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  • 1. Ameen, Carly
    et al.
    Feuerborn, Tatiana R.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Brown, Sarah K.
    Linderholm, Anna
    Hulme-Beaman, Ardern
    Lebrasseur, Ophelie
    Sinding, Mikkel-Holger S.
    Lounsberry, Zachary T.
    Lin, Audrey T.
    Appelt, Martin
    Bachmann, Lutz
    Betts, Matthew
    Britton, Kate
    Darwent, John
    Dietz, Rune
    Fredholm, Merete
    Gopalakrishnan, Shyam
    Goriunova, Olga I.
    Gronnow, Bjarne
    Haile, James
    Hallsson, Jon Hallsteinn
    Harrison, Ramona
    Heide-Jorgensen, Mads Peter
    Knecht, Rick
    Losey, Robert J.
    Masson-MacLean, Edouard
    McGovern, Thomas H.
    McManus-Fry, Ellen
    Meldgaard, Morten
    Midtdal, Aslaug
    Moss, Madonna L.
    Nikitin, Iurii G.
    Nomokonova, Tatiana
    Palsdottir, Albina Hulda
    Perri, Angela
    Popov, Aleksandr N.
    Rankin, Lisa
    Reuther, Joshua D.
    Sablin, Mikhail
    Schmidt, Anne Lisbeth
    Shirar, Scott
    Smiarowski, Konrad
    Sonne, Christian
    Stiner, Mary C.
    Vasyukov, Mitya
    West, Catherine F.
    Ween, Gro Birgit
    Wennerberg, Sanne Eline
    Wiig, Oystein
    Woollett, James
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Hansen, Anders J.
    Gilbert, M. Thomas P.
    Sacks, Benjamin N.
    Frantz, Laurent
    Larson, Greger
    Dobney, Keith
    Darwent, Christyann M.
    Evin, Allowen
    Specialized sledge dogs accompanied Inuit dispersal across the North American Arctic2019In: Proceedings of the Royal Society of London. Biological Sciences, ISSN 0962-8452, E-ISSN 1471-2954, Vol. 286, no 1916, article id 20191929Article in journal (Refereed)
    Abstract [en]

    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 whether the Inuit adopted local Palaeo-Inuit dogs or introduced a new dog population to the region remains unknown. To test these hypotheses, we generated mitochondrial DNA and geometric morphometric data of skull and dental elements from a total of 922 North American Arctic dogs and wolves spanning over 4500 years. Our analyses revealed that dogs from Inuit sites dating from 2000 BP possess morphological and genetic signatures that distinguish them from earlier Palaeo-Inuit dogs, and identified a novel mitochondrial clade in eastern Siberia and Alaska. The genetic legacy of these Inuit dogs survives today in modern Arctic sledge dogs despite phenotypic differences between archaeological and modern Arctic dogs. Together, our data reveal that Inuit dogs derive from a secondary pre-contact migration of dogs distinct from Palaeo-Inuit dogs, and probably aided the Inuit expansion across the North American Arctic beginning around 1000 BP.

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  • 2. Angerbjorn, Anders
    et al.
    Eide, Nina E.
    Dalen, Love
    Elmhagen, Bodil
    Hellstrom, Peter
    Ims, Rolf A.
    Killengreen, Siw
    Landa, Arild
    Meijer, Tomas
    Mela, Matti
    Niemimaa, Jukka
    Noren, Karin
    Tannerfeldt, Magnus
    Yoccoz, Nigel G.
    Henttonen, Heikki
    Carnivore conservation in practice: replicated management actions on a large spatial scale2013In: Journal of Applied Ecology, ISSN 0021-8901, E-ISSN 1365-2664, Vol. 50, no 1, p. 59-67Article in journal (Refereed)
  • 3. Bannikova, Anna A.
    et al.
    Jenkins, Paulina D.
    Solovyeva, Evgeniya N.
    Pavlova, Svetlana, V
    Demidova, Tatiana B.
    Simanovsky, Sergey A.
    Sheftel, Boris, I
    Lebedev, Vladimir S.
    Fang, Yun
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Abramov, Alexei, V
    Who are you, Griselda? A replacement name for a new genus of the Asiatic short-tailed shrews (Mammalia, Eulipotyphla, Soricidae): molecular and morphological analyses with the discussion of tribal affinities2019In: ZooKeys, ISSN 1313-2989, E-ISSN 1313-2970, no 888, p. 133-158Article in journal (Refereed)
    Abstract [en]

    The first genetic study of the holotype of the Gansu short-tailed shrew, Blarinella griselda Thomas, 1912, is presented. The mitochondrial analysis demonstrated that the type specimen of B. griselda is close to several recently collected specimens from southern Gansu, northern Sichuan and Shaanxi, which are highly distinct from the two species of Asiatic short-tailed shrews of southern Sichuan, Yunnan, and Vietnam, B. quadraticauda and B. wardi. Our analysis of four nuclear genes supported the placement of B. griselda as sister to B. quadraticauda / B. wardi, with the level of divergence between these two clades corresponding to that among genera of Soricinae. A new generic name, Parablarinella, is proposed for the Gansu short-tailed shrew. Karyotypes of Parablarinella griselda (2n = 49, NFa = 50) and B. quadraticauda (2n = 49, NFa = 62) from southern Gansu are described. The tribal affinities of Blarinellini and Blarinini are discussed.

