancient DNA but so far have not yielded the genome-scale information of skeletal remains.
Origins of modern human ancestry
Abstract New finds in the palaeoanthropological and genomic records have changed our view of the origins of modern human ancestry. Here we review our current understanding of how the ancestry of modern humans around the globe can be traced into the deep past, and which ancestors it passes through during our journey back in time. We identify three key phases that are surrounded by major questions, and which will be at the frontiers of future research.
Genome-scale sequencing and analysis of human, wolf and bison DNA from 25,000 year-old sediment
New Results Pere Gelabert, Susanna Sawyer, Anders Bergström, Thomas C. Collin, Tengiz Meshveliani, Anna Belfer-Cohen, David Lordkipanidze, Nino Jakeli, Zinovi Matskevich, Guy Bar-Oz, Daniel M. Fernandes, Olivia Cheronet, Kadir T. Özdoğan, Victoria Oberreiter, Robin N. M. Feeney, Mareike C.
Origins and genetic legacy of prehistoric dogs
Dog domestication was multifaceted Dogs were the first domesticated animal, likely originating from human-associated wolves, but their origin remains unclear. Bergstrom et al. sequenced 27 ancient dog genomes from multiple locations near to and corresponding in time to comparable human ancient DNA sites (see the Perspective by Pavlidis and Somel).
Origins and genetic legacy of prehistoric dogs
By Anders Bergström, Laurent Frantz, Ryan Schmidt, Erik Ersmark, Ophelie Lebrasseur, Linus Girdland-Flink, Audrey T. Lin, Jan Storå, Karl-Göran Sjögren, David Anthony, Ekaterina Antipina, Sarieh Amiri, Guy Bar-Oz, Vladimir I. Bazaliiskii, Jelena Bulatović, Dorcas Brown, Alberto Carmagnini, Tom Davy, Sergey Fedorov, Ivana Fiore, Deirdre Fulton, Mietje Germonpré, James Haile, Evan K.
Population Structure, Stratification, and Introgression of Human Structural Variation
Under a Creative Commons license open access Highlights • Catalog of structural variants from a diverse set of human populations • Identification of high-frequency population-specific variants • Highly stratified variants putatively introgressed from Neanderthals and Denisovans • De novo genome assemblies uncover and place sequences missing from the reference Summary Structural variants contribute substantially to genetic diversity and are important evolutionarily and medically, but they are...
Population Structure, Stratification, and Introgression of Human Structural Variation
Highlights • Catalog of structural variants from a diverse set of human populations • Identification of high-frequency population-specific variants • Highly stratified variants putatively introgressed from Neanderthals and Denisovans • De novo genome assemblies uncover and place sequences missing from the reference Summary Structural variants contribute substantially to genetic diversity and are important evolutionarily and medically, but they are still understudied.
Insights into human genetic variation and population history from 929 diverse genomes
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Insights into human genetic variation and population history from 929 diverse genomes
Genomes from around the globe Genomic sequencing of diverse human populations to understand overall genetic diversity has lagged behind in-depth examination of specific populations. To add to our understanding of human genetic diversity, Bergström et al. generated whole-genome sequences surveying individuals in the Human Genome Diversity Project, which is a panel of global populations that has been instrumental in understanding the history of human populations.
Association between keratoconus disease severity and repeatability in measurements of parameters for the assessment of progressive disease
Loading metrics Open Access Peer-reviewed Research Article Ingemar Gustafsson , Anders Bergström, Anna Cardiakides Myers, Anders Ivarsen, Jesper Hjortdal Ingemar Gustafsson, Anders Bergström, Anna Cardiakides Myers, Anders Ivarsen, Jesper Hjortdal Published: February 14, 2020 https://doi.org/10.1371/journal.pone.0228992 Figures Abstract Background Progressive keratoconus can lead to severely impaired vision, but there is currently no consensus on the definition of progressive disease.
Population Structure, Stratification and Introgression of Human Structural Variation in the HGDP.
New Results Mohamed A. Almarri, Anders Bergstrom, Javier Prado-Martinez, Alistair S. Dunham, Yuan Chen, Chris Tyler-Smith, Yali Xue doi: https://doi.org/10.1101/746172 Abstract Structural variants contribute substantially to genetic diversity and are important evolutionarily and medically, yet are still understudied.
Insights into human genetic variation and population history from 929 diverse genomes
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Human Genetics: Busy Subway Networks in Remote Oceania?
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Paleolithic networking
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A Neolithic expansion, but strong genetic structure, in the independent history of New Guinea
Papua New Guinea was likely a stepping stone for human migration from Asia to Australia. Bergström et al. analyzed genome-wide autosomal data from several peoples in Papua New Guinea and determined population structure, divergence, and temporal size changes on the island. A sharp genetic divide is evident between the highlands and lowlands that appears to have occurred 10,000 to 20,000 years ago, concurrent with the spread of crop cultivation and the trans-New Guinea language family.
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