• Adaptation to the High-Arctic island environment despite long-term reduced genetic variation in Svalbard reindeer 

      Dussex, Nicolas; Tørresen, Ole Kristian; van der Valk, Tom; Le Moullec, Mathilde; Veiberg, Vebjørn; Tooming-Klunderud, Ave; Skage, Morten; Garmann-Aarhus, Benedicte; Wood, Jonathan; Rasmussen, Jacob Agerbo; Pedersen, Åshild Ønvik; Martin, Sarah Louise; Røed, Knut; Jakobsen, Kjetill Sigurd; Dalén, Love; Hansen, Brage Bremset; Martin, Michael David (Peer reviewed; Journal article, 2023)
      Typically much smaller in number than their mainland counterparts, island populations are ideal systems to investigate genetic threats to small populations. The Svalbard reindeer (Rangifer tarandus platyrhynchus) is an ...
    • Adaptation to the High-Arctic island environment despite long-term reduced genetic variation in Svalbard reindeer 

      Dussex, Nicolas; Tørresen, Ole Kristian; van der Valk, Tom; Le Moullec, Mathilde; Veiberg, Vebjørn; Tooming-Klunderud, Ave; Skage, Morten; Garmann-Aarhus, Benedicte; Wood, Jonathan; Rasmussen, Jacob Agerbo; Pedersen, Åshild Ønvik; Martin, Sarah Louise; Røed, Knut; Jakobsen, Kjetill Sigurd; Dalén, Love; Hansen, Brage Bremset; Martin, Michael David (Peer reviewed; Journal article, 2023)
      Typically much smaller in number than their mainland counterparts, island populations are ideal systems to investigate genetic threats to small populations. The Svalbard reindeer (Rangifer tarandus platyrhynchus) is an ...
    • Ancient and modern genomes unravel the evolutionary history of the rhinoceros family 

      Liu, Shanlin; Westbury, Michael V; Dussex, Nicolas; Mitchell, Kieren J.; Sinding, Mikkel-Holger S.; Heintzman, Peter D.; Duchêne, David A.; Kapp, Joshua D.; von Seth, Johanna; Heiniger, Holly; Sánchez-Barreiro, Fatima; Margaryan, Ashot; André-Olsen, Remi; De Cahsan, Binia; Meng, Guanliang; Yang, Chentao; Chen, Lei; van der Valk, Tom; Moodley, Yoshan; Rookmaaker, Kees; Bruford, Michael W.; Ryder, Oliver; Steiner, Cynthia; Bruins-van Sonsbeek, Linda G. R.; Vartanyan, Sergey; Guo, Chunxue; Cooper, Alan; Kosintsev, Pavel; Kirillova, Irina V.; Lister, Adrian M.; Marques-Bonet, Tomas; Gopalakrishnan, Shyam; Dunn, Robert R.; Lorenzen, Eline D.; Shapiro, Beth; Zhang, Guojie; Antoine, Pierre-Olivier; Dalén, Love; Gilbert, Marcus Thomas Pius (Peer reviewed; Journal article, 2021)
      Only five species of the once-diverse Rhinocerotidae remain, making the reconstruction of their evolutionary history a challenge to biologists since Darwin. We sequenced genomes from five rhinoceros species (three extinct ...
    • Ancient microRNA profiles of 14,300-yr-old canid samples confirm taxonomic origin and provide glimpses into tissue-specific gene regulation from the Pleistocene 

      Fromm, Bastian; Tarbier, Marcel; Smith, Oliver; Mármol-Sánchez, Emilio; Dalén, Love; Gilbert, Marcus Thomas Pius; Friedländer, Marc R. (Peer reviewed; Journal article, 2021)
      DNA sequencing is the current key technology for historic or ancient biological samples and has led to many exciting discoveries in the field of paleogenomics. However, functional insights into tissue identity, cellular ...
    • Contrasting genomic consequences of anthropogenic reintroduction and natural recolonization in high-arctic wild reindeer 