  • 4. Barlow, Axel
    et al.
    Cahill, James A.
    Hartmann, Stefanie
    Theunert, Christoph
    Xenikoudakis, Georgios
    Fortes, Gloria G.
    Paijmans, Johanna L. A.
    Rabeder, Gernot
    Frischauf, Christine
    Grandal-d'Anglade, Aurora
    Garcia-Vazquez, Ana
    Murtskhvaladze, Marine
    Saarma, Urmas
    Anijalg, Peeter
    Skrbinsek, Tomaz
    Bertorelle, Giorgio
    Gasparian, Boris
    Bar-Oz, Guy
    Pinhasi, Ron
    Slatkin, Montgomery
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Shapiro, Beth
    Hofreiter, Michael
    Partial genomic survival of cave bears in living brown bears2018In: Nature Ecology & Evolution, E-ISSN 2397-334X, Vol. 2, no 10, p. 1563-1570Article in journal (Refereed)
  • 5. Brace, Selina
    et al.
    Palkopoulou, Eleftheria
    Dalen, Love
    Lister, Adrian M.
    Miller, Rebecca
    Otte, Marcel
    Germonpre, Mietje
    Blockley, Simon P. E.
    Stewart, John R.
    Barnes, Ian
    Serial population extinctions in a small mammal indicate Late Pleistocene ecosystem instability2012In: Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, E-ISSN 1091-6490, Vol. 109, no 50, p. 20532-20536Article in journal (Refereed)
  • 6. Brace, Selina
    et al.
    Thomas, Jessica A.
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Burger, Joachim
    MacPhee, Ross D. E.
    Barnes, Ian
    Turvey, Samuel T.
    Evolutionary History of the Nesophontidae, the Last Unplaced Recent Mammal Family2016In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 33, no 12, p. 3095-3103Article in journal (Refereed)
    Abstract [en]

    The mammalian evolutionary tree has lost several major clades through recent human-caused extinctions. This process of historical biodiversity loss has particularly affected tropical island regions such as the Caribbean, an area of great evolutionary diversification but poor molecular preservation. The most enigmatic of the recently extinct endemic Caribbean mammals are the Nesophontidae, a family of morphologically plesiomorphic lipotyphlan insectivores with no consensus on their evolutionary affinities, and which constitute the only major recent mammal clade to lack any molecular information on their phylogenetic placement. Here, we use a palaeogenomic approach to place Nesophontidae within the phylogeny of recent Lipotyphla. We recovered the near-complete mitochondrial genome and sequences for 17 nuclear genes from a similar to 750-year-old Hispaniolan Nesophontes specimen, and identify a divergence from their closest living relatives, the Solenodontidae, more than 40 million years ago. Nesophontidae is thus an older distinct lineage than many extant mammalian orders, highlighting not only the role of island systems as "museums" of diversity that preserve ancient lineages, but also the major human-caused loss of evolutionary history.

  • 7. Cappellini, Enrico
    et al.
    Gentry, Anthea
    Palkopoulou, Eleftheria
    Ishida, Yasuko
    Cram, David
    Roos, Anna-Marie
    Watson, Mick
    Johansson, Ulf S.
    Swedish Museum of Natural History, Department of Zoology.
    Fernholm, Bo
    Swedish Museum of Natural History, Department of Zoology.
    Agnelli, Paolo
    Barbagli, Fausto
    Littlewood, D. Tim. J.
    Kelstrup, Christian D.
    Olsen, Jesper V.
    Lister, Adrian M.
    Roca, Alfred L.
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Gilbert, M. Thomas P.
    Resolution of the type material of the Asian elephant, Elephas maximus Linnaeus, 1758 (Proboscidea, Elephantidae)2014In: Zoological Journal of the Linnean Society, ISSN 0024-4082, E-ISSN 1096-3642, Vol. 170, p. 222-232Article in journal (Refereed)
  • 8. Cappellini, Enrico
    et al.
    Welker, Frido
    Pandolfi, Luca
    Ramos-Madrigal, Jazmin
    Samodova, Diana
    Ruther, Patrick L.
    Fotakis, Anna K.
    Lyon, David
    Moreno-Mayar, J. Victor
    Bukhsianidze, Maia
    Jersie-Christensen, Rosa Rakownikow
    Mackie, Meaghan
    Ginolhac, Aurelien
    Ferring, Reid
    Tappen, Martha
    Palkopoulou, Eleftheria
    Dickinson, Marc R.
    Stafford, Thomas W., Jr.
    Chan, Yvonne L.
    Gotherstrom, Anders
    Nathan, Senthilvel K. S. S.
    Heintzman, Peter D.
    Kapp, Joshua D.
    Kirillova, Irina
    Moodley, Yoshan
    Agusti, Jordi
    Kahlke, Ralf-Dietrich
    Kiladze, Gocha
    Martinez-Navarro, Bienvenido
    Liu, Shanlin
    Velasco, Marcela Sandoval
    Sinding, Mikkel-Holger S.
    Kelstrup, Christian D.
    Allentoft, Morten E.
    Orlando, Ludovic
    Penkman, Kirsty
    Shapiro, Beth
    Rook, Lorenzo
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Gilbert, M. Thomas P.
    Olsen, Jesper V.
    Lordkipanidze, David
    Willerslev, Eske
    Early Pleistocene enamel proteome from Dmanisi resolves Stephanorhinus phylogeny2019In: Nature, ISSN 0028-0836, E-ISSN 1476-4687, Vol. 574, no 7776, p. 103-+Article in journal (Refereed)
    Abstract [en]

