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Population genomics...
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Dussex, NicolasStockholms universitet,Naturhistoriska riksmuseet,Enheten för bioinformatik och genetik,Zoologiska institutionen,Centre for Palaeogenetics, Sweden; Swedish Museum of Natural History, Sweden; University of Otago, New Zealand,Ctr Palaeogenet, Svante Arrhenius vag 20C, S-10691 Stockholm, Sweden.;Swedish Museum Nat Hist, Dept Bioinformat & Genet, Box 50007, SE-10405 Stockholm, Sweden.;Stockholm Univ, Dept Zool, S-10691 Stockholm, Sweden.;Univ Otago, Dept Anat, POB 913, Dunedin 9016, New Zealand.
(author)
Population genomics of the critically endangered kākāpō
- Article/chapterEnglish2021
Publisher, publication year, extent ...
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Elsevier BV,2021
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electronicrdacarrier
Numbers
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LIBRIS-ID:oai:DiVA.org:nrm-4690
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https://urn.kb.se/resolve?urn=urn:nbn:se:nrm:diva-4690URI
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https://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-210367URI
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https://doi.org/10.1016/j.xgen.2021.100002DOI
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https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-523339URI
Supplementary language notes
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Language:English
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Summary in:English
Part of subdatabase
Classification
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Subject category:ref swepub-contenttype
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Subject category:art swepub-publicationtype
Notes
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Summary The kākāpō is a flightless parrot endemic to New Zealand. Once common in the archipelago, only 201 individuals remain today, most of them descending from an isolated island population. We report the first genome-wide analyses of the species, including a high-quality genome assembly for kākāpō, one of the first chromosome-level reference genomes sequenced by the Vertebrate Genomes Project (VGP). We also sequenced and analyzed 35 modern genomes from the sole surviving island population and 14 genomes from the extinct mainland population. While theory suggests that such a small population is likely to have accumulated deleterious mutations through genetic drift, our analyses on the impact of the long-term small population size in kākāpō indicate that present-day island kākāpō have a reduced number of harmful mutations compared to mainland individuals. We hypothesize that this reduced mutational load is due to the island population having been subjected to a combination of genetic drift and purging of deleterious mutations, through increased inbreeding and purifying selection, since its isolation from the mainland ∼10,000 years ago. Our results provide evidence that small populations can survive even when isolated for hundreds of generations. This work provides key insights into kākāpō breeding and recovery and more generally into the application of genetic tools in conservation efforts for endangered species.
Subject headings and genre
Added entries (persons, corporate bodies, meetings, titles ...)
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van der Valk, TomNaturhistoriska riksmuseet,Enheten för bioinformatik och genetik,Ctr Palaeogenet, Svante Arrhenius vag 20C, S-10691 Stockholm, Sweden.;Swedish Museum Nat Hist, Dept Bioinformat & Genet, Box 50007, SE-10405 Stockholm, Sweden.(Swepub:nrm)tomvande
(author)
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Morales, Hernán E.Univ Copenhagen, GLOBE Inst, Sect Evolutionary Genom, Copenhagen, Denmark.
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Wheat, Christopher W.Stockholms universitet,Zoologiska institutionen,Stockholm Univ, Dept Zool, S-10691 Stockholm, Sweden.(Swepub:su)cwhea
(author)
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Díez-del-Molino, DavidNaturhistoriska riksmuseet,Enheten för bioinformatik och genetik,Ctr Palaeogenet, Svante Arrhenius vag 20C, S-10691 Stockholm, Sweden.;Swedish Museum Nat Hist, Dept Bioinformat & Genet, Box 50007, SE-10405 Stockholm, Sweden.(Swepub:nrm)davidiez
(author)
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von Seth, JohannaStockholms universitet,Naturhistoriska riksmuseet,Enheten för bioinformatik och genetik,Zoologiska institutionen,Centre for Palaeogenetics, Sweden; Swedish Museum of Natural History, Sweden,Ctr Palaeogenet, Svante Arrhenius vag 20C, S-10691 Stockholm, Sweden.;Swedish Museum Nat Hist, Dept Bioinformat & Genet, Box 50007, SE-10405 Stockholm, Sweden.;Stockholm Univ, Dept Zool, S-10691 Stockholm, Sweden.(Swepub:su)jony5290
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Foster, YasminUniv Otago, Dept Zool, POB 56, Dunedin 9054, New Zealand.
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Kutschera, Verena E.Stockholm Univ, Dept Biochem & Biophys, Sci Life Lab, Natl Bioinformat Infrastruct Sweden, Box 1031, S-17121 Solna, Sweden.
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Guschanski, Katerina,Dr.1978-Uppsala universitet,Zooekologi,Science for Life Laboratory, SciLifeLab,Univ Edinburgh, Inst Evolutionary Biol, Sch Biol Sci, Edinburgh, Scotland.;Uppsala Univ, Dept Ecol & Genet, Anim Ecol, SE-75236 Uppsala, Sweden.(Swepub:uu)katgu490
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Rhie, ArangNatl Human Genome Res Inst, NIH, Genome Informat Sect Computat & Stat Genom Branch, Bethesda, MD 20892 USA.
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Phillippy, Adam M.Natl Human Genome Res Inst, NIH, Genome Informat Sect Computat & Stat Genom Branch, Bethesda, MD 20892 USA.