      Burnett, Hamish Andrew; Bieker, Vanessa Carina; Le Moullec, Mathilde; Peeters, Bart; Rosvold, Jørgen; Pedersen, Åshild Ønvik; Dalén, Love; Loe, Leif Egil; Jensen, Henrik; Hansen, Brage Bremset; Martin, Michael David (Peer reviewed; Journal article, 2023)
      Anthropogenic reintroduction can supplement natural recolonization in reestablishing a species' distribution and abundance. However, both reintroductions and recolonizations can give rise to founder effects that reduce ...
    • Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny 

      Cappellini, Enrico; Welker, Frido; Pandolfi, Luca; Ramos-Madrigal, Jazmín; Samodova, Diana; Rüther, Patrick L.; Fotakis, Anna K.; Lyon, David; Moreno-Mayar, J. Víctor; Bukhsianidze, Maia; Jersie-Christensen, Rosa Rakownikow; Mackie, Meaghan; Ginolhac, Aurélien; Ferring, Reid; Tappen, Martha; Palkopoulou, Eleftheria; Dickinson, Marc R.; Stafford, Jr., Thomas W.; Chan, Yvonne L.; Götherström, Anders; Nathan, Senthilvel K.S.S.; Heintzman, Peter D.; Kapp, Joshua D.; Kirillova, Irina V.; Moodley, Yoshan; Agusti, Jordi; Kahlke, Ralf-Dietrich; Kiladze, Gocha; Martínez-Navarro, Bienvenido; Liu, Shanlin; Sandoval Velasco, Marcela; Sinding, Mikkel-Holger S.; Kelstrup, Christian D.; Allentoft, Morten E.; Orlando, Ludovic; Penkman, Kirsty; Shapiro, Beth; Rook, Lorenzo; Dalén, Love; Gilbert, Marcus Thomas Pius; Olsen, Jesper V.; Lordkipanidze, David; Willerslev, Eske (Journal article; Peer reviewed, 2019)
      The sequencing of ancient DNA has enabled the reconstruction of speciation, migration and admixture events for extinct taxa1. However, the irreversible post-mortem degradation2 of ancient DNA has so far limited its ...
    • Evolutionary History, Genomic Adaptation to Toxic Diet, and Extinction of the Carolina Parakeet 

      Gelabert, Pere; Sandoval-Velasco, Marcela; Serres, Aitor; de Manuel, Marc; Renom, Pere; Margaryan, Ashot; Stiller, Josefin; De-Dios, Toni; Fang, Qi; Feng, Shaohong; Mañosa, Santi; Pacheco, George; Ferrando-Bernal, Manuel; Shi, Guolin; Hao, Fei; Chen, Xianqing; Petersen, Bent; Olsen, Remi-André; Navarro, Arcadi; Deng, Yuan; Dalén, Love; Marques-Bonet, Tomas; Zhang, Guojie; Antunes, Agostinho; Gilbert, Marcus Thomas Pius; Lalueza-Fox, Carles (Peer reviewed; Journal article, 2020)
      As the only endemic neotropical parrot to have recently lived in the northern hemisphere, the Carolina parakeet (Conuropsis carolinensis) was an iconic North American bird. The last surviving specimen died in the Cincinnati ...
    • The genome sequence of the grey wolf, Canis lupus Linnaeus 1758 

      Sinding, Mikkel-Holger S.; Gopalakrishnan, Shyam; Raundrup, Katrine; Dalén, Love; Threlfall, Jonathan; Gilbert, Marcus Thomas Pius (Peer reviewed; Journal article, 2021)
      We present a genome assembly from an individual male Canis lupus orion (the grey wolf, subspecies: Greenland wolf; Chordata; Mammalia; Carnivora; Canidae). The genome sequence is 2,447 megabases in span. The majority of ...
    • Genomic adaptations and evolutionary history of the extinct scimitar-toothed cat, Homotherium latidens 