    The sequencing of ancient DNA has enabled the reconstruction of speciation, migration and admixture events for extinct taxa(1). However, the irreversible post-mortem degradation(2) of ancient DNA has so far limited its recovery-outside permafrost areasto specimens that are not older than approximately 0.5 million years (Myr)(3). By contrast, tandem mass spectrometry has enabled the sequencing of approximately 1.5-Myr-old collagen type I-4. and suggested the presence of protein residues in fossils of the Cretaceous period(5)-although with limited phylogenetic use(6). In the absence of molecular evidence, the speciation of several extinct species of the Early and Middle Pleistocene epoch remains contentious. Here we address the phylogenetic relationships of the Eurasian Rhinocerotidae of the Pleistocene epoch(7-9), using the proteome of dental enamel from a Stephanorhinus tooth that is approximately 1.77-Myr old, recovered from the archaeological site of Dmanisi (South Caucasus, Georgia)(10). Molecular phylogenetic analyses place this Stephanorhinus as a sister group to the Glade formed by the woolly rhinoceros (Coelodonta antiquitatis) and Merck's rhinoceros (Stephanorhinus kirchbergensis). We show that Coelodonta evolved from an early Stephanorhinus lineage, and that this latter genus includes at least two distinct evolutionary lines. The genus Stephanorhinus is therefore currently paraphyletic, and its systematic revision is needed. We demonstrate that sequencing the proteome of Early Pleistocene dental enamel overcomes the limitations of phylogenetic inference based on ancient collagen or DNA. Our approach also provides additional information about the sex and taxonomic assignment of other specimens from Dmanisi. Our findings reveal that proteomic investigation of ancient dental enamel-which is the hardest tissue in vertebrates(11), and is highly abundant in the fossil record-can push the reconstruction of molecular evolution further back into the Early Pleistocene epoch, beyond the currently known limits of ancient DNA preservation.

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  • 9. Chang, Dan
    et al.
    Knapp, Michael
    Enk, Jacob
    Lippold, Sebastian
    Kircher, Martin
    Lister, Adrian
    MacPhee, Ross D. E.
    Widga, Christopher
    Czechowski, Paul
    Sommer, Robert
    Hodges, Emily
    Stuempel, Nikolaus
    Barnes, Ian
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Derevianko, Anatoly
    Germonpre, Mietje
    Hillebrand-Voiculescu, Alexandra
    Constantin, Silviu
    Kuznetsova, Tatyana
    Mol, Dick
    Rathgeber, Thomas
    Rosendahl, Wilfried
    Tikhonov, Alexey N.
    Willerslev, Eske
    Hannon, Greg
    Lalueza-Fox, Carles
    Joger, Ulrich
    Poinar, Hendrik
    Hofreiter, Michael
    Shapiro, Beth
    The evolutionary and phylogeographic history of woolly mammoths: a comprehensive mitogenomic analysis2017In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 7, article id 44585Article in journal (Refereed)
  • 10. Cotton, James A.
    et al.
    Berriman, Matthew
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Barnes, Ian
    Eradication genomics-lessons for parasite control2018In: Science, ISSN 0036-8075, E-ISSN 1095-9203, Vol. 361, no 6398, p. 130-131Article in journal (Refereed)
  • 11. Dalen, L
    et al.
    Elmhagen, B
    Angerbjorn, A
    DNA analysis on fox faeces and competition induced niche shifts2004In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 13, no 8, p. 2389-2392Article in journal (Refereed)
  • 12. Dalen, L
    et al.
    Fuglei, E
    Hersteinsson, P
    Kapel, C M O
    Roth, J D
    Samelius, G
    Tannerfeldt, M
    Angerbjorn, A
    Population history and genetic structure of a circumpolar species: the arctic fox2005In: Biological Journal of the Linnean Society, ISSN 0024-4066, E-ISSN 1095-8312, Vol. 84, no 1, p. 79-89Article in journal (Refereed)
  • 13. Dalen, L
    et al.
    Gotherstrom, A
    Angerbjorn, A
    Identifying species from pieces of faeces2004In: Conservation Genetics, ISSN 1566-0621, E-ISSN 1572-9737, Vol. 5, no 1, p. 109-111Article in journal (Refereed)
  • 14. Dalen, L
    et al.
    Gotherstrom, A
    Tannerfeldt, M
    Angerbjorn, A
    Is the endangered Fennoscandian arctic fox (Alopex lagopus) population genetically isolated?2002In: Biological Conservation, ISSN 0006-3207, E-ISSN 1873-2917, Vol. 105, no 2, p. 171-178, article id PII S0006-3207(01)00180-XArticle in journal (Refereed)
  • 15. Dalen, L.
    et al.
    Kvaloy, K.
    Linnell, J. D. C.
    Elmhagen, B.
    Strand, O.
    Tannerfeldt, M.
    Henttonen, H.
    Fuglei, E.
    Landa, A.
    Angerbjorn, A.
    Population structure in a critically endangered arctic fox population: does genetics matter?2006In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 15, no 10, p. 2809-2819Article in journal (Refereed)
  • 16. Dalen, Love
    et al.
    Gotherstrom, Anders
    Meijer, Tomas
    Shapiro, Beth
    Recovery of DNA from Footprints in the Snow2007In: Canadian field-naturalist, ISSN 0008-3550, Vol. 121, no 3, p. 321-324Article in journal (Refereed)
  • 17.
    Dalen, Love
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Lagerholm, Vendela K.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Nylander, Johan A. A.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Barton, Nick
    Bochenski, Zbigniew M.
    Tomek, Teresa
    Rudling, David
    Ericson, Per G. P.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics. Swedish Museum of Natural History, Research Division.
    Irestedt, Martin
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Stewart, John R.
    Identifying Bird Remains Using Ancient DNA Barcoding2017In: Genes, ISSN 2073-4425, E-ISSN 2073-4425, Vol. 8, no 6, article id 169Article in journal (Refereed)
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  • 18. Dalen, Love
    et al.
    Nystrom, Veronica
    Valdiosera, Cristina
    Germonpre, Mietje
    Sablin, Mikhail
    Turner, Elaine
    Angerbjorn, Anders
    Arsuaga, Juan Luis
    Gotherstrom, Anders
    Ancient DNA reveals lack of postglacial habitat tracking in the arctic fox2007In: Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, E-ISSN 1091-6490, Vol. 104, no 16, p. 6726-6729Article in journal (Refereed)
  • 19. Dalen, Love
    et al.
    Orlando, Ludovic
    Shapiro, Beth
    Brandstrom-Durling, Mikael
    Quam, Rolf
    Gilbert, M. Thomas P.
    Diez Fernandez-Lomana, J. Carlos
    Willerslev, Eske
    Luis Arsuaga, Juan
    Goetherstrom, Anders
    Partial Genetic Turnover in Neandertals: Continuity in the East and Population Replacement in the West2012In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 29, no 8, p. 1893-1897Article in journal (Refereed)
  • 20. Dalerum, F.
    et al.
    Freire, S.
    Angerbjorn, A.
    Lecomte, N.
    Lindgren, A.
    Meijer, T.
    Pecnerova, P.
    Dalen, L.
    Exploring the diet of arctic wolves (Canis lupus arctos) at their northern range limit2018In: Canadian Journal of Zoology, ISSN 0008-4301, E-ISSN 1480-3283, Vol. 96, no 3, p. 277-281Article in journal (Refereed)
  • 21. Dalerum, Fredrik
    et al.
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Frojd, Christina
    Lecomte, Nicolas
    Lindgren, Asa
    Meijer, Tomas
    Pecnerova, Patricia
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Angerbjorn, Anders
    Spatial variation in Arctic hare (Lepus arcticus) populations around the Hall Basin2017In: Polar Biology, ISSN 0722-4060, E-ISSN 1432-2056, Vol. 40, no 10, p. 2113-2118Article in journal (Refereed)
  • 22. Diez-del-Molino, David
    et al.
    Sanchez-Barreiro, Fatima
    Barnes, Ian
    Gilbert, M. Thomas P.
    Dalen, Love
    Quantifying Temporal Genomic Erosion in Endangered Species2018In: Trends in Ecology & Evolution, ISSN 0169-5347, E-ISSN 1872-8383, Vol. 33, no 3, p. 176-185Article in journal (Refereed)
  • 23. Doan, Karolina
    et al.
    Mackiewicz, Pawel
    Sandoval-Castellanos, Edson
    Stefaniak, Krzysztof
    Ridush, Bogdan
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Weglenski, Piotr
    Stankovic, Ana
    The history of Crimean red deer population and Cervus phylogeography in Eurasia2018In: Zoological Journal of the Linnean Society, ISSN 0024-4082, E-ISSN 1096-3642, Vol. 183, no 1, p. 208-225Article in journal (Refereed)
  • 24.
    Dussex, Nicolas
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    von Seth, Johanna
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Knapp, Michael
    Kardailsky, Olga
    Robertson, Bruce C.
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Complete genomes of two extinct New Zealand passerines show responses to climate fluctuations but no evidence for genomic erosion prior to extinction2019In: Biology Letters, ISSN 1744-9561, E-ISSN 1744-957X, Vol. 15, no 9, article id 20190491Article in journal (Refereed)
    Abstract [en]

