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Sökning: onr:"swepub:oai:DiVA.org:uu-487199" > Evolution of the an...

  • Damas, JoanaThe Genome Center, University of California, Davis, CA 95616 (författare)

Evolution of the ancestral mammalian karyotype and syntenic regions

  • Artikel/kapitelEngelska2022

Förlag, utgivningsår, omfång ...

  • 2022-09-26
  • Proceedings of the National Academy of Sciences (PNAS),2022
  • electronicrdacarrier

Nummerbeteckningar

  • LIBRIS-ID:oai:DiVA.org:uu-487199
  • https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-487199URI
  • https://doi.org/10.1073/pnas.2209139119DOI

Kompletterande språkuppgifter

  • Språk:engelska
  • Sammanfattning på:engelska

Ingår i deldatabas

Klassifikation

  • Ämneskategori:ref swepub-contenttype
  • Ämneskategori:art swepub-publicationtype

Anmärkningar

  • Decrypting the rearrangements that drive mammalian chromosome evolution is critical to understanding the molecular bases of speciation, adaptation, and disease susceptibility. Using 8 scaffolded and 26 chromosome-scale genome assemblies representing 23/26 mammal orders, we computationally reconstructed ancestral karyotypes and syntenic relationships at 16 nodes along the mammalian phylogeny. Three different reference genomes (human, sloth, and cattle) representing phylogenetically distinct mammalian superorders were used to assess reference bias in the reconstructed ancestral karyotypes and to expand the number of clades with reconstructed genomes. The mammalian ancestor likely had 19 pairs of autosomes, with nine of the smallest chromosomes shared with the common ancestor of all amniotes (three still conserved in extant mammals), demonstrating a striking conservation of synteny for similar to 320My of vertebrate evolution. The numbers and types of chromosome rearrangements were classified for transitions between the ancestral mammalian karyotype, descendent ancestors, and extant species. For example, 94 inversions, 16 fissions, and 14 fusions that occurred over 53 My differentiated the therian from the descendent eutherian ancestor. The highest breakpoint rate was observed between the mammalian and therian ancestors (3.9 breakpoints/My). Reconstructed mammalian ancestor chromosomes were found to have distinct evolutionary histories reflected in their rates and types of rearrangements. The distributions of genes, repetitive elements, topologically associating domains, and actively transcribed regions in multispecies homologous synteny blocks and evolutionary breakpoint regions indicate that purifying selection acted over millions of years of vertebrate evolution to maintain syntenic relationships of developmentally important genes and regulatory landscapes of gene-dense chromosomes.

Ämnesord och genrebeteckningar

Biuppslag (personer, institutioner, konferenser, titlar ...)

  • Corbo, MarcoThe Genome Center, University of California, Davis, CA 95616 (författare)
  • Kim, JaebumDepartment of Biomedical Science and Engineering, Konkuk University, Seoul 05029, South Korea (författare)
  • Turner-Maier, JasonBroad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142 (författare)
  • Farré, MartaSchool of Biosciences, University of Kent, Canterbury CT2 7NJ, United Kingdom (författare)
  • Larkin, Denis M.The Royal Veterinary College, University of London, London NW1 0TU, United Kingdom (författare)
  • Ryder, Oliver A.Conservation Genetics, San Diego Zoo Wildlife Alliance, Escondido, CA 92027;Department of Evolution, Behavior, and Ecology, Division of Biology, University of California San Diego, La Jolla, CA 92093 (författare)
  • Steiner, CynthiaConservation Science Wildlife Health, San Diego Zoo Wildlife Alliance, Escondido, CA 92027 (författare)
  • Houck, Marlys L.Beckman Center for Conservation Research, San Diego Zoo Wildlife Alliance, Escondido, CA 92027 (författare)
  • Hall, ShauneDovetail Genomics, LLC, Scotts Valley, CA 95066 (författare)
  • Shiue, LilyDovetail Genomics, LLC, Scotts Valley, CA 95066 (författare)
  • Thomas, StephenDovetail Genomics, LLC, Scotts Valley, CA 95066 (författare)
  • Swale, ThomasDovetail Genomics, LLC, Scotts Valley, CA 95066 (författare)
  • Daly, MarkDovetail Genomics, LLC, Scotts Valley, CA 95066 (författare)
  • Korlach, JonasPacific Biosciences, Menlo Park, CA 94025 (författare)
  • Uliano-Silva, MarcelaWellcome Sanger Institute, Cambridgeshire CB10 1SA, United Kingdom;Berlin Center for Genomics in Biodiversity Research, D-14195 Berlin, Germany;Evolutionary Genetics Department, Leibniz Institut für Zoo- und Wildtierforschung, 10315 Berlin, Germany (författare)
  • Mazzoni, Camila J.Berlin Center for Genomics in Biodiversity Research, D-14195 Berlin, Germany;Evolutionary Genetics Department, Leibniz Institut für Zoo- und Wildtierforschung, 10315 Berlin, Germany (författare)
  • Birren, Bruce W.Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142 (författare)
  • Genereux, Diane P.Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142 (författare)
  • Johnson, JeremyBroad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142 (författare)
  • Lindblad-Toh, KerstinUppsala universitet,Institutionen för medicinsk biokemi och mikrobiologi,Science for Life Laboratory, SciLifeLab,Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142.(Swepub:uu)kerli865 (författare)
  • Karlsson, Elinor K.Broad Institute of Massachusetts Institute of Technology and Harvard, Cambridge, MA 02142;Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, MA 01655;Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, MA 01655 (författare)
  • Nweeia, Martin T.Department of Restorative Dentistry and Biomaterials Sciences, Harvard School of Dental Medicine, Boston, MA 02115;Department of Comprehensive Care, Case Western Reserve University School of Dental Medicine, Cleveland, OH 44106;Marine Mammal Program, Department of Vertebrate Zoology, Smithsonian Institution, Washington, DC 20002 (författare)
  • Johnson, Rebecca N.Australian Museum Research Institute, Australian Museum, Sydney, NSW 2010, Australia;School of Life and Environmental Sciences, Faculty of Science, University of Sydney, Sydney, NSW 2006, Australia (författare)
  • Lewin, Harris A.The Genome Center, University of California, Davis, CA 95616;Department of Evolution and Ecology, University of California, Davis, CA 95616;John Muir Institute for the Environment, University of California, Davis, CA 95616 (författare)
  • The Genome Center, University of California, Davis, CA 95616Department of Biomedical Science and Engineering, Konkuk University, Seoul 05029, South Korea (creator_code:org_t)

Sammanhörande titlar

  • Ingår i:Proceedings of the National Academy of Sciences of the United States of America: Proceedings of the National Academy of Sciences (PNAS)119:400027-84241091-6490

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