      Barnett, Ross; Westbury, Michael V; Sandoval-Velasco, Marcela; Vieira, Filipe G.; Jeon, Sungwon; Zazula, Grant; Martin, Michael David; Ho, Simon Y.W.; Mather, Niklas; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; de Manuel, Marc; Zepeda-Mendoza, Marie Lisandra; Antunes, Agostinho; Carmona Baez, Aldo; De Cahsan, Binia; Larson, Greger; O'Brien, Stephen J.; Eizirik, Eduardo; Johnson, Warren E.; Koepfli, Klaus-Peter; Wilting, Andreas; Fickel, Jörns; Dalén, Love; Lorenzen, Eline D.; Marques-Bonet, Tomas; Hansen, Anders J.; Zhang, Guojie; Bhak, Jong; Yamaguchi, Nobuyuki; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2020)
      Homotherium was a genus of large-bodied scimitar-toothed cats, morphologically distinct from any extant felid species, that went extinct at the end of the Pleistocene [1, 2, 3, 4]. They possessed large, saber-form serrated ...
    • Genomic Consequences of Fragmentation in the Endangered Fennoscandian Arctic Fox (Vulpes lagopus) 

      Cockerill, Christopher A.; Hasselgren, Malin; Dussex, Nicolas; Dalén, Love; von Seth, Johanna; Angerbjörn, Anders; Wallén, Johan F.; Landa, Arild; Eide, Nina Elisabeth; Flagstad, Øystein; Ehrich, Dorothee; Sokolov, Aleksandr; Sokolova, Natalya; Norén, Karin (Peer reviewed; Journal article, 2022)
      Accelerating climate change is causing severe habitat fragmentation in the Arctic, threatening the persistence of many cold-adapted species. The Scandinavian arctic fox (V. lagopus) is highly fragmented, with a once ...
    • Genomic insights into the conservation status of the world’s last remaining Sumatran rhinoceros populations 

      von Seth, Johanna; Dussex, Nicolas; Díez-del-Molino, David; van der Valk, Tom; Kutschera, Verena E.; Kierczak, Marcin; Steiner, Cynthia C.; Liu, Shanlin; Gilbert, Marcus Thomas Pius; Sinding, Mikkel-Holger S.; Prost, Stefan; Guschanski, Katerina; Nathan, Senthilvel K. S. S.; Brace, Selina; Chan, Yvonne L.; Wheat, Christopher W.; Skoglund, Pontus; Ryder, Oliver A.; Goossens, Benoit; Götherström, Anders; Dalén, Love (Peer reviewed; Journal article, 2021)
      Small populations are often exposed to high inbreeding and mutational load that can increase the risk of extinction. The Sumatran rhinoceros was widespread in Southeast Asia, but is now restricted to small and isolated ...
    • Grey wolf genomic history reveals a dual ancestry of dogs 

      Bergström, Anders; Stanton, David W. G.; Taron, Ulrike H.; Frantz, Laurent; Sinding, Mikkel Holger Strander; Ersmark, Erik; Pfrengle, Saskia; Cassatt-Johnstone, Molly; Lebrasseur, Ophélie; Girdland-Flink, Linus; Fernandes, Daniel M.; Ollivier, Morgane; Speidel, Leo; Gopalakrishnan, Shyam; Westbury, Michael V.; Ramos-Madrigal, Jazmin; Feuerborn, Tatiana R.; Reiter, Ella; Gretzinger, Joscha; Münzel, Susanne C.; Swali, Pooja; Conard, Nicholas J.; Carøe, Christian; Haile, James; Linderholm, Anna; Androsov, Semyon; Barnes, Ian; Baumann, Chris; Benecke, Norbert; Bocherens, Hervé; Brace, Selina; Carden, Ruth F.; Drucker, Dorothée G.; Fedorov, Sergey; Gasparik, Mihály; Germonpré, Mietje; Grigoriev, Semyon; Groves, Pam; Hertwig, Stefan T.; Ivanova, Varvara V.; Janssens, Luc; Jennings, Richard P.; Kasparov, Aleksei K.; Kirillova, Irina V.; Kurmaniyazov, Islam; Kuzmin, Yaroslav V.; Kosintsev, Pavel A.; Lázničková-Galetová, Martina; Leduc, Charlotte; Nikolskiy, Pavel; Nussbaumer, Marc; O’Drisceoil, Cóilín; Orlando, Ludovic; Outram, Alan; Pavlova, Elena Y.; Perri, Angela R.; Pilot, Małgorzata; Pitulko, Vladimir V.; Plotnikov, Valerii V.; Protopopov, Albert V.; Rehazek, André; Sablin, Mikhail; Seguin-Orlando, Andaine; Storå, Jan; Verjux, Christian; Zaibert, Victor F.; Zazula, Grant; Crombé, Philippe; Hansen, Anders J.; Willerslev, Eske; Leonard, Jennifer A.; Götherström, Anders; Pinhasi, Ron; Schuenemann, Verena J.; Hofreiter, Michael; Gilbert, Marcus Thomas Pius; Shapiro, Beth; Larson, Greger; Krause, Johannes; Dalén, Love; Skoglund, Pontus (Peer reviewed; Journal article, 2022)
      The grey wolf (Canis lupus) was the first species to give rise to a domestic population, and they remained widespread throughout the last Ice Age when many other large mammal species went extinct. Little is known, however, ...
    • Historic Sampling of a Vanishing Beast: Population Structure and Diversity in the Black Rhinoceros 