    Human intervention, pre-human climate change (or a combination of both), as well as genetic effects, contribute to species extinctions. While many species from oceanic islands have gone extinct due to direct human impacts, the effects of pre-human climate change and human settlement on the genomic diversity of insular species and the role that loss of genomic diversity played in their extinctions remains largely unexplored. To address this question, we sequenced whole genomes of two extinct New Zealand passerines, the huia (Heteralocha acutirostris) and South Island kokako (Callaeas cinereus). Both species showed similar demographic trajectories throughout the Pleistocene. However, the South Island kokako continued to decline after the last glaciation, while the huia experienced some recovery. Moreover, there was no indication of inbreeding resulting from recent mating among closely related individuals in either species. This latter result indicates that population fragmentation associated with forest clearing by Maori may not have been strong enough to lead to an increase in inbreeding and exposure to genomic erosion. While genomic erosion may not have directly contributed to their extinctions, further habitat fragmentation and the introduction of mammalian predators by Europeans may have been an important driver of extinction in huia and South Island kokako.

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  • 25. Elmhagen, Bodil
    et al.
    Destouni, Georgia
    Angerbjorn, Anders
    Borgstrom, Sara
    Boyd, Emily
    Cousins, Sara A. O.
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Ehrlen, Johan
    Ermold, Matti
    Hamback, Peter A.
    Hedlund, Johanna
    Hylander, Kristoffer
    Jaramillo, Fernando
    Lagerholm, Vendela K.
    Lyon, Steve W.
    Moor, Helen
    Nykvist, Bjorn
    Pasanen-Mortensen, Marianne
    Plue, Jan
    Prieto, Carmen
    van der Velde, Ype
    Lindborg, Regina
    Interacting effects of change in climate, human population, land use, and water use on biodiversity and ecosystem services2015In: Ecology & society, ISSN 1708-3087, E-ISSN 1708-3087, Vol. 20, no 1, article id UNSP 23Article in journal (Refereed)
  • 26.
    Ersmark, Erik
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Baryshnikov, Gennady
    Higham, Thomas
    Argant, Alain
    Castanos, Pedro
    Doeppes, Doris
    Gasparik, Mihaly
    Germonpre, Mietje
    Liden, Kerstin
    Lipecki, Grzegorz
    Marciszak, Adrian
    Miller, Rebecca
    Moreno-Garcia, Marta
    Pacher, Martina
    Robu, Marius
    Rodriguez-Varela, Ricardo
    Rojo Guerra, Manuel
    Sabol, Martin
    Spassov, Nikolai
    Stora, Jan
    Valdiosera, Christina
    Villaluenga, Aritza
    Stewart, John R.
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Genetic turnovers and northern survival during the last glacial maximum in European brown bears2019In: Ecology and Evolution, ISSN 2045-7758, E-ISSN 2045-7758, Vol. 9, no 10, p. 5891-5905Article in journal (Refereed)
    Abstract [en]

    The current phylogeographic pattern of European brown bears (Ursus arctos) has commonly been explained by postglacial recolonization out of geographically distinct refugia in southern Europe, a pattern well in accordance with the expansion/contraction model. Studies of ancient DNA from brown bear remains have questioned this pattern, but have failed to explain the glacial distribution of mitochondrial brown bear clades and their subsequent expansion across the European continent. We here present 136 new mitochondrial sequences generated from 346 remains from Europe, ranging in age between the Late Pleistocene and historical times. The genetic data show a high Late Pleistocene diversity across the continent and challenge the strict confinement of bears to traditional southern refugia during the last glacial maximum (LGM). The mitochondrial data further suggest a genetic turnover just before this time, as well as a steep demographic decline starting in the mid-Holocene. Levels of stable nitrogen isotopes from the remains confirm a previously proposed shift toward increasing herbivory around the LGM in Europe. Overall, these results suggest that in addition to climate, anthropogenic impact and inter-specific competition may have had more important effects on the brown bear's ecology, demography, and genetic structure than previously thought.