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Korlach, JonasPacific Biosci, 1305 OBrien Dr, Menlo Pk, CA 94025 USA.
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Howe, KerstinWellcome Trust Genome Campus, Wellcome Sanger Inst, Hinxton CB10 1SA, England.
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Chow, WilliamWellcome Trust Genome Campus, Wellcome Sanger Inst, Hinxton CB10 1SA, England.
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Pelan, SarahWellcome Trust Genome Campus, Wellcome Sanger Inst, Hinxton CB10 1SA, England.
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Mendes Damas, Joanna D.Univ Calif Davis, Dept Evolut & Ecol, Davis, CA 95616 USA.
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Lewin, Harris A.Univ Calif Davis, Dept Evolut & Ecol, Davis, CA 95616 USA.
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Hastie, Alex R.Bionano Genom, 9540 Towne Ctr Dr, San Diego, CA 92121 USA.
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Formenti, GiulioRockefeller Univ, Vertebrate Genome Lab, New York, NY 10065 USA.;Rockefeller Univ, Lab Neurogenet Language, Box 54, New York, NY 10065 USA.;Howard Hughes Med Inst, Chevy Chase, MD 20815 USA.
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Fedrigo, OlivierRockefeller Univ, Vertebrate Genome Lab, New York, NY 10065 USA.
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Guhlin, JosephUniv Otago, Genom Aotearoa, POB 56, Dunedin 9016, Aotearoa, New Zealand.
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Harrop, Thomas W.R.Univ Otago, Genom Aotearoa, POB 56, Dunedin 9016, Aotearoa, New Zealand.
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Le Lec, Marissa F.Univ Otago, Genom Aotearoa, POB 56, Dunedin 9016, Aotearoa, New Zealand.
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Dearden, Peter K.Univ Otago, Genom Aotearoa, POB 56, Dunedin 9016, Aotearoa, New Zealand.
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Haggerty, LeanneEuropean Bioinformat Inst, European Mol Biol Lab, Wellcome Genome Campus, Cambridge CB10 1SD, England.
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Martin, Fergal J.European Bioinformat Inst, European Mol Biol Lab, Wellcome Genome Campus, Cambridge CB10 1SD, England.
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Kodali, VamsiNatl Ctr Biotechnol Informat, NIH, Natl Lib Med, Bethesda, MD 20894 USA.
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Thibaud-Nissen, FrançoiseNatl Ctr Biotechnol Informat, NIH, Natl Lib Med, Bethesda, MD 20894 USA.
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Iorns, DavidGenet Rescue Fdn, Wellington, New Zealand.
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Knapp, MichaelUniv Otago, Dept Anat, POB 913, Dunedin 9016, New Zealand.
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Gemmell, Neil J.Univ Otago, Dept Anat, POB 913, Dunedin 9016, New Zealand.
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Robertson, FionaUniv Otago, Dept Zool, POB 56, Dunedin 9054, New Zealand.
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Moorhouse, RonDept Conservat, Kakapo Recovery, POB 743, Invercargill 9840, New Zealand.
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Digby, AndrewDept Conservat, Kakapo Recovery, POB 743, Invercargill 9840, New Zealand.
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Eason, DarylDept Conservat, Kakapo Recovery, POB 743, Invercargill 9840, New Zealand.
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Vercoe, DeidreDept Conservat, Kakapo Recovery, POB 743, Invercargill 9840, New Zealand.
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Howard, JasonRockefeller Univ, Vertebrate Genome Lab, New York, NY 10065 USA.;BioSkryb Genom, 701 W Main St, Suite 200, Durham, NC 27701 USA.
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Jarvis, Erich D.Rockefeller Univ, Vertebrate Genome Lab, New York, NY 10065 USA.;Rockefeller Univ, Lab Neurogenet Language, Box 54, New York, NY 10065 USA.;Howard Hughes Med Inst, Chevy Chase, MD 20815 USA.
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Robertson, Bruce C.Univ Otago, Dept Zool, POB 56, Dunedin 9054, New Zealand.
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Dalén, LoveStockholms universitet,Naturhistoriska riksmuseet,Enheten för bioinformatik och genetik,Zoologiska institutionen,Centre for Palaeogenetics, Sweden; Swedish Museum of Natural History, Sweden,Ctr Palaeogenet, Svante Arrhenius vag 20C, S-10691 Stockholm, Sweden.;Swedish Museum Nat Hist, Dept Bioinformat & Genet, Box 50007, SE-10405 Stockholm, Sweden.;Stockholm Univ, Dept Zool, S-10691 Stockholm, Sweden.(Swepub:su)dalen
(author)
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Naturhistoriska riksmuseetEnheten för bioinformatik och genetik
(creator_code:org_t)
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In:Cell Genomics: Elsevier BV1:12666-979X
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Howe, Kerstin
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Mendes Damas, Jo ...
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Lewin, Harris A.
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Hastie, Alex R.
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Formenti, Giulio
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Fedrigo, Olivier
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Dearden, Peter K ...
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Haggerty, Leanne
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Knapp, Michael
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Gemmell, Neil J.
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Robertson, Fiona
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Moorhouse, Ron
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Digby, Andrew
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Eason, Daryl
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