      Sánchez-Barreiro, Fátima; De Cahsan, Binia; Westbury, Michael V.; Sun, Xin; Margaryan, Ashot; Fontsere, Claudia; Bruford, Michael W.; Russo, Isa-Rita M; Kalthoff, Daniela C.; Sicheritz-Pontén, Thomas; Petersen, Bent; Dalén, Love; Zhang, Guojie; Marquès-Bonet, Tomás; Gilbert, Marcus Thomas Pius; Moodley, Yoshan (Peer reviewed; Journal article, 2023)
      The black rhinoceros (Diceros bicornis L.) is a critically endangered species historically distributed across sub-Saharan Africa. Hunting and habitat disturbance have diminished both its numbers and distribution since the ...
    • Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum) 

      Sánchez-Barreiro, Fátima; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; Westbury, Michael V.; de Manuel, Marc; Margaryan, Ashot; Ciucani, Marta M.; Vieira, Filipe G.; Patramanis, Yannis; Kalthoff, Daniela C.; Timmons, Zena; Sicheritz-Pontén, Thomas; Dalén, Love; Ryder, Oliver A.; Zhang, Guojie; Marquès-Bonet, Tomás; Moodley, Yoshan; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2021)
      Large vertebrates are extremely sensitive to anthropogenic pressure, and their populations are declining fast. The white rhinoceros (Ceratotherium simum) is a paradigmatic case: this African megaherbivore has suffered a ...
    • Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum) 

      Sánchez-Barreiro, Fátima; Gopalakrishnan, Shyam; Ramos-Madrigal, Jazmín; Westbury, Michael V.; de Manuel, Marc; Margaryan, Ashot; Ciucani, Marta M.; Vieira, Filipe G.; Patramanis, Yannis; Kalthoff, Daniela C.; Timmons, Zena; Sicheritz-Pontén, Thomas; Dalén, Love; Ryder, Oliver A.; Zhang, Guojie; Marquès-Bonet, Tomás; Moodley, Yoshan; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2021)
      Large vertebrates are extremely sensitive to anthropogenic pressure, and their populations are declining fast. The white rhinoceros (Ceratotherium simum) is a paradigmatic case: this African megaherbivore has suffered a ...
    • Inference of natural selection from ancient DNA 

      Dehasque, Marianne; Ávila-Arcos, María C; Díez-del-Molino, David; Fumagalli, Matteo; Guschanski, Katerina; Lorenzen, Eline D.; Malaspinas, Anna-Sapfo; Marques-Bonet, Tomas; Martin, Michael David; Murray, Gemma G.R.; Papadopulos, Alexander; Therkildsen, Nina Overgaard; Wegmann, Daniel; Dalén, Love; Foote, Andrew (Peer reviewed; Journal article, 2020)
      Evolutionary processes, including selection, can be indirectly inferred based on patterns of genomic variation among contemporary populations or species. However, this often requires unrealistic assumptions of ancestral ...
    • Population genomics of grey wolves and wolf-like canids in North America 

      Sinding, Mikkel Holger Strander; Gopalakrishnan, Shyam; Vieira, Filipe G.; Samaniego, Jose A; Raundrup, Katrine; Heide Jørgensen, Mads Peter; Meldgaard, Morten; Petersen, Bent; Sicheritz-Ponten, Thomas; Mikkelsen, Johan Brus; Marquard-Petersen, Ulf; Dietz, Rune; Sonne, Christian; Dalén, Love; Bachmann, Lutz; Wiig, Øystein; Hansen, Anders J.; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2018)
      North America is currently home to a number of grey wolf (Canis lupus) and wolf-like canid populations, including the coyote (Canis latrans) and the taxonomically controversial red, Eastern timber and Great Lakes wolves. ...
    • Pre-extinction demographic stability and genomic signatures of adaptation in the woolly rhinoceros 