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  • 27.
    Ersmark, Erik
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Orlando, Ludovic
    Sandoval-Castellanos, Edson
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Barnes, Ian
    Barnett, Ross
    Stuart, Anthony
    Lister, Adrian
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Population Demography and Genetic Diversity in the Pleistocene Cave Lion2015In: Open Quaternary, Vol. 1, no 4, p. 1-14Article in journal (Refereed)
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  • 28. Geffen, Eli
    et al.
    Kam, Michael
    Hefner, Reuven
    Hersteinsson, Pall
    Angerbjorn, Anders
    Dalen, Love
    Fuglei, Eva
    Noren, Karin
    Adams, Jennifer R.
    Vucetich, John
    Meier, Thomas J.
    Mech, L. D.
    vonHoldt, Bridgett M.
    Stahler, Daniel R.
    Wayne, Robert K.
    Kin encounter rate and inbreeding avoidance in canids2011In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 20, no 24, p. 5348-5358Article in journal (Refereed)
  • 29. Geffen, Eli
    et al.
    Waidyaratne, Sitara
    Dalen, Love
    Angerbjoern, Anders
    Vila, Carles
    Hersteinsson, Pall
    Fuglei, Eva
    White, Paula A.
    Goltsman, Michael
    Kapel, Christian M. O.
    Wayne, Robert K.
    Sea ice occurrence predicts genetic isolation in the Arctic fox2007In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 16, no 20, p. 4241-4255Article in journal (Refereed)
  • 30. Gilbert, M Thomas P
    et al.
    Drautz, Daniela I
    Lesk, Arthur M
    Ho, Simon Y W
    Qi, Ji
    Ratan, Aakrosh
    Hsu, Chih-Hao
    Sher, Andrei
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Götherström, Anders
    Tomsho, Lynn P
    Rendulic, Snjezana
    Packard, Michael
    Campos, Paula F
    Kuznetsova, Tatyana V
    Shidlovskiy, Fyodor
    Tikhonov, Alexei
    Willerslev, Eske
    Iacumin, Paola
    Buigues, Bernard
    Ericson, Per G P
    Swedish Museum of Natural History, Research Division.
    Germonpré, Mietje
    Kosintsev, Pavel
    Nikolaev, Vladimir
    Nowak-Kemp, Malgosia
    Knight, James R
    Irzyk, Gerard P
    Perbost, Clotilde S
    Fredrikson, Karin M
    Harkins, Timothy T
    Sheridan, Sharon
    Miller, Webb
    Schuster, Stephan C
    Intraspecific phylogenetic analysis of Siberian woolly mammoths using complete mitochondrial genomes.2008In: Proceedings of the National Academy of Sciences of the United States of America, ISSN 0027-8424, E-ISSN 1091-6490, Vol. 105, no 24, p. 8327-32Article in journal (Refereed)
    Abstract [en]

    We report five new complete mitochondrial DNA (mtDNA) genomes of Siberian woolly mammoth (Mammuthus primigenius), sequenced with up to 73-fold coverage from DNA extracted from hair shaft material. Three of the sequences present the first complete mtDNA genomes of mammoth clade II. Analysis of these and 13 recently published mtDNA genomes demonstrates the existence of two apparently sympatric mtDNA clades that exhibit high interclade divergence. The analytical power afforded by the analysis of the complete mtDNA genomes reveals a surprisingly ancient coalescence age of the two clades, approximately 1-2 million years, depending on the calibration technique. Furthermore, statistical analysis of the temporal distribution of the (14)C ages of these and previously identified members of the two mammoth clades suggests that clade II went extinct before clade I. Modeling of protein structures failed to indicate any important functional difference between genomes belonging to the two clades, suggesting that the loss of clade II more likely is due to genetic drift than a selective sweep.

  • 31. Gilbert, M Thomas P
    et al.
    Tomsho, Lynn P
    Rendulic, Snjezana
    Packard, Michael
    Drautz, Daniela I
    Sher, Andrei
    Tikhonov, Alexei
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Kuznetsova, Tatyana
    Kosintsev, Pavel
    Campos, Paula F
    Higham, Thomas
    Collins, Matthew J
    Wilson, Andrew S
    Shidlovskiy, Fyodor
    Buigues, Bernard
    Ericson, Per G P
    Swedish Museum of Natural History, Research Division.
    Germonpré, Mietje
    Götherström, Anders
    Iacumin, Paola
    Nikolaev, Vladimir
    Nowak-Kemp, Malgosia
    Willerslev, Eske
    Knight, James R
    Irzyk, Gerard P
    Perbost, Clotilde S
    Fredrikson, Karin M
    Harkins, Timothy T
    Sheridan, Sharon
    Miller, Webb
    Schuster, Stephan C
    Whole-genome shotgun sequencing of mitochondria from ancient hair shafts.2007In: Science, ISSN 0036-8075, E-ISSN 1095-9203, Vol. 317, no 5846, p. 1927-30Article in journal (Refereed)
    Abstract [en]

    Although the application of sequencing-by-synthesis techniques to DNA extracted from bones has revolutionized the study of ancient DNA, it has been plagued by large fractions of contaminating environmental DNA. The genetic analyses of hair shafts could be a solution: We present 10 previously unexamined Siberian mammoth (Mammuthus primigenius) mitochondrial genomes, sequenced with up to 48-fold coverage. The observed levels of damage-derived sequencing errors were lower than those observed in previously published frozen bone samples, even though one of the specimens was >50,000 14C years old and another had been stored for 200 years at room temperature. The method therefore sets the stage for molecular-genetic analysis of museum collections.

  • 32.
    Gopalakrishnan, Shyam
    et al.
    Centre for GeoGenetics, Natural History Museum of Denmark University of Copenhagen.
    Samaniego Castruita, Jose A.
    Centre for GeoGenetics, Natural History Museum of Denmark University of Copenhagen.
    Sinding, Mikkel-Holger S.
    Centre for GeoGenetics, Natural History Museum of Denmark University of Copenhagen.
    Kuderna, Lukas F. K.
    Institute of Evolutionary Biology (UPF-CSIC), PRBB Dr. CNAG-CRG, Centre for Genomic Regulation (CRG) Barcelona Institute of Science and Technology (BIST) .
    Räikkönen, Jannikke
    Swedish Museum of Natural History, Department of Environmental research and monitoring.
    Petersen, Bent
    Department of Bio and Health Informatics Technical University of Denmark .
    Sicheritz-Ponten, Thomas
    Department of Bio and Health Informatics Technical University of Denmark .
    Larson, Greger
    Palaeogenomics & Bio-Archaeology Research Network, Research Laboratory for Archaeology and the History of Art University of Oxford .
    Orlando, Ludovic
    Centre for GeoGenetics, Natural History Museum of Denmark University of Copenhagen.
    Marques-Bonet, Tomas
    Institute of Evolutionary Biology (UPF-CSIC), PRBB Dr. CNAG-CRG, Centre for Genomic Regulation (CRG) Barcelona Institute of Science and Technology (BIST) Catalan Institution of Research and Advanced Studies (ICREA).
    Hansen, Anders J.
    Centre for GeoGenetics, Natural History Museum of Denmark University of Copenhagen.
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Gilbert, M. Thomas P.
    Centre for GeoGenetics, Natural History Museum of Denmark University of CopenhagenTrace and Environmental DNA Laboratory, Department of Environment and Agriculture Curtin University, NTNU University Museum, Norwegian University of Science and Technology.
    The wolf reference genome sequence (Canis lupus lupus) and its implications for Canis spp. population genomics2017In: BMC Genomics, ISSN 1471-2164, E-ISSN 1471-2164, Vol. 18, no 495, p. 1-11Article in journal (Refereed)
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  • 33. Haddad, Nizar Jamal
    et al.
    Al-Nakeeb, Kosai
    Petersen, Bent
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Blom, Nikolaj
    Sicheritz-Ponten, Thomas
    Complete mitochondrial genome of the Oriental Hornet, Vespa orientalis F. (Hymenoptera: Vespidae)2017In: MITOCHONDRIAL DNA PART B-RESOURCES, ISSN 2380-2359, Vol. 2, p. 139-140Article in journal (Refereed)
  • 34. Hambäck, Peter A.
    et al.
    Weingartner, Elisabeth
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Wirta, Helena
    Roslin, Tomas
    Spatial subsidies in spider diets vary with shoreline structure: Complementary evidence from molecular diet analysis and stable isotopes2016In: Ecology and Evolution, ISSN 2045-7758, E-ISSN 2045-7758, Vol. 6, no 23, p. 8431-8439Article in journal (Refereed)
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  • 35. Herfindal, Ivar
    et al.
    Linnell, John D. C.
    Elmhagen, Bodil
    Andersen, Roy
    Eide, Nina E.
    Frafjord, Karl
    Henttonen, Heikki
    Kaikusalo, Asko
    Mela, Matti
    Tannerfeldt, Magnus
    Dalen, Love
    Strand, Olav
    Landa, Arild
    Angerbjorn, Anders
    Population persistence in a landscape context: the case of endangered arctic fox populations in Fennoscandia2010In: Ecography, ISSN 0906-7590, E-ISSN 1600-0587, Vol. 33, no 5, p. 932-941Article in journal (Refereed)
  • 36.
    Irestedt, Martin
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Fjeldså, Jon
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Ericson, Per G P
    Swedish Museum of Natural History, Research Division.
    Convergent evolution, habitat shifts and variable diversification rates in the ovenbird-woodcreeper family (Furnariidae).2009In: BMC evolutionary biology, ISSN 1471-2148, Vol. 9, p. 268-Article in journal (Refereed)
    Abstract [en]

    BACKGROUND: The Neotropical ovenbird-woodcreeper family (Furnariidae) is an avian group characterized by exceptionally diverse ecomorphological adaptations. For instance, members of the family are known to construct nests of a remarkable variety. This offers a unique opportunity to examine whether changes in nest design, accompanied by expansions into new habitats, facilitates diversification. We present a multi-gene phylogeny and age estimates for the ovenbird-woodcreeper family and use these results to estimate the degree of convergent evolution in both phenotype and habitat utilisation. Furthermore, we discuss whether variation in species richness among ovenbird clades could be explained by differences in clade-specific diversification rates, and whether these rates differ among lineages with different nesting habits. In addition, the systematic positions of some enigmatic ovenbird taxa and the postulated monophyly of some species-rich genera are evaluated.

    RESULTS: The phylogenetic results reveal new examples of convergent evolution and show that ovenbirds have independently colonized open habitats at least six times. The calculated age estimates suggest that the ovenbird-woodcreeper family started to diverge at ca 33 Mya, and that the timing of habitat shifts into open environments may be correlated with the aridification of South America during the last 15 My. The results also show that observed large differences in species richness among clades can be explained by a substantial variation in net diversification rates. The synallaxines, which generally are adapted to dry habitats and build exposed vegetative nests, had the highest diversification rate of all major furnariid clades.