      Lord, Edana; Dussex, Nicolas; Kierczak, Marcin; Díez-del-Molino, David; Ryder, Oliver A.; Stanton, David W. G.; Gilbert, Marcus Thomas Pius; Sánchez-Barreiro, Fatima; Zhang, Guojie; Sinding, Mikkel-Holger S.; Lorenzen, Eline D.; Willerslev, Eske; Protopov, Albert; Shidlovskiy, Fedor K.; Fedorov, Sergey; Bocherens, Hervé; Nathan, Senthilvel K.S.S.; Goossens, Benoit; Johannes, van der Plicht; Chan, Yvonne L.; Prost, Stefan; Potapova, Olga R; Kirillova, Irina V.; Lister, Adrian M.; Heintzman, Peter D.; Kapp, Joshua D.; Shapiro, Beth; Vartanyan, Sergey; Götherström, Anders; Dalén, Love (Peer reviewed; Journal article, 2020)
      Ancient DNA has significantly improved our understanding of the evolution and population history of extinct megafauna. However, few studies have used complete ancient genomes to examine species responses to climate change ...
    • Specialized sledge dogs accompanied Inuit dispersal across the North American Arctic 

      Ameen, Carly; Feuerborn, Tatiana R.; Brown, Sarah K.; Linderholm, Anna; Hulme-Beaman, Ardern; Lebrasseur, Ophelie; Sinding, Mikkel Holger Strander; Lounsberry, Zachary T.; Lin, Audrey T.; Appelt, Martin; Bachmann, Lutz; Betts, Matthew; Britton, Kate; Darwent, John; Dietz, Rune; Fredholm, Merethe; Gopalakrishnan, Shyam; Goruinova, Olga I.; Grønnow, Bjarne; Haile, James; Hallsson, Jón Hallsteinn; Harrison, Ramona; Heide-Jørgensen, Mads-Peter; Knecht, Rick; Losey, Robert J.; Masson-MacLean, Edouard; McGovern, Thomas H.; McMagnus-Fry, Ellen; Meldgaard, Morten; Midtdal, Åslaug; Moss, Madonna L.; Nikitin, Iurii G.; Nomokonova, Tatiana; Palsdottir, Albina Hulda; Perri, Angela; Popov, Aleksandr N.; Rankin, Lisa; Reuther, Joshua D.; Sablin, Mikhail V.; Schmidt, Anne Lisbeth; Shirar, Scott; Smiarowski, Konrad; Sonne, Christian; Stiner, Mary C.; Vasyukov, Mitya; West, Catherine F.; Ween, Gro Birgit; Wennerberg, Sanne Eline; Wiig, Øystein; Woollett, James; Dalén, Love; Hansen, Anders J.; Gilbert, Marcus Thomas Pius; Sacks, Benjamin N; Frantz, Laurent A.F.; Larson, Greger; Dobney, Keith; Darwent, Christyann M.; Evin, Allowen (Journal article; Peer reviewed, 2019)
      Domestic dogs have been central to life in the North American Arctic for millennia. The ancestors of the Inuit were the first to introduce the widespread usage of dog sledge transportation technology to the Americas, but ...
    • The wolf reference genome sequence (Canis lupus lupus) and its implications for Canis spp. population genomics 

      Gopalakrishnan, Shyam; Samaniego Castruita, José Alfredo; Sinding, Mikkel Holger Strander; Kuderna, Lukas FK; Räikkönen, Jannikke; Petersen, Bent; Sicheritz-Ponten, Thomas; Larson, Greger; Orlando, Ludovic; Marques-Bonet, Tomas; Hansen, Anders J.; Dalén, Love; Gilbert, Marcus Thomas Pius (Journal article; Peer reviewed, 2017)
      Background: An increasing number of studies are addressing the evolutionary genomics of dog domestication, principally through resequencing dog, wolf and related canid genomes. There is, however, only one de novo assembled ...