    CONCLUSION: Several key features may have played an important role for the radiation and evolution of convergent phenotypes in the ovenbird-woodcreeper family. Our results suggest that changes in nest building strategy and adaptation to novel habitats may have played an important role in a diversification that included multiple radiations into more open and bushy environments. The synallaxines were found to have had a particularly high diversification rate, which may be explained by their ability to build exposed vegetative nests and thus to expand into a variety of novel habitats that emerged during a period of cooling and aridification in South America.

  • 37. Kodandaramaiah, U.
    et al.
    Weingartner, E.
    Janz, N.
    Dalen, L.
    Nylin, S.
    Population structure in relation to host-plant ecology and Wolbachia infestation in the comma butterfly2011In: Journal of Evolutionary Biology, ISSN 1010-061X, E-ISSN 1420-9101, Vol. 24, no 10, p. 2173-2185Article in journal (Refereed)
  • 38. Koren, Lee
    et al.
    Matas, Devorah
    Pecnerova, Patricia
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Tikhonov, Alexei
    Gilbert, M. Thomas P.
    Wynne-Edwards, Katherine E.
    Geffen, Eli
    Testosterone in ancient hair from an extinct species2018In: Palaeontology, ISSN 0031-0239, E-ISSN 1475-4983, Vol. 61, no 6, p. 797-802Article in journal (Refereed)
  • 39. Krzewinska, Maja
    et al.
    Kilinc, Gulsah Merve
    Juras, Anna
    Koptekin, Dilek
    Chylenski, Maciej
    Nikitin, Alexey G.
    Shcherbakov, Nikolai
    Shuteleva, Iia
    Leonova, Tatiana
    Kraeva, Liudmila
    Sungatov, Flarit A.
    Sultanova, Alfija N.
    Potekhina, Inna
    Lukasik, Sylwia
    Krenz-Niedbala, Marta
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Sinika, Vitaly
    Jakobsson, Mattias
    Stora, Jan
    Gotherstrom, Anders
    Ancient genomes suggest the eastern Pontic-Caspian steppe as the source of western Iron Age nomads2018In: Science Advances, E-ISSN 2375-2548, Vol. 4, no 10, article id eaat4457Article in journal (Refereed)
  • 40. Lado, Sara
    et al.
    Farelo, Liliana
    Forest, Vianney
    Acevedo, Pelayo
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Melo-Ferreira, Jose
    Post-glacial range revolutions in South European hares (Lepus spp.): Insights from ancient DNA and ecological niche modelling2018In: Journal of Biogeography, ISSN 0305-0270, E-ISSN 1365-2699, Vol. 45, no 12, p. 2609-2618Article in journal (Refereed)
  • 41.
    Lagerholm, Vendela K.
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Noren, Karin
    Ehrich, Dorothee
    Ims, Rolf A.
    Killengreen, Siw T.
    Abramson, Natalia I.
    Niemimaa, Jukka
    Angerbjorn, Anders
    Henttonen, Heikki
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Run to the hills: gene flow among mountain areas leads to low genetic differentiation in the Norwegian lemming2017In: Biological Journal of the Linnean Society, ISSN 0024-4066, E-ISSN 1095-8312, Vol. 121, no 1, p. 1-14Article in journal (Refereed)
  • 42.
    Lagerholm, Vendela K.
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Sandoval-Castellanos, Edson
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Vaniscotte, Amelie
    Potapova, Olga R.
    Tomek, Teresa
    Bochenski, Zbigniew M.
    Shepherd, Paul
    Barton, Nick
    Van Dyck, Marie-Claire
    Miller, Rebecca
    Hoglund, Jacob
    Yoccoz, Nigel G.
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Stewart, John R.
    Range shifts or extinction?: Ancient DNA and distribution modelling reveal past and future responses to climate warming in cold-adapted birds2017In: Global Change Biology, ISSN 1354-1013, E-ISSN 1365-2486, Vol. 23, no 4, p. 1425-1435Article in journal (Refereed)
  • 43.
    Lagerholm, Vendela
    et al.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Sandoval-Castellanos, E.
    Ehrich, D.
    Abramson, N.
    Nadachowski, A.
    Kalthoff, Daniela C.
    Swedish Museum of Natural History, Department of Zoology.
    Germonpré, M.
    Angerbjörn, A.
    Stewart, J.
    Dalén, L.
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    On the Origin of the Norwegian Lemming2014In: Molecular Ecology, ISSN 0962-1083, E-ISSN 1365-294X, Vol. 23, no 8, p. 2060-2071Article in journal (Refereed)
  • 44. Lindenfors, P
    et al.
    Dalen, L
    Angerbjorn, A
    The monophyletic origin of delayed implantation in carnivores and its implications2003In: Evolution, ISSN 0014-3820, E-ISSN 1558-5646, Vol. 57, no 8, p. 1952-1956Article in journal (Refereed)
  • 45. Liu, Shiping
    et al.
    Lorenzen, Eline D.
    Fumagalli, Matteo
    Li, Bo
    Harris, Kelley
    Xiong, Zijun
    Zhou, Long
    Korneliussen, Thorfinn Sand
    Somel, Mehmet
    Babbitt, Courtney
    Wray, Greg
    Li, Jianwen
    He, Weiming
    Wang, Zhuo
    Fu, Wenjing
    Xiang, Xueyan
    Morgan, Claire C.
    Doherty, Aoife
    O’Connell, Mary J.
    McInerney, James O.
    Born, Erik W.
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Dietz, Rune
    Orlando, Ludovic
    Sonne, Christian
    Zhang, Guojie
    Nielsen, Rasmus
    Willerslev, Eske
    Wang, Jun
    Population Genomics Reveal Recent Speciation and Rapid Evolutionary Adaptation in Polar Bears2014In: Cell, ISSN 0092-8674, E-ISSN 1097-4172, Vol. 157, no 4, p. 785-794Article in journal (Refereed)
    Abstract [en]

    Polar bears are uniquely adapted to life in the High Arctic and have undergone drastic physiological changes in response to Arctic climates and a hyper-lipid diet of primarily marine mammal prey. We analyzed 89 complete genomes of polar bear and brown bear using population genomic modeling and show that the species diverged only 479-343 thousand years BP. We find that genes on the polar bear lineage have been under stronger positive selection than in brown bears; nine of the top 16 genes under strong positive selection are associated with cardiomyopathy and vascular disease, implying important reorganization of the cardiovascular system. One of the genes showing the strongest evidence of selection, APOB, encodes the primary lipoprotein component of low-density lipoprotein (LDL); functional mutations in APOB may explain how polar bears are able to cope with life-long elevated LDL levels that are associated with high risk of heart disease in humans.

  • 46. Malmstrom, H
    et al.
    Stora, J
    Dalen, L
    Holmlund, G
    Gotherstrom, A
    Extensive human DNA contamination in extracts from ancient dog bones and teeth2005In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 22, no 10, p. 2040-2047Article in journal (Refereed)
  • 47. Meijer, T.
    et al.
    Noren, K.
    Hellstrom, P.
    Dalen, L.
    Angerbjorn, A.
    Estimating population parameters in a threatened arctic fox population using molecular tracking and traditional field methods2008In: Animal Conservation, ISSN 1367-9430, E-ISSN 1469-1795, Vol. 11, no 4, p. 330-338Article in journal (Refereed)
  • 48. Mellows, Andrew
    et al.
    Barnett, Ross
    Dalen, Love
    Sandoval-Castellanos, Edson
    Linderholm, Anna
    McGovern, Thomas H.
    Church, Mike J.
    Larson, Greger
    The impact of past climate change on genetic variation and population connectivity in the Icelandic arctic fox2012In: Proceedings of the Royal Society of London. Biological Sciences, ISSN 0962-8452, E-ISSN 1471-2954, Vol. 279, no 1747, p. 4568-4573Article in journal (Refereed)
  • 49. Miller, Webb
    et al.
    Drautz, Daniela I
    Janecka, Jan E
    Lesk, Arthur M
    Ratan, Aakrosh
    Tomsho, Lynn P
    Packard, Mike
    Zhang, Yeting
    McClellan, Lindsay R
    Qi, Ji
    Zhao, Fangqing
    Gilbert, M Thomas P
    Dalén, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Arsuaga, Juan Luis
    Ericson, Per G P
    Swedish Museum of Natural History, Research Division.
    Huson, Daniel H
    Helgen, Kristofer M
    Murphy, William J
    Götherström, Anders
    Schuster, Stephan C
    The mitochondrial genome sequence of the Tasmanian tiger (Thylacinus cynocephalus).2009In: Genome Research, ISSN 1088-9051, E-ISSN 1549-5469, Vol. 19, no 2, p. 213-20Article in journal (Refereed)
    Abstract [en]

    We report the first two complete mitochondrial genome sequences of the thylacine (Thylacinus cynocephalus), or so-called Tasmanian tiger, extinct since 1936. The thylacine's phylogenetic position within australidelphian marsupials has long been debated, and here we provide strong support for the thylacine's basal position in Dasyuromorphia, aided by mitochondrial genome sequence that we generated from the extant numbat (Myrmecobius fasciatus). Surprisingly, both of our thylacine sequences differ by 11%-15% from putative thylacine mitochondrial genes in GenBank, with one of our samples originating from a direct offspring of the previously sequenced individual. Our data sample each mitochondrial nucleotide an average of 50 times, thereby providing the first high-fidelity reference sequence for thylacine population genetics. Our two sequences differ in only five nucleotides out of 15,452, hinting at a very low genetic diversity shortly before extinction. Despite the samples' heavy contamination with bacterial and human DNA and their temperate storage history, we estimate that as much as one-third of the total DNA in each sample is from the thylacine. The microbial content of the two thylacine samples was subjected to metagenomic analysis, and showed striking differences between a wild-captured individual and a born-in-captivity one. This study therefore adds to the growing evidence that extensive sequencing of museum collections is both feasible and desirable, and can yield complete genomes.

  • 50. Naud, Lucy
    et al.
    Masviken, Johannes
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Freire, Susana
    Angerbjorn, Anders
    Dalen, Love
    Swedish Museum of Natural History, Department of Bioinformatics and Genetics.
    Dalerum, Fredrik
    Altitude effects on spatial components of vascular plant diversity in a subarctic mountain tundra2019In: Ecology and Evolution, ISSN 2045-7758, E-ISSN 2045-7758, Vol. 9, no 8, p. 4783-4795Article in journal (Refereed)
    Abstract [en]

    Environmental gradients are caused by gradual changes in abiotic factors, which affect species abundances and distributions, and are important for the spatial distribution of biodiversity. One prominent environmental gradient is the altitude gradient. Understanding ecological processes associated with altitude gradients may help us to understand the possible effects climate change could have on species communities. We quantified vegetation cover, species richness, species evenness, beta diversity, and spatial patterns of community structure of vascular plants along altitude gradients in a subarctic mountain tundra in northern Sweden. Vascular plant cover and plant species richness showed unimodal relationships with altitude. However, species evenness did not change with altitude, suggesting that no individual species became dominant when species richness declined. Beta diversity also showed a unimodal relationship with altitude, but only for an intermediate spatial scale of 1km. A lack of relationships with altitude for either patch or landscape scales suggests that any altitude effects on plant spatial heterogeneity occurred on scales larger than individual patches but were not effective across the whole landscape. We observed both nested and modular patterns of community structures, but only the modular patterns corresponded with altitude. Our observations point to biotic regulations of plant communities at high altitudes, but we found both scale dependencies and inconsistent magnitude of the effects of altitude on different diversity components. We urge for further studies evaluating how different factors influence plant communities in high altitude and high latitude environments, as well as studies identifying scale and context dependencies in any such influences